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Conserved domains on  [gi|951016057|ref|XP_014511017|]
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pentatricopeptide repeat-containing protein At5g02860-like [Vigna radiata var. radiata]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN03218 super family cl33664
maturation of RBCL 1; Provisional
 246-741 3.86e-35

maturation of RBCL 1; Provisional


The actual alignment was detected with superfamily member PLN03218:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 143.86  E-value: 3.86e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  246 YNTLIsccRAGSLyEEALDLFEEIKVAG-FTPDVVTYNVLLDVYGKSRRPKEAIEVLKQMELdgflPSVVTYNSLVSAYV 324
Cdd:PLN03218  377 YNRLL---RDGRI-KDCIDLLEDMEKRGlLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFNMLMSVCA 448

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  325 RGGLLEDALELKRKMVEKGIKPDVYTYTTLLSGFVKAGKDELAMDVFGEMRDVGCKPNICTFNALIKMYGDRGkfeEMER 404
Cdd:PLN03218  449 SSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAG---QVAK 525

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  405 VF--------KEIKvckcsPDIVTWNTLLAVFGQNGMDSEVSGVFEEMKRAG--FVPERDTFNTLISAYGRCGSFDQAMS 474
Cdd:PLN03218  526 AFgaygimrsKNVK-----PDRVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKACANAGQVDRAKE 600

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  475 VYKRMLEAGVSPDLSTYNAVLATLARGGLWEQSEKVLTEMKDCGCKPNEATYSSLLHAYANGREVErmnalaeeiysdri 554
Cdd:PLN03218  601 VYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLD-------------- 666

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  555 kthtvllntlvlvnskvdlveqteraflefrkrgilpdittmnamlsiygrknkkgsKANEILNYMYESGLTLSLTTYNS 634
Cdd:PLN03218  667 ---------------------------------------------------------KAFEILQDARKQGIKLGTVSYSS 689

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  635 LMYWYSRTKNFQKSEQILREILDKGIEPDVVSYNVVIYAYCRNRMMEEAKRIFEEMKDPAPAPDVVTYNTFIATYAADSM 714
Cdd:PLN03218  690 LMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDD 769

                         490       500
                  ....*....|....*....|....*..
gi 951016057  715 FVEAIDVVRHMIKQGCRPNQNTYNSIV 741
Cdd:PLN03218  770 ADVGLDLLSQAKEDGIKPNLVMCRCIT 796
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 158-220 8.44e-23

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


:

Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 92.04  E-value: 8.44e-23
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 951016057  158 SLLHDLETDGVEVDVYGYTSLITAYANNRKYRDALKVFGKMKEVGCEPTLITYNAILNVYGKM 220
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGGR 63
PPR_3 super family cl37870
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 579-636 1.93e-04

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


The actual alignment was detected with superfamily member pfam13812:

Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 40.03  E-value: 1.93e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 951016057  579 RAFLEFRKRGILPDITTMNAMLSIYGRkNKKGSKANEILNYMYESGLTLSLTTYNSLM 636
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYAN-VGNLKLALEIFERMKKKGIKPTLDTYNAIL 57
PPR super family cl29710
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 729-757 5.81e-03

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


The actual alignment was detected with superfamily member pfam12854:

Pssm-ID: 421891 [Multi-domain]  Cd Length: 34  Bit Score: 35.01  E-value: 5.81e-03
                          10        20
                  ....*....|....*....|....*....
gi 951016057  729 GCRPNQNTYNSIVDWYCKLNLRDEACNFV 757
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELL 30
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 208-242 6.07e-03

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


:

Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 35.12  E-value: 6.07e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 951016057  208 ITYNAILNVYGKMGVpWTKIIALVQDMKCRGLAPD 242
Cdd:TIGR00756   1 VTYNTLIDGLCKAGR-VEEALELFKEMKERGIEPD 34
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 246-741 3.86e-35

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 143.86  E-value: 3.86e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  246 YNTLIsccRAGSLyEEALDLFEEIKVAG-FTPDVVTYNVLLDVYGKSRRPKEAIEVLKQMELdgflPSVVTYNSLVSAYV 324
Cdd:PLN03218  377 YNRLL---RDGRI-KDCIDLLEDMEKRGlLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFNMLMSVCA 448

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  325 RGGLLEDALELKRKMVEKGIKPDVYTYTTLLSGFVKAGKDELAMDVFGEMRDVGCKPNICTFNALIKMYGDRGkfeEMER 404
Cdd:PLN03218  449 SSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAG---QVAK 525

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  405 VF--------KEIKvckcsPDIVTWNTLLAVFGQNGMDSEVSGVFEEMKRAG--FVPERDTFNTLISAYGRCGSFDQAMS 474
Cdd:PLN03218  526 AFgaygimrsKNVK-----PDRVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKACANAGQVDRAKE 600

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  475 VYKRMLEAGVSPDLSTYNAVLATLARGGLWEQSEKVLTEMKDCGCKPNEATYSSLLHAYANGREVErmnalaeeiysdri 554
Cdd:PLN03218  601 VYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLD-------------- 666

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  555 kthtvllntlvlvnskvdlveqteraflefrkrgilpdittmnamlsiygrknkkgsKANEILNYMYESGLTLSLTTYNS 634
Cdd:PLN03218  667 ---------------------------------------------------------KAFEILQDARKQGIKLGTVSYSS 689

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  635 LMYWYSRTKNFQKSEQILREILDKGIEPDVVSYNVVIYAYCRNRMMEEAKRIFEEMKDPAPAPDVVTYNTFIATYAADSM 714
Cdd:PLN03218  690 LMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDD 769

                         490       500
                  ....*....|....*....|....*..
gi 951016057  715 FVEAIDVVRHMIKQGCRPNQNTYNSIV 741
Cdd:PLN03218  770 ADVGLDLLSQAKEDGIKPNLVMCRCIT 796
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 158-220 8.44e-23

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 92.04  E-value: 8.44e-23
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 951016057  158 SLLHDLETDGVEVDVYGYTSLITAYANNRKYRDALKVFGKMKEVGCEPTLITYNAILNVYGKM 220
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGGR 63
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 335-396 6.58e-22

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 89.72  E-value: 6.58e-22
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 951016057  335 LKRKMVEKGIKPDVYTYTTLLSGFVKAGKDELAMDVFGEMRDVGCKPNICTFNALIKMYGDR 396
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGGR 63
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 259-514 1.70e-09

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 59.36  E-value: 1.70e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 259 YEEALDLFEE-IKVAGFTPDvvTYNVLLDVYGKSRRPKEAIEVLKQ-MELDGFLPSVvtYNSLVSAYVRGGLLEDALELK 336
Cdd:COG2956   24 PDKAIDLLEEaLELDPETVE--AHLALGNLYRRRGEYDRAIRIHQKlLERDPDRAEA--LLELAQDYLKAGLLDRAEELL 99

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 337 RKMVEKGIKpDVYTYTTLLSGFVKAGKDELAMDVFGEMRDVGcKPNICTFNALIKMYGDRGKFEEMERVFKeiKVCKCSP 416
Cdd:COG2956  100 EKLLELDPD-DAEALRLLAEIYEQEGDWEKAIEVLERLLKLG-PENAHAYCELAELYLEQGDYDEAIEALE--KALKLDP 175

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 417 DIVTWNTLLA-VFGQNGMDSEVSGVFEEMKRAGfvPER-DTFNTLISAYGRCGSFDQAMSVYKRMLEAGvsPDLSTYNAV 494
Cdd:COG2956  176 DCARALLLLAeLYLEQGDYEEAIAALERALEQD--PDYlPALPRLAELYEKLGDPEEALELLRKALELD--PSDDLLLAL 251

                        250       260
                 ....*....|....*....|
gi 951016057 495 LATLARGGLWEQSEKVLTEM 514
Cdd:COG2956  252 ADLLERKEGLEAALALLERQ 271
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 314-348 3.64e-08

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 49.76  E-value: 3.64e-08
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 951016057  314 VTYNSLVSAYVRGGLLEDALELKRKMVEKGIKPDV 348
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 175-206 7.90e-06

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 43.21  E-value: 7.90e-06
                          10        20        30
                  ....*....|....*....|....*....|..
gi 951016057  175 YTSLITAYANNRKYRDALKVFGKMKEVGCEPT 206
Cdd:TIGR00756   3 YNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 579-636 1.93e-04

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 40.03  E-value: 1.93e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 951016057  579 RAFLEFRKRGILPDITTMNAMLSIYGRkNKKGSKANEILNYMYESGLTLSLTTYNSLM 636
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYAN-VGNLKLALEIFERMKKKGIKPTLDTYNAIL 57
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 729-757 5.81e-03

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 35.01  E-value: 5.81e-03
                          10        20
                  ....*....|....*....|....*....
gi 951016057  729 GCRPNQNTYNSIVDWYCKLNLRDEACNFV 757
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELL 30
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 208-242 6.07e-03

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 35.12  E-value: 6.07e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 951016057  208 ITYNAILNVYGKMGVpWTKIIALVQDMKCRGLAPD 242
Cdd:TIGR00756   1 VTYNTLIDGLCKAGR-VEEALELFKEMKERGIEPD 34
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 246-741 3.86e-35

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 143.86  E-value: 3.86e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  246 YNTLIsccRAGSLyEEALDLFEEIKVAG-FTPDVVTYNVLLDVYGKSRRPKEAIEVLKQMELdgflPSVVTYNSLVSAYV 324
Cdd:PLN03218  377 YNRLL---RDGRI-KDCIDLLEDMEKRGlLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFNMLMSVCA 448

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  325 RGGLLEDALELKRKMVEKGIKPDVYTYTTLLSGFVKAGKDELAMDVFGEMRDVGCKPNICTFNALIKMYGDRGkfeEMER 404
Cdd:PLN03218  449 SSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAG---QVAK 525

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  405 VF--------KEIKvckcsPDIVTWNTLLAVFGQNGMDSEVSGVFEEMKRAG--FVPERDTFNTLISAYGRCGSFDQAMS 474
Cdd:PLN03218  526 AFgaygimrsKNVK-----PDRVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKACANAGQVDRAKE 600

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  475 VYKRMLEAGVSPDLSTYNAVLATLARGGLWEQSEKVLTEMKDCGCKPNEATYSSLLHAYANGREVErmnalaeeiysdri 554
Cdd:PLN03218  601 VYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLD-------------- 666

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  555 kthtvllntlvlvnskvdlveqteraflefrkrgilpdittmnamlsiygrknkkgsKANEILNYMYESGLTLSLTTYNS 634
Cdd:PLN03218  667 ---------------------------------------------------------KAFEILQDARKQGIKLGTVSYSS 689

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  635 LMYWYSRTKNFQKSEQILREILDKGIEPDVVSYNVVIYAYCRNRMMEEAKRIFEEMKDPAPAPDVVTYNTFIATYAADSM 714
Cdd:PLN03218  690 LMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDD 769

                         490       500
                  ....*....|....*....|....*..
gi 951016057  715 FVEAIDVVRHMIKQGCRPNQNTYNSIV 741
Cdd:PLN03218  770 ADVGLDLLSQAKEDGIKPNLVMCRCIT 796
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 228-671 3.42e-32

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 134.62  E-value: 3.42e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  228 IALVQDMKCRG-LAPDLCTYNTLISCCRAGSLYEEALDLFEEIKvagfTPDVVTYNVLLDVYGKSRRPKEAIEVLKQMEL 306
Cdd:PLN03218  390 IDLLEDMEKRGlLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIR----NPTLSTFNMLMSVCASSQDIDGALRVLRLVQE 465

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  307 DGFLPSVVTYNSLVSAYVRGGLLEDALELKRKMVEKGIKPDVYTYTTLLSGFVKAGKDELAMDVFGEMRDVGCKPNICTF 386
Cdd:PLN03218  466 AGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVF 545

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  387 NALIKMYGDRGKfeeMERVFkeikvckcspDIVTwntllavfgqnGMDSEVSGVfeemkragfVPERDTFNTLISAYGRC 466
Cdd:PLN03218  546 NALISACGQSGA---VDRAF----------DVLA-----------EMKAETHPI---------DPDHITVGALMKACANA 592

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  467 GSFDQAMSVYKRMLEAGVSPDLSTYNAVLATLARGGLWEQSEKVLTEMKDCGCKPNEATYSSLLHAYANGREVERMNALA 546
Cdd:PLN03218  593 GQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEIL 672

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  547 EEIYSDRIKTHTVLLNTLVLVNSKVDLVEQTERAFLEFRKRGILPDITTMNAMLSIYGRKNKKgSKANEILNYMYESGLT 626
Cdd:PLN03218  673 QDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQL-PKALEVLSEMKRLGLC 751

                         410       420       430       440
                  ....*....|....*....|....*....|....*....|....*
gi 951016057  627 LSLTTYNSLMYWYSRTKNFQKSEQILREILDKGIEPDVVSYNVVI 671
Cdd:PLN03218  752 PNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT 796
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 1-562 4.77e-32

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 133.07  E-value: 4.77e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057   1 MAQNVSVPLILPNPPTASPSNTTFPKTLTLTPLLQDLFFNKKPSSSprlyVTTSTHPTPRLSPQAHRILQtlihpsfdSN 80
Cdd:PLN03081   5 LARYQSIRLDEIRDSLSNPRLLHSPRKFSLRGRRTKTPFSSISCSS----VEQGLKPRPRLKPEPIRIEV--------SE 72

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  81 SFHQIFPPLFHQPASSSLSSDIlgiiKALGFNNKFDLALSVFDFIRTRNDLvsllngsviavivtllgktgrashaasll 160
Cdd:PLN03081  73 SKDARLDDTQIRKSGVSLCSQI----EKLVACGRHREALELFEILEAGCPF----------------------------- 119

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 161 hdletdgvEVDVYGYTSLITAYANNRKYRDALKVFGKMKEVGCEPTLITYNAILNVYGKMGVpwtkII---ALVQDMKCR 237
Cdd:PLN03081 120 --------TLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGM----LIdarRLFDEMPER 187

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 238 GLApdlcTYNTLISCCRAGSLYEEALDLFEEIKVAGFTPDVVTYNV---------------------------------- 283
Cdd:PLN03081 188 NLA----SWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVmlrasaglgsaragqqlhccvlktgvvgdtfvsc 263

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 284 -LLDVYGKSRRPKEAIEVLKQMeldgflP--SVVTYNSLVSAYVRGGLLEDALELKRKMVEKGIKPDVYTYTTLLSGFVK 360
Cdd:PLN03081 264 aLIDMYSKCGDIEDARCVFDGM------PekTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSR 337

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 361 AGKDELAMDVFGEMRDVGCKPNICTFNALIKMYGDRGKFEEMERVFKEIKVckcsPDIVTWNTLLAVFGQNGMDSEVSGV 440
Cdd:PLN03081 338 LALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEM 413

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 441 FEEMKRAGFVPERDTFNTLISAYGRCGSFDQAMSVYKRMLEA-GVSPDLSTYNAVLATLARGGLWEQSekvLTEMKDCGC 519
Cdd:PLN03081 414 FERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENhRIKPRAMHYACMIELLGREGLLDEA---YAMIRRAPF 490

                        570       580       590       600
                 ....*....|....*....|....*....|....*....|....*.
gi 951016057 520 KPNEATYSSLLHAYANGREVERMNALAEEIYS---DRIKTHTVLLN 562
Cdd:PLN03081 491 KPTVNMWAALLTACRIHKNLELGRLAAEKLYGmgpEKLNNYVVLLN 536
PLN03077 PLN03077
Protein ECB2; Provisional
 124-550 3.91e-30

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 127.66  E-value: 3.91e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 124 FIRTRNDLV--SLLNGSVIAVIVTLLG--KTGRASHAASLlhdleTDGVEVDVYGYTSLITAYANNRKYRDALKVFGKMK 199
Cdd:PLN03077 276 FFTMRELSVdpDLMTITSVISACELLGdeRLGREMHGYVV-----KTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME 350

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 200 evgCEpTLITYNAILNVYGKMGVPwTKIIALVQDMKCRGLAPDLCTYNTLISCCRAGSLYEEALDLFEEIKVAGFTPDVV 279
Cdd:PLN03077 351 ---TK-DAVSWTAMISGYEKNGLP-DKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVV 425

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 280 TYNVLLDVYGKSRRPKEAIEVLKQM-ELDgflpsVVTYNSLVSAYVRGGLLEDALELKRKMVEKgIKPDVYTYTTLLS-- 356
Cdd:PLN03077 426 VANALIEMYSKCKCIDKALEVFHNIpEKD-----VISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSac 499

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 357 ---GFVKAGKDELAMDVFGEMRDVGCKPNictfnALIKMYGDRGKFEEMERVFkeikvCKCSPDIVTWNTLLAVFGQNGM 433
Cdd:PLN03077 500 ariGALMCGKEIHAHVLRTGIGFDGFLPN-----ALLDLYVRCGRMNYAWNQF-----NSHEKDVVSWNILLTGYVAHGK 569

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 434 DSEVSGVFEEMKRAGFVPERDTFNTLISAYGRCGSFDQAMSVYKRM-LEAGVSPDLSTYNAVLATLARGGLWEQSEKVLT 512
Cdd:PLN03077 570 GSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMeEKYSITPNLKHYACVVDLLGRAGKLTEAYNFIN 649

                        410       420       430
                 ....*....|....*....|....*....|....*...
gi 951016057 513 EMKdcgCKPNEATYSSLLHAYANGREVERMNALAEEIY 550
Cdd:PLN03077 650 KMP---ITPDPAVWGALLNACRIHRHVELGELAAQHIF 684
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 241-617 4.84e-27

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 118.44  E-value: 4.84e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  241 PDLCTYNTLISCCRAGSLYEEALDLFEEIKVAGFTPDVVTYNVLLDVYGKSRRPKEAIEVLKQMELDGFLPSVVTYNSLV 320
Cdd:PLN03218  435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALI 514

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  321 SAYVRGGLLEDALELKRKMVEKGIKPDVYTYTTLLSGFVKAGKDELAMDVFGEMRDVG--CKPNICTFNALIKMYGDRGK 398
Cdd:PLN03218  515 DGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKACANAGQ 594

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  399 FEEMERVFKEIKV--CKCSPDIVTwntlLAV--FGQNGMDSEVSGVFEEMKRAGFVPERDTFNTLISAYGRCGSFDQAMS 474
Cdd:PLN03218  595 VDRAKEVYQMIHEynIKGTPEVYT----IAVnsCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFE 670

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  475 VYKRMLEAGVSPDLSTYNAVLATLARGGLWEQSEKVLTEMKDCGCKPNEATYSSLLHAYANGREVERMNALAEEIYSDRI 554
Cdd:PLN03218  671 ILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGL 750

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 951016057  555 KTHTVLLNTLVLVNSKVDLVEQTERAFLEFRKRGILPDITTMNAMLSIYGRKNKKGSKANEIL 617
Cdd:PLN03218  751 CPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPV 813
PLN03077 PLN03077
Protein ECB2; Provisional
 190-696 6.79e-27

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 117.64  E-value: 6.79e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 190 DALKVFGKMKEvgcePTLITYNAILNVYGKMGVpWTKIIALVQDMKCRGLAPDLCTYNTLISCCRAGSLYEEALDLFEEI 269
Cdd:PLN03077 139 HAWYVFGKMPE----RDLFSWNVLVGGYAKAGY-FDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHV 213

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 270 KVAGFTPDVVTYNVLLDVYGKSRRPKEAIEVLKQMELDgflpSVVTYNSLVSAYVRGGLLEDALELKRKMVEKGIKPDVY 349
Cdd:PLN03077 214 VRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLM 289

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 350 TYTTLLSGFVKAGKDELAMDVFGEMRDVGCKPNICTFNALIKMYGDRGKFEEMERVFKEIKvCKcspDIVTWNTLLAVFG 429
Cdd:PLN03077 290 TITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME-TK---DAVSWTAMISGYE 365

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 430 QNGMDSEVSGVFEEMKRAGFVPERDTF-----------------------------------NTLISAYGRCGSFDQAMS 474
Cdd:PLN03077 366 KNGLPDKALETYALMEQDNVSPDEITIasvlsacaclgdldvgvklhelaerkglisyvvvaNALIEMYSKCKCIDKALE 445

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 475 VYKRMLEAgvspDLSTYNAVLATLARGGLWEQSEKVLTEMKdCGCKPNEATYSSLLHAYAngreveRMNAL--AEEIYSD 552
Cdd:PLN03077 446 VFHNIPEK----DVISWTSIIAGLRLNNRCFEALIFFRQML-LTLKPNSVTLIAALSACA------RIGALmcGKEIHAH 514

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 553 RIKTHTVLLNtlVLVNSKVDL---VEQTERAFLEFRKRGilPDITTMNAMLSIYGRKNkKGSKANEILNYMYESGLTLSL 629
Cdd:PLN03077 515 VLRTGIGFDG--FLPNALLDLyvrCGRMNYAWNQFNSHE--KDVVSWNILLTGYVAHG-KGSMAVELFNRMVESGVNPDE 589

                        490       500       510       520       530       540
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 951016057 630 TTYNSLMYWYSRTKNFQKSEQILREILDK-GIEPDVVSYNVVIYAYCRNRMMEEAKRIFEEMK-DPAPA 696
Cdd:PLN03077 590 VTFISLLCACSRSGMVTQGLEYFHSMEEKySITPNLKHYACVVDLLGRAGKLTEAYNFINKMPiTPDPA 658
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 156-488 7.79e-27

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 117.67  E-value: 7.79e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  156 AASLLHDLETDGVEVDVYGYTSLITAYANNRKYrDAL-KVFGKMKEVGCEPTLITYNAILNVYGKMG-VPwtKIIALVQD 233
Cdd:PLN03218  456 ALRVLRLVQEAGLKADCKLYTTLISTCAKSGKV-DAMfEVFHEMVNAGVEANVHTFGALIDGCARAGqVA--KAFGAYGI 532

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  234 MKCRGLAPDLCTYNTLISCC-RAGSLyEEALDLFEEIKVAG--FTPDVVTYNVLLDV---YGKSRRPKEAIEVLKQMELD 307
Cdd:PLN03218  533 MRSKNVKPDRVVFNALISACgQSGAV-DRAFDVLAEMKAEThpIDPDHITVGALMKAcanAGQVDRAKEVYQMIHEYNIK 611

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  308 GFlPSVvtYNSLVSAYVRGGLLEDALELKRKMVEKGIKPDVYTYTTLLSGFVKAGKDELAMDVFGEMRDVGCKPNICTFN 387
Cdd:PLN03218  612 GT-PEV--YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYS 688

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  388 ALIKMYGDRGKFEEMERVFKEIKVCKCSPDIVTWNTLL-AVFGQNGMDSEVSgVFEEMKRAGFVPERDTFNTLISAYGRC 466
Cdd:PLN03218  689 SLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALItALCEGNQLPKALE-VLSEMKRLGLCPNTITYSILLVASERK 767

                         330       340
                  ....*....|....*....|..
gi 951016057  467 GSFDQAMSVYKRMLEAGVSPDL 488
Cdd:PLN03218  768 DDADVGLDLLSQAKEDGIKPNL 789
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 149-498 7.92e-24

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 108.04  E-value: 7.92e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  149 KTGRASHAASLLHDLETDGVEVDVYGYTSLITAYANNRKYRDALKVFGKMKEVGCEPTLITYNAILNVYGKMGVPwTKII 228
Cdd:PLN03218  484 KSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAV-DRAF 562

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  229 ALVQDMKCRG--LAPDLCTYNTLIS-CCRAGSL----------------------------------YEEALDLFEEIKV 271
Cdd:PLN03218  563 DVLAEMKAEThpIDPDHITVGALMKaCANAGQVdrakevyqmiheynikgtpevytiavnscsqkgdWDFALSIYDDMKK 642

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  272 AGFTPDVVTYNVLLDVYGKSRRPKEAIEVLKQMELDGFLPSVVTYNSLVSAYVRGGLLEDALELKRKMVEKGIKPDVYTY 351
Cdd:PLN03218  643 KGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTM 722

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  352 TTLLSGFVKAGKDELAMDVFGEMRDVGCKPNICTFNALIKMYGDRGKFEEMERVFKEIKVCKCSPDIVTwntllavfgqn 431
Cdd:PLN03218  723 NALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVM----------- 791

                         330       340       350       360       370       380       390
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 951016057  432 gMDSEVSGVFEEMKRAGFVPERD-TFNTlisayGRCGSFDQ----AMSVYKRMLEAGVSPDLSTYNAVLATL 498
Cdd:PLN03218  792 -CRCITGLCLRRFEKACALGEPVvSFDS-----GRPQIENKwtswALMVYRETISAGTLPTMEVLSQVLGCL 857
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 158-220 8.44e-23

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 92.04  E-value: 8.44e-23
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 951016057  158 SLLHDLETDGVEVDVYGYTSLITAYANNRKYRDALKVFGKMKEVGCEPTLITYNAILNVYGKM 220
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGGR 63
PLN03077 PLN03077
Protein ECB2; Provisional
 230-741 1.15e-22

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 103.78  E-value: 1.15e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 230 LVQDMKCRGLAPDLCTYNTLISCCRAGSLYEEALDLFEEIKVAGFTPDVVTYNVLLDVYGKSRRPKEAIEVLKQM-ELDG 308
Cdd:PLN03077  73 LLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMpERDL 152

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 309 FlpsvvTYNSLVSAYVRGGLLEDALELKRKMVEKGIKPDVYTYTTLLSGFvkAGKDELAM--DVFGEMRDVGCKPNICTF 386
Cdd:PLN03077 153 F-----SWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTC--GGIPDLARgrEVHAHVVRFGFELDVDVV 225

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 387 NALIKMYGDRGKFEEMERVFKEIKVckcsPDIVTWNTLLAVFGQNGMDSEVSGVFEEMKRAGFVPERDTFNTLISAYGRC 466
Cdd:PLN03077 226 NALITMYVKCGDVVSARLVFDRMPR----RDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELL 301

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 467 GSFDQAMSVYKRMLEAGVSPDLSTYNAVLATLARGGLWEQSEKVLTEMKdcgCKpNEATYSSLLHAYA-NGR-----EVE 540
Cdd:PLN03077 302 GDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME---TK-DAVSWTAMISGYEkNGLpdkalETY 377

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 541 RMNALaEEIYSDRIKTHTVL--LNTLVLVNSKVDLVEQTERAflefrkrGILPDITTMNAMLSIYGrKNKKGSKANEILN 618
Cdd:PLN03077 378 ALMEQ-DNVSPDEITIASVLsaCACLGDLDVGVKLHELAERK-------GLISYVVVANALIEMYS-KCKCIDKALEVFH 448

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 619 YMYE----------SGLTLSLTTYNSLMYWY--------------------SRTKNFQKSEQILREILDKGIEPDVVSYN 668
Cdd:PLN03077 449 NIPEkdviswtsiiAGLRLNNRCFEALIFFRqmlltlkpnsvtliaalsacARIGALMCGKEIHAHVLRTGIGFDGFLPN 528

                        490       500       510       520       530       540       550
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 951016057 669 VVIYAYCRNRMMEEAKRIFEemkdpAPAPDVVTYNTFIATYAADSMFVEAIDVVRHMIKQGCRPNQNTYNSIV 741
Cdd:PLN03077 529 ALLDLYVRCGRMNYAWNQFN-----SHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLL 596
PLN03077 PLN03077
Protein ECB2; Provisional
 249-746 5.58e-22

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 101.85  E-value: 5.58e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 249 LISCCRAGSLyEEALDLFEEIKVAGFTPDVVTYNVLLDVYGKSRRPKEAIEVLKQMELDGFLPSVVTYNSLVSAYVRGGL 328
Cdd:PLN03077  58 LRALCSHGQL-EQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGE 136

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 329 LEDALELKRKMVEKgikpDVYTYTTLLSGFVKAGKDELAMDVFGEMRDVGCKPNICTF---------------------- 386
Cdd:PLN03077 137 LVHAWYVFGKMPER----DLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFpcvlrtcggipdlargrevhah 212

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 387 -------------NALIKMYGDRGKFEEMERVFKEIKVckcsPDIVTWNTLLAVFGQNGMDSEVSGVFEEMKRAGFVPER 453
Cdd:PLN03077 213 vvrfgfeldvdvvNALITMYVKCGDVVSARLVFDRMPR----RDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDL 288

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 454 DTFNTLISAYGRCGSFDQAMSVYKRMLEAGVSPDLSTYNAVLATLARGGLWEQSEKVLTEMKdcgCKpNEATYSSLLHAY 533
Cdd:PLN03077 289 MTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME---TK-DAVSWTAMISGY 364

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 534 ANgrevermNALAEEIysdrIKTHTvllntlvlvnskvdLVEQTeraflefrkrGILPDITTMNAMLSI---YGRKNkKG 610
Cdd:PLN03077 365 EK-------NGLPDKA----LETYA--------------LMEQD----------NVSPDEITIASVLSAcacLGDLD-VG 408

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 611 SKANEILNymyESGLTLSLTTYNSLMYWYSRTKNFQKSEQILREILDKgiepDVVSYNVVIYAYCRNRMMEEAKRIFEEM 690
Cdd:PLN03077 409 VKLHELAE---RKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK----DVISWTSIIAGLRLNNRCFEALIFFRQM 481

                        490       500       510       520       530
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 951016057 691 KDPApAPDVVTYNTFIATYAADSMFVEAIDVVRHMIKQGCRPNQNTYNSIVDWYCK 746
Cdd:PLN03077 482 LLTL-KPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVR 536
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 335-396 6.58e-22

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 89.72  E-value: 6.58e-22
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 951016057  335 LKRKMVEKGIKPDVYTYTTLLSGFVKAGKDELAMDVFGEMRDVGCKPNICTFNALIKMYGDR 396
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGGR 63
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 229-737 2.51e-20

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 96.09  E-value: 2.51e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 229 ALVQDMKCRGLAPDLCT-YNTLISCCRagslYEEALDLFEEIKVAG-FTPDVVTYNVLLDVYGKSRRPKEAIEVLKQMEL 306
Cdd:PLN03081  76 ARLDDTQIRKSGVSLCSqIEKLVACGR----HREALELFEILEAGCpFTLPASTYDALVEACIALKSIRCVKAVYWHVES 151

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 307 DGFLPSVVTYNSLVSAYVRGGLLEDALELKRKMVEKGIkpdvYTYTTLLSGFVKAGKDELAMDVFGEMRDVGCKPNICTF 386
Cdd:PLN03081 152 SGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNL----ASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTF 227

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 387 NALIKMYGDRGKFeemeRVFKEIKVCKCspdivtwntllavfgqngmdsevsgvfeemkRAGFVPERDTFNTLISAYGRC 466
Cdd:PLN03081 228 VVMLRASAGLGSA----RAGQQLHCCVL-------------------------------KTGVVGDTFVSCALIDMYSKC 272

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 467 GSFDQAMSVYKRMLEAGVSpdlsTYNAVLATLARGGLWEQSEKVLTEMKDCGCKPNEATYSsllhayangrevermnala 546
Cdd:PLN03081 273 GDIEDARCVFDGMPEKTTV----AWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFS------------------- 329

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 547 eeiysdrikthtvllnTLVLVNSKVDLVEQTERAflefrkrgilpdittmnamlsiygrknkkgskaneilnymyESGLt 626
Cdd:PLN03081 330 ----------------IMIRIFSRLALLEHAKQA-----------------------------------------HAGL- 351

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 627 lslttynslmywysrtknfqkseqilreiLDKGIEPDVVSYNVVIYAYCRNRMMEEAKRIFEEMkdpaPAPDVVTYNTFI 706
Cdd:PLN03081 352 -----------------------------IRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRM----PRKNLISWNALI 398

                        490       500       510
                 ....*....|....*....|....*....|.
gi 951016057 707 ATYAADSMFVEAIDVVRHMIKQGCRPNQNTY 737
Cdd:PLN03081 399 AGYGNHGRGTKAVEMFERMIAEGVAPNHVTF 429
PLN03077 PLN03077
Protein ECB2; Provisional
 355-753 4.23e-19

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 92.61  E-value: 4.23e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 355 LSGFVKAGKDELAMDVFGEMRDVGCKPNICTFNALIKMYGDRGKFEEMERVFKEIKVCKCSPDIVTWNTLLAVFGQNGMD 434
Cdd:PLN03077  58 LRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGEL 137

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 435 SEVSGVFEEMkragfvPERDTF--NTLISAYGRCGSFDQAMSVYKRMLEAGVSPDLSTYNAVLATlargglweqsekvlt 512
Cdd:PLN03077 138 VHAWYVFGKM------PERDLFswNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRT--------------- 196

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 513 emkdCGCKPNEATySSLLHA----YANGREVERMNAL------------AEEIYSDRIKTHTVLLNTLVLVNSKVDLVEQ 576
Cdd:PLN03077 197 ----CGGIPDLAR-GREVHAhvvrFGFELDVDVVNALitmyvkcgdvvsARLVFDRMPRRDCISWNAMISGYFENGECLE 271

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 577 TERAFLEFRKRGILPDITTMNAMLSIYGRKNKKGSkANEILNYMYESGLTLSLTTYNSLMYWYSRTKNFQKSEQILREIL 656
Cdd:PLN03077 272 GLELFFTMRELSVDPDLMTITSVISACELLGDERL-GREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME 350

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 657 DKgiepDVVSYNVVIYAYCRNRMMEEAKRIFEEMKDPAPAPDVVTYNTFIATYAADSMFVEAIDVVRHMIKQGCRPNQNT 736
Cdd:PLN03077 351 TK----DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVV 426

                        410
                 ....*....|....*..
gi 951016057 737 YNSIVDWYCKLNLRDEA 753
Cdd:PLN03077 427 ANALIEMYSKCKCIDKA 443
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 139-392 7.83e-19

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 91.86  E-value: 7.83e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  139 VIAVIVTLLGKTGRASHAASLLHDL--ETDGVEVDVYGYTSLITAYANNRKYRDALKVFGKMKEVGCEPTLITYNAILNV 216
Cdd:PLN03218  544 VFNALISACGQSGAVDRAFDVLAEMkaETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNS 623

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  217 YGKMGvPWTKIIALVQDMKCRGLAPDLCTYNTLISCCRAGSLYEEALDLFEEIKVAGFTPDVVTYNVLLDVYGKSRRPKE 296
Cdd:PLN03218  624 CSQKG-DWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKK 702

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  297 AIEVLKQMELDGFLPSVVTYNSLVSAYVRGGLLEDALELKRKMVEKGIKPDVYTYTTLLSGFVKAGKDELAMDVFGEMRD 376
Cdd:PLN03218  703 ALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKE 782

                         250
                  ....*....|....*.
gi 951016057  377 VGCKPNICTFNALIKM 392
Cdd:PLN03218  783 DGIKPNLVMCRCITGL 798
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 311-360 6.71e-16

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 72.01  E-value: 6.71e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 951016057  311 PSVVTYNSLVSAYVRGGLLEDALELKRKMVEKGIKPDVYTYTTLLSGFVK 360
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 662-706 6.79e-13

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 63.54  E-value: 6.79e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 951016057  662 PDVVSYNVVIYAYCRNRMMEEAKRIFEEMKDPAPAPDVVTYNTFI 706
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILI 45
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 346-393 1.28e-12

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 62.77  E-value: 1.28e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 951016057  346 PDVYTYTTLLSGFVKAGKDELAMDVFGEMRDVGCKPNICTFNALIKMY 393
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 276-325 2.77e-12

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 62.00  E-value: 2.77e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 951016057  276 PDVVTYNVLLDVYGKSRRPKEAIEVLKQMELDGFLPSVVTYNSLVSAYVR 325
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 241-290 1.92e-11

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 59.30  E-value: 1.92e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 951016057  241 PDLCTYNTLIS-CCRAGsLYEEALDLFEEIKVAGFTPDVVTYNVLLDVYGK 290
Cdd:pfam13041   1 PDVVTYNTLINgYCKKG-KVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 171-219 3.76e-11

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 58.53  E-value: 3.76e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 951016057  171 DVYGYTSLITAYANNRKYRDALKVFGKMKEVGCEPTLITYNAILNVYGK 219
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 697-746 3.99e-11

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 58.53  E-value: 3.99e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 951016057  697 PDVVTYNTFIATYAADSMFVEAIDVVRHMIKQGCRPNQNTYNSIVDWYCK 746
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 486-535 2.34e-10

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 56.22  E-value: 2.34e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 951016057  486 PDLSTYNAVLATLARGGLWEQSEKVLTEMKDCGCKPNEATYSSLLHAYAN 535
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 651-709 9.67e-10

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 55.06  E-value: 9.67e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 951016057  651 ILREILDKGIEPDVVSYNVVIYAYCRNRMMEEAKRIFEEMKDPAPAPDVVTYNTFIATY 709
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 658-691 1.17e-09

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 53.89  E-value: 1.17e-09
                          10        20        30
                  ....*....|....*....|....*....|....
gi 951016057  658 KGIEPDVVSYNVVIYAYCRNRMMEEAKRIFEEMK 691
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 381-425 1.53e-09

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 53.91  E-value: 1.53e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 951016057  381 PNICTFNALIKMYGDRGKFEEMERVFKEIKVCKCSPDIVTWNTLL 425
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILI 45
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 259-514 1.70e-09

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 59.36  E-value: 1.70e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 259 YEEALDLFEE-IKVAGFTPDvvTYNVLLDVYGKSRRPKEAIEVLKQ-MELDGFLPSVvtYNSLVSAYVRGGLLEDALELK 336
Cdd:COG2956   24 PDKAIDLLEEaLELDPETVE--AHLALGNLYRRRGEYDRAIRIHQKlLERDPDRAEA--LLELAQDYLKAGLLDRAEELL 99

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 337 RKMVEKGIKpDVYTYTTLLSGFVKAGKDELAMDVFGEMRDVGcKPNICTFNALIKMYGDRGKFEEMERVFKeiKVCKCSP 416
Cdd:COG2956  100 EKLLELDPD-DAEALRLLAEIYEQEGDWEKAIEVLERLLKLG-PENAHAYCELAELYLEQGDYDEAIEALE--KALKLDP 175

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 417 DIVTWNTLLA-VFGQNGMDSEVSGVFEEMKRAGfvPER-DTFNTLISAYGRCGSFDQAMSVYKRMLEAGvsPDLSTYNAV 494
Cdd:COG2956  176 DCARALLLLAeLYLEQGDYEEAIAALERALEQD--PDYlPALPRLAELYEKLGDPEEALELLRKALELD--PSDDLLLAL 251

                        250       260
                 ....*....|....*....|
gi 951016057 495 LATLARGGLWEQSEKVLTEM 514
Cdd:COG2956  252 ADLLERKEGLEAALALLERQ 271
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 265-324 3.32e-09

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 53.52  E-value: 3.32e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  265 LFEEIKVAGFTPDVVTYNVLLDVYGKSRRPKEAIEVLKQMELDGFLPSVVTYNSLVSAYV 324
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIG 61
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 455-500 4.24e-09

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 52.75  E-value: 4.24e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 951016057  455 TFNTLISAYGRCGSFDQAMSVYKRMLEAGVSPDLSTYNAVLATLAR 500
Cdd:pfam13041   5 TYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 416-465 7.56e-09

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 51.98  E-value: 7.56e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 951016057  416 PDIVTWNTLLAVFGQNGMDSEVSGVFEEMKRAGFVPERDTFNTLISAYGR 465
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 631-676 7.94e-09

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 51.98  E-value: 7.94e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 951016057  631 TYNSLMYWYSRTKNFQKSEQILREILDKGIEPDVVSYNVVIYAYCR 676
Cdd:pfam13041   5 TYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 440-538 1.27e-08

Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large family of modular RNA-binding proteins which mediate several aspects of gene expression primarily in organelles but also in the nucleus. PPR_long is the region of Arabidopsis protein-only RNase P (PRORP) enzyme that consists of up to eleven alpha-helices. PRORPs are a class of RNA processing enzymes that catalyze maturation of the 5' end of precursor tRNAs in Eukaryotes. All PPR proteins contain tandemly repeated sequence motifs (the PPR motifs) which can vary in number. The series of helix-turn-helix motifs formed by PPR motifs throughout the protein produces a superheros with a central groove that allows the protein to bind RNA. Proteins containing PPR motifs are known to have roles in transcription, RNA processing, splicing, stability, editing, and translation. Over a decade after the discovery of PPR proteins, the super-helical structure was confirmed. The protein-only mitochondrial RNase P crystal structure from Arabidopsis thaliana (PRORP1) confirmed the role of its PPR motifs in pre-tRNA binding and suggest it has evolved independently from other RNase P proteins that rely on catalytic RNA.


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 55.87  E-value: 1.27e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  440 VFEEMKRAGFVPERDTFNTLISAYGRCGSFDQAMSVYKRMLEAGVSPDLSTYNAVLATLARGGLWEQSEKVLTEMKDCGC 519
Cdd:pfam17177  77 VFEAMKAQGVSPNEATYTAVARLAAAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGV 156

                          90       100
                  ....*....|....*....|
gi 951016057  520 KPNEATYSSLLHAYAN-GRE 538
Cdd:pfam17177 157 ELEEPELAALLKVSAKaGRA 176
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 440-497 1.43e-08

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 51.59  E-value: 1.43e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 951016057  440 VFEEMKRAGFVPERDTFNTLISAYGRCGSFDQAMSVYKRMLEAGVSPDLSTYNAVLAT 497
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGV 59
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 228-379 1.70e-08

Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large family of modular RNA-binding proteins which mediate several aspects of gene expression primarily in organelles but also in the nucleus. PPR_long is the region of Arabidopsis protein-only RNase P (PRORP) enzyme that consists of up to eleven alpha-helices. PRORPs are a class of RNA processing enzymes that catalyze maturation of the 5' end of precursor tRNAs in Eukaryotes. All PPR proteins contain tandemly repeated sequence motifs (the PPR motifs) which can vary in number. The series of helix-turn-helix motifs formed by PPR motifs throughout the protein produces a superheros with a central groove that allows the protein to bind RNA. Proteins containing PPR motifs are known to have roles in transcription, RNA processing, splicing, stability, editing, and translation. Over a decade after the discovery of PPR proteins, the super-helical structure was confirmed. The protein-only mitochondrial RNase P crystal structure from Arabidopsis thaliana (PRORP1) confirmed the role of its PPR motifs in pre-tRNA binding and suggest it has evolved independently from other RNase P proteins that rely on catalytic RNA.


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 55.48  E-value: 1.70e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  228 IALVQDMKCRGLAPDLCTYNTLISCCRAG-----SLYEEALD----LFEEIKVAGFTPDVVTYNVLLDVYGKSRRPKEAI 298
Cdd:pfam17177  31 LALYDAAKAEGVRLAQYHYNVLLYLCSKAadatdLKPQLAADrgfeVFEAMKAQGVSPNEATYTAVARLAAAKGDGDLAF 110

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  299 EVLKQMELDGFLPSVVTYNSLVSAYVRGGLLEDALELKRKMVEKGIKPDVYTYTTLLSGFVKAGKDELAMDVFGEMRD-V 377
Cdd:pfam17177 111 DLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAGRADKVYAYLHRLRDaV 190


                  ..
gi 951016057  378 GC 379
Cdd:pfam17177 191 RQ 192
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 370-431 2.13e-08

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 51.20  E-value: 2.13e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 951016057  370 VFGEMRDVGCKPNICTFNALIKMYGDRGKFEEMERVFKEIKVCKCSPDIVTWNTLLAVFGQN 431
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGGR 63
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 205-254 2.35e-08

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 50.82  E-value: 2.35e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 951016057  205 PTLITYNAILNVYGKMGVpWTKIIALVQDMKCRGLAPDLCTYNTLIS-CCR 254
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGK-VEEAFKLFNEMKKRGVKPNVYTYTILINgLCK 50
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 342-375 2.66e-08

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 50.04  E-value: 2.66e-08
                          10        20        30
                  ....*....|....*....|....*....|....
gi 951016057  342 KGIKPDVYTYTTLLSGFVKAGKDELAMDVFGEMR 375
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 248-397 3.03e-08

Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large family of modular RNA-binding proteins which mediate several aspects of gene expression primarily in organelles but also in the nucleus. PPR_long is the region of Arabidopsis protein-only RNase P (PRORP) enzyme that consists of up to eleven alpha-helices. PRORPs are a class of RNA processing enzymes that catalyze maturation of the 5' end of precursor tRNAs in Eukaryotes. All PPR proteins contain tandemly repeated sequence motifs (the PPR motifs) which can vary in number. The series of helix-turn-helix motifs formed by PPR motifs throughout the protein produces a superheros with a central groove that allows the protein to bind RNA. Proteins containing PPR motifs are known to have roles in transcription, RNA processing, splicing, stability, editing, and translation. Over a decade after the discovery of PPR proteins, the super-helical structure was confirmed. The protein-only mitochondrial RNase P crystal structure from Arabidopsis thaliana (PRORP1) confirmed the role of its PPR motifs in pre-tRNA binding and suggest it has evolved independently from other RNase P proteins that rely on catalytic RNA.


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 54.71  E-value: 3.03e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  248 TLISCCRAGSLyEEALDLFEEIKVAGFTPDVVTYNVLLDVYGKSRRPKE---------AIEVLKQMELDGFLPSVVTYNS 318
Cdd:pfam17177  17 QLDKCSKHADA-TGALALYDAAKAEGVRLAQYHYNVLLYLCSKAADATDlkpqlaadrGFEVFEAMKAQGVSPNEATYTA 95

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 951016057  319 LVSAYVRGGLLEDALELKRKMVEKGIKPDVYTYTTLLSGFVKAGKDELAMDVFGEMRDVGCKPNICTFNALIKMYGDRG 397
Cdd:pfam17177  96 VARLAAAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAG 174
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 314-348 3.64e-08

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 49.76  E-value: 3.64e-08
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 951016057  314 VTYNSLVSAYVRGGLLEDALELKRKMVEKGIKPDV 348
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 455-487 6.74e-08

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 48.99  E-value: 6.74e-08
                          10        20        30
                  ....*....|....*....|....*....|...
gi 951016057  455 TFNTLISAYGRCGSFDQAMSVYKRMLEAGVSPD 487
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 332-525 1.74e-07

Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large family of modular RNA-binding proteins which mediate several aspects of gene expression primarily in organelles but also in the nucleus. PPR_long is the region of Arabidopsis protein-only RNase P (PRORP) enzyme that consists of up to eleven alpha-helices. PRORPs are a class of RNA processing enzymes that catalyze maturation of the 5' end of precursor tRNAs in Eukaryotes. All PPR proteins contain tandemly repeated sequence motifs (the PPR motifs) which can vary in number. The series of helix-turn-helix motifs formed by PPR motifs throughout the protein produces a superheros with a central groove that allows the protein to bind RNA. Proteins containing PPR motifs are known to have roles in transcription, RNA processing, splicing, stability, editing, and translation. Over a decade after the discovery of PPR proteins, the super-helical structure was confirmed. The protein-only mitochondrial RNase P crystal structure from Arabidopsis thaliana (PRORP1) confirmed the role of its PPR motifs in pre-tRNA binding and suggest it has evolved independently from other RNase P proteins that rely on catalytic RNA.


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 52.40  E-value: 1.74e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  332 ALELKRKMVEKGIKPDVYTYTTLLSGFVKA-----GKDELAMD----VFGEMRDVGCKPNICTFNALIKMYGDRGKFEEM 402
Cdd:pfam17177  30 ALALYDAAKAEGVRLAQYHYNVLLYLCSKAadatdLKPQLAADrgfeVFEAMKAQGVSPNEATYTAVARLAAAKGDGDLA 109

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  403 ErvfkeikvckcspDIVTwntllavfgqngmdsevsgvfeEMKRAGFVPERDTFNTLISAYGRCGSFDQAMSVYKRMLEA 482
Cdd:pfam17177 110 F-------------DLVK----------------------EMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAH 154

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 951016057  483 GVSPDLSTYNAVLATLARGGLWEQSEKVLTEMKDCGCKPNEAT 525
Cdd:pfam17177 155 GVELEEPELAALLKVSAKAGRADKVYAYLHRLRDAVRQVSEST 197
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 237-270 1.85e-07

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 47.73  E-value: 1.85e-07
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 951016057  237 RGLAPDLCTYNTLISC-CRAGSLyEEALDLFEEIK 270
Cdd:pfam12854   1 KGLKPDVVTYNTLINGlCRAGRV-DEAFELLDEME 34
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 665-692 2.18e-07

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 47.46  E-value: 2.18e-07
                          10        20
                  ....*....|....*....|....*...
gi 951016057  665 VSYNVVIYAYCRNRMMEEAKRIFEEMKD 692
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKE 28
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 349-383 3.36e-07

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 47.06  E-value: 3.36e-07
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 951016057  349 YTYTTLLSGFVKAGKDELAMDVFGEMRDVGCKPNI 383
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 307-340 4.00e-07

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 46.57  E-value: 4.00e-07
                          10        20        30
                  ....*....|....*....|....*....|....
gi 951016057  307 DGFLPSVVTYNSLVSAYVRGGLLEDALELKRKMV 340
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 314-344 8.20e-07

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 45.92  E-value: 8.20e-07
                          10        20        30
                  ....*....|....*....|....*....|.
gi 951016057  314 VTYNSLVSAYVRGGLLEDALELKRKMVEKGI 344
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 279-313 1.02e-06

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 45.52  E-value: 1.02e-06
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 951016057  279 VTYNVLLDVYGKSRRPKEAIEVLKQMELDGFLPSV 313
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 665-692 1.16e-06

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 45.52  E-value: 1.16e-06
                          10        20
                  ....*....|....*....|....*...
gi 951016057  665 VSYNVVIYAYCRNRMMEEAKRIFEEMKD 692
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKE 28
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 616-677 1.91e-06

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 45.81  E-value: 1.91e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 951016057  616 ILNYMYESGLTLSLTTYNSLMYWYSRTKNFQKSEQILREILDKGIEPDVVSYNVVIYAYCRN 677
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGGR 63
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 384-418 2.29e-06

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 44.75  E-value: 2.29e-06
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 951016057  384 CTFNALIKMYGDRGKFEEMERVFKEIKVCKCSPDI 418
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 455-484 2.48e-06

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 44.38  E-value: 2.48e-06
                          10        20        30
                  ....*....|....*....|....*....|
gi 951016057  455 TFNTLISAYGRCGSFDQAMSVYKRMLEAGV 484
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 474-535 3.10e-06

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 45.04  E-value: 3.10e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 951016057  474 SVYKRMLEAGVSPDLSTYNAVLATLARGGLWEQSEKVLTEMKDCGCKPNEATYSSLLHAYAN 535
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGG 62
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 273-305 3.63e-06

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 43.87  E-value: 3.63e-06
                          10        20        30
                  ....*....|....*....|....*....|...
gi 951016057  273 GFTPDVVTYNVLLDVYGKSRRPKEAIEVLKQME 305
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 279-309 6.23e-06

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 43.22  E-value: 6.23e-06
                          10        20        30
                  ....*....|....*....|....*....|.
gi 951016057  279 VTYNVLLDVYGKSRRPKEAIEVLKQMELDGF 309
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 440-541 6.66e-06

Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large family of modular RNA-binding proteins which mediate several aspects of gene expression primarily in organelles but also in the nucleus. PPR_long is the region of Arabidopsis protein-only RNase P (PRORP) enzyme that consists of up to eleven alpha-helices. PRORPs are a class of RNA processing enzymes that catalyze maturation of the 5' end of precursor tRNAs in Eukaryotes. All PPR proteins contain tandemly repeated sequence motifs (the PPR motifs) which can vary in number. The series of helix-turn-helix motifs formed by PPR motifs throughout the protein produces a superheros with a central groove that allows the protein to bind RNA. Proteins containing PPR motifs are known to have roles in transcription, RNA processing, splicing, stability, editing, and translation. Over a decade after the discovery of PPR proteins, the super-helical structure was confirmed. The protein-only mitochondrial RNase P crystal structure from Arabidopsis thaliana (PRORP1) confirmed the role of its PPR motifs in pre-tRNA binding and suggest it has evolved independently from other RNase P proteins that rely on catalytic RNA.


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 47.78  E-value: 6.66e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  440 VFEEMKRAGFVPERDTFNTLI---------SAYGRCGSFDQAMSVYKRMLEAGVSPDLSTYNAV--LATLARGGlwEQSE 508
Cdd:pfam17177  33 LYDAAKAEGVRLAQYHYNVLLylcskaadaTDLKPQLAADRGFEVFEAMKAQGVSPNEATYTAVarLAAAKGDG--DLAF 110

                          90       100       110
                  ....*....|....*....|....*....|...
gi 951016057  509 KVLTEMKDCGCKPNEATYSSLLHAYANGREVER 541
Cdd:pfam17177 111 DLVKEMEAAGVSPRLRSYSPALHAYCEAGDADK 143
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 175-206 7.90e-06

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 43.21  E-value: 7.90e-06
                          10        20        30
                  ....*....|....*....|....*....|..
gi 951016057  175 YTSLITAYANNRKYRDALKVFGKMKEVGCEPT 206
Cdd:TIGR00756   3 YNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 631-664 1.11e-05

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 42.83  E-value: 1.11e-05
                          10        20        30
                  ....*....|....*....|....*....|....
gi 951016057  631 TYNSLMYWYSRTKNFQKSEQILREILDKGIEPDV 664
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 244-278 1.37e-05

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 42.44  E-value: 1.37e-05
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 951016057  244 CTYNTLI-SCCRAGsLYEEALDLFEEIKVAGFTPDV 278
Cdd:TIGR00756   1 VTYNTLIdGLCKAG-RVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 700-733 2.59e-05

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 41.67  E-value: 2.59e-05
                          10        20        30
                  ....*....|....*....|....*....|....
gi 951016057  700 VTYNTFIATYAADSMFVEAIDVVRHMIKQGCRPN 733
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 175-203 2.61e-05

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 41.68  E-value: 2.61e-05
                          10        20
                  ....*....|....*....|....*....
gi 951016057  175 YTSLITAYANNRKYRDALKVFGKMKEVGC 203
Cdd:pfam01535   3 YNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 349-379 2.66e-05

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 41.68  E-value: 2.66e-05
                          10        20        30
                  ....*....|....*....|....*....|.
gi 951016057  349 YTYTTLLSGFVKAGKDELAMDVFGEMRDVGC 379
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 591-636 3.65e-05

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 41.58  E-value: 3.65e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 951016057  591 PDITTMNAMLSIYGrKNKKGSKANEILNYMYESGLTLSLTTYNSLM 636
Cdd:pfam13041   1 PDVVTYNTLINGYC-KKGKVEEAFKLFNEMKKRGVKPNVYTYTILI 45
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 419-449 4.94e-05

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 40.91  E-value: 4.94e-05
                          10        20        30
                  ....*....|....*....|....*....|.
gi 951016057  419 VTWNTLLAVFGQNGMDSEVSGVFEEMKRAGF 449
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 490-523 6.45e-05

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 40.52  E-value: 6.45e-05
                          10        20        30
                  ....*....|....*....|....*....|....
gi 951016057  490 TYNAVLATLARGGLWEQSEKVLTEMKDCGCKPNE 523
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 419-451 1.15e-04

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 39.75  E-value: 1.15e-04
                          10        20        30
                  ....*....|....*....|....*....|...
gi 951016057  419 VTWNTLLAVFGQNGMDSEVSGVFEEMKRAGFVP 451
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEP 33
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 245-274 1.47e-04

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 39.37  E-value: 1.47e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 951016057  245 TYNTLIS-CCRAGsLYEEALDLFEEIKVAGF 274
Cdd:pfam01535   2 TYNSLISgYCKNG-KLEEALELFKEMKEKGI 31
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 579-636 1.93e-04

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 40.03  E-value: 1.93e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 951016057  579 RAFLEFRKRGILPDITTMNAMLSIYGRkNKKGSKANEILNYMYESGLTLSLTTYNSLM 636
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYAN-VGNLKLALEIFERMKKKGIKPTLDTYNAIL 57
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 378-410 2.67e-04

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 38.87  E-value: 2.67e-04
                          10        20        30
                  ....*....|....*....|....*....|...
gi 951016057  378 GCKPNICTFNALIKMYGDRGKFEEMERVFKEIK 410
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
245-371 3.47e-04

Tetratricopeptide (TPR) repeat [General function prediction only];


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 43.07  E-value: 3.47e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 245 TYNTLISCCRAGSLYEEALDLFEeiKVAGFTPD-VVTYNVLLDVYGKSRRPKEAIEVLKQ-MELDgfLPSVVTYNSLVSA 322
Cdd:COG0457   10 AYNNLGLAYRRLGRYEEAIEDYE--KALELDPDdAEALYNLGLAYLRLGRYEEALADYEQaLELD--PDDAEALNNLGLA 85

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 951016057 323 YVRGGLLEDALELKRKMVEkgIKP-DVYTYTTLLSGFVKAGKDELAMDVF 371
Cdd:COG0457   86 LQALGRYEEALEDYDKALE--LDPdDAEALYNLGLALLELGRYDEAIEAY 133
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 448-479 6.41e-04

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 37.71  E-value: 6.41e-04
                          10        20        30
                  ....*....|....*....|....*....|..
gi 951016057  448 GFVPERDTFNTLISAYGRCGSFDQAMSVYKRM 479
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 173-436 1.14e-03

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 41.64  E-value: 1.14e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 173 YGYTSLITAYANNRKYRDALKVFGKMKEVgcEPTLI-TYNAILNVYGKMGVP------WTKIIALVQDmkcRGLApdlct 245
Cdd:COG2956    9 LGWYFKGLNYLLNGQPDKAIDLLEEALEL--DPETVeAHLALGNLYRRRGEYdrairiHQKLLERDPD---RAEA----- 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 246 YNTLISCCRAGSLYEEALDLFEE-IKVAGFTPDVvtYNVLLDVYGKSRRPKEAIEVLKQM-ELDGflPSVVTYNSLVSAY 323
Cdd:COG2956   79 LLELAQDYLKAGLLDRAEELLEKlLELDPDDAEA--LRLLAEIYEQEGDWEKAIEVLERLlKLGP--ENAHAYCELAELY 154

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 324 VRGGLLEDALELKRKMVEkgIKPD-VYTYTTLLSGFVKAGKDELAMDVFGEMRDVgcKPN-ICTFNALIKMYGDRGKFEE 401
Cdd:COG2956  155 LEQGDYDEAIEALEKALK--LDPDcARALLLLAELYLEQGDYEEAIAALERALEQ--DPDyLPALPRLAELYEKLGDPEE 230

                        250       260       270
                 ....*....|....*....|....*....|....*
gi 951016057 402 MERVFKeiKVCKCSPDIVTWNTLLAVFGQNGMDSE 436
Cdd:COG2956  231 ALELLR--KALELDPSDDLLLALADLLERKEGLEA 263
PLN03077 PLN03077
Protein ECB2; Provisional
 478-753 1.14e-03

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 42.53  E-value: 1.14e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 478 RMLEAGVSPDLSTY--NAVLATLARGGLWEQSEKVLTEMKDCGCKPNEATYSSLLHAYANGREVERmnalAEEIYSDRIK 555
Cdd:PLN03077  39 RGLSVAASSSSSTHdsNSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEE----GSRVCSRALS 114

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 556 THTVL-----------------------------------LNTLVLVNSKVDLVEQTERAFLEFRKRGILPDITTMNAML 600
Cdd:PLN03077 115 SHPSLgvrlgnamlsmfvrfgelvhawyvfgkmperdlfsWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVL 194

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 601 SIYGrknkkG----SKANEILNYMYESGLTLSLTTYNSLMYWYSRTKNFQKSeqilREILDKGIEPDVVSYNVVIYAYCR 676
Cdd:PLN03077 195 RTCG-----GipdlARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSA----RLVFDRMPRRDCISWNAMISGYFE 265

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 951016057 677 NRMMEEAKRIFEEMKDPAPAPDVVTYNTFIATYAADSMFVEAIDVVRHMIKQGCRPNQNTYNSIVDWYCKLNLRDEA 753
Cdd:PLN03077 266 NGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEA 342
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 385-414 1.27e-03

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 36.67  E-value: 1.27e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 951016057  385 TFNALIKMYGDRGKFEEMERVFKEIKVCKC 414
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 654-782 2.03e-03

Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large family of modular RNA-binding proteins which mediate several aspects of gene expression primarily in organelles but also in the nucleus. PPR_long is the region of Arabidopsis protein-only RNase P (PRORP) enzyme that consists of up to eleven alpha-helices. PRORPs are a class of RNA processing enzymes that catalyze maturation of the 5' end of precursor tRNAs in Eukaryotes. All PPR proteins contain tandemly repeated sequence motifs (the PPR motifs) which can vary in number. The series of helix-turn-helix motifs formed by PPR motifs throughout the protein produces a superheros with a central groove that allows the protein to bind RNA. Proteins containing PPR motifs are known to have roles in transcription, RNA processing, splicing, stability, editing, and translation. Over a decade after the discovery of PPR proteins, the super-helical structure was confirmed. The protein-only mitochondrial RNase P crystal structure from Arabidopsis thaliana (PRORP1) confirmed the role of its PPR motifs in pre-tRNA binding and suggest it has evolved independently from other RNase P proteins that rely on catalytic RNA.


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 40.46  E-value: 2.03e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  654 EILDKGIEPDVV----SYNVVIY---------AYCRNRMMEEAKRIFEEMKDPAPAPDVVTYNTFIATYAADSMFVEAID 720
Cdd:pfam17177  32 ALYDAAKAEGVRlaqyHYNVLLYlcskaadatDLKPQLAADRGFEVFEAMKAQGVSPNEATYTAVARLAAAKGDGDLAFD 111

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 951016057  721 VVRHMIKQGCRPNQNTYNSIVDWYCKLNlRDEACNFVQDlgNLDPH---IAEEEKSRLLERITKK 782
Cdd:pfam17177 112 LVKEMEAAGVSPRLRSYSPALHAYCEAG-DADKAYEVEE--HMLAHgveLEEPELAALLKVSAKA 173
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 509-604 4.04e-03

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 36.18  E-value: 4.04e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057  509 KVLTEMKDCGCKPNEATYSSLLHAYANGREVErmnaLAEEIysdrikthtvllntlvlvnskvdlveqteraFLEFRKRG 588
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLK----LALEI-------------------------------FERMKKKG 45

                          90
                  ....*....|....*.
gi 951016057  589 ILPDITTMNAMLSIYG 604
Cdd:pfam13812  46 IKPTLDTYNAILGVIG 61
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
171-371 5.49e-03

Tetratricopeptide (TPR) repeat [General function prediction only];


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 39.22  E-value: 5.49e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 171 DVYGYTSLITAYANNRKYRDALKVFGKMKEVgcEPTL-ITYNAILNVYGKMGvpwtkiialvqdmkcrglapdlctyntl 249
Cdd:COG0457    7 DAEAYNNLGLAYRRLGRYEEAIEDYEKALEL--DPDDaEALYNLGLAYLRLG---------------------------- 56

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 951016057 250 isccragsLYEEALDLFEeiKVAGFTPDVV-TYNVLLDVYGKSRRPKEAIEVLKQ-MELDGFLPSvvTYNSLVSAYVRGG 327
Cdd:COG0457   57 --------RYEEALADYE--QALELDPDDAeALNNLGLALQALGRYEEALEDYDKaLELDPDDAE--ALYNLGLALLELG 124

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*
gi 951016057 328 LLEDALELKRKMVEkgIKPD-VYTYTTLLSGFVKAGKDELAMDVF 371
Cdd:COG0457  125 RYDEAIEAYERALE--LDPDdADALYNLGIALEKLGRYEEALELL 167
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 729-757 5.81e-03

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 35.01  E-value: 5.81e-03
                          10        20
                  ....*....|....*....|....*....
gi 951016057  729 GCRPNQNTYNSIVDWYCKLNLRDEACNFV 757
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELL 30
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 208-242 6.07e-03

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 35.12  E-value: 6.07e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 951016057  208 ITYNAILNVYGKMGVpWTKIIALVQDMKCRGLAPD 242
Cdd:TIGR00756   1 VTYNTLIDGLCKAGR-VEEALELFKEMKERGIEPD 34
TPR_12 pfam13424
Tetratricopeptide repeat;
243-303 6.11e-03

Tetratricopeptide repeat;


Pssm-ID: 315987 [Multi-domain]  Cd Length: 77  Bit Score: 36.21  E-value: 6.11e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 951016057  243 LCTYNTLISCCR-------AGSLYEEALDLFEEIKVAGFTPDVVTYNVLLDVYGKSRRPKEAIEVLKQ 303
Cdd:pfam13424   3 ATALNNLAAVLRrlgrydeALELLEKALEIARRLLGPDHPLTATTLLNLGRLYLELGRYEEALELLER 70
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 166-199 6.22e-03

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 35.01  E-value: 6.22e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 951016057  166 DGVEVDVYGYTSLITAYANNRKYRDALKVFGKMK 199
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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