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Conserved domains on  [gi|186478651|ref|NP_173362|]
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Pentatricopeptide repeat (PPR) superfamily protein [Arabidopsis thaliana]

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
 236-677 9.03e-36

maturation of RBCL 1; Provisional


The actual alignment was detected with superfamily member PLN03218:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 146.95  E-value: 9.03e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  236 CRS-GNVDKAMVFAKetessLGLELNVVTYNSLINGYAMIGDVEGMTRVLRLMSERGVSRNVVTYTSLIKGYCKKGLMEE 314
Cdd:PLN03218  416 CKKqRAVKEAFRFAK-----LIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDA 490

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  315 AEHVFELLKEKKLVADQHMYGVLMDGYCRTGQIRDAVRVHDNMIEIGVRTNTTICNSLINGYCKSGQLVEAEQIFSRMND 394
Cdd:PLN03218  491 MFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKA 570

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  395 WS--LKPDHHTYNTLVDGYCRAGYVDEALKLCDQMCQKEVVPTVMTYNILLKGYSRIGAFHDVLSLWKMMLKRGVNADEI 472
Cdd:PLN03218  571 EThpIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEV 650

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  473 SCSTLLEAlfklgdfneamklwenvlarglltdtitlnvmiSGLCKMekVNEAKEILDNVNIFRCKPAVQTYQALSHGYY 552
Cdd:PLN03218  651 FFSALVDV---------------------------------AGHAGD--LDKAFEILQDARKQGIKLGTVSYSSLMGACS 695

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  553 KVGNLKEAFAVKEYMERKGIFPTIEMYNTLISGAFKYRHLNKVADLVIELRARGLTPTVATYGALITGWCNIGMIDKAYA 632
Cdd:PLN03218  696 NAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLD 775

                         410       420       430       440
                  ....*....|....*....|....*....|....*....|....*
gi 186478651  633 TCFEMIEKGITLNVNICSKIANSLFRldKIDEACLLLQKIVDFDL 677
Cdd:PLN03218  776 LLSQAKEDGIKPNLVMCRCITGLCLR--RFEKACALGEPVVSFDS 818
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 788-837 6.65e-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: 72.40  E-value: 6.65e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 186478651  788 PNIVTYNALIKGLCKLGNVDRAQRLLHKLPQKGITPNAITYNTLIDGLVK 837
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 ...
 753-802 4.91e-14

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: 67.00  E-value: 4.91e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 186478651  753 PDEYTYTILIHGCAIAGDINKAFTLRDEMALKGIIPNIVTYNALIKGLCK 802
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03218 super family cl33664
maturation of RBCL 1; Provisional
 654-872 2.44e-12

maturation of RBCL 1; Provisional


The actual alignment was detected with superfamily member PLN03218:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 71.06  E-value: 2.44e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  654 NSLFRLDKIDEACLLLQKIVDFDLLlpgyqSLKEFLEASATTCLKTQKiaeSVENSTPKKLLVPNNIV--YNVAIAGLCK 731
Cdd:PLN03218  378 NRLLRDGRIKDCIDLLEDMEKRGLL-----DMDKIYHAKFFKACKKQR---AVKEAFRFAKLIRNPTLstFNMLMSVCAS 449

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  732 AGKLEDARKLFSdLLSSDRFIPDEYTYTILIHGCAIAGDINKAFTLRDEMALKGIIPNIVTYNALIKGLCKLGNVDRAQR 811
Cdd:PLN03218  450 SQDIDGALRVLR-LVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFG 528

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 186478651  812 LLHKLPQKGITPNAITYNTLIDGLVKSGNVAEA------MRLKEKMIEK------GLVRGSDKQGDVDIPKEV 872
Cdd:PLN03218  529 AYGIMRSKNVKPDRVVFNALISACGQSGAVDRAfdvlaeMKAETHPIDPdhitvgALMKACANAGQVDRAKEV 601
PPR super family cl29710
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 221-247 1.60e-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.


The actual alignment was detected with superfamily member pfam12854:

Pssm-ID: 421891 [Multi-domain]  Cd Length: 34  Bit Score: 39.64  E-value: 1.60e-04
                          10        20
                  ....*....|....*....|....*..
gi 186478651  221 VSPDVFTCSIVVNAYCRSGNVDKAMVF 247
Cdd:pfam12854   3 LKPDVVTYNTLINGLCRAGRVDEAFEL 29
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 236-677 9.03e-36

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 146.95  E-value: 9.03e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  236 CRS-GNVDKAMVFAKetessLGLELNVVTYNSLINGYAMIGDVEGMTRVLRLMSERGVSRNVVTYTSLIKGYCKKGLMEE 314
Cdd:PLN03218  416 CKKqRAVKEAFRFAK-----LIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDA 490

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  315 AEHVFELLKEKKLVADQHMYGVLMDGYCRTGQIRDAVRVHDNMIEIGVRTNTTICNSLINGYCKSGQLVEAEQIFSRMND 394
Cdd:PLN03218  491 MFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKA 570

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  395 WS--LKPDHHTYNTLVDGYCRAGYVDEALKLCDQMCQKEVVPTVMTYNILLKGYSRIGAFHDVLSLWKMMLKRGVNADEI 472
Cdd:PLN03218  571 EThpIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEV 650

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  473 SCSTLLEAlfklgdfneamklwenvlarglltdtitlnvmiSGLCKMekVNEAKEILDNVNIFRCKPAVQTYQALSHGYY 552
Cdd:PLN03218  651 FFSALVDV---------------------------------AGHAGD--LDKAFEILQDARKQGIKLGTVSYSSLMGACS 695

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  553 KVGNLKEAFAVKEYMERKGIFPTIEMYNTLISGAFKYRHLNKVADLVIELRARGLTPTVATYGALITGWCNIGMIDKAYA 632
Cdd:PLN03218  696 NAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLD 775

                         410       420       430       440
                  ....*....|....*....|....*....|....*....|....*
gi 186478651  633 TCFEMIEKGITLNVNICSKIANSLFRldKIDEACLLLQKIVDFDL 677
Cdd:PLN03218  776 LLSQAKEDGIKPNLVMCRCITGLCLR--RFEKACALGEPVVSFDS 818
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 788-837 6.65e-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: 72.40  E-value: 6.65e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 186478651  788 PNIVTYNALIKGLCKLGNVDRAQRLLHKLPQKGITPNAITYNTLIDGLVK 837
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 ...
 365-413 3.78e-14

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: 67.39  E-value: 3.78e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 186478651  365 NTTICNSLINGYCKSGQLVEAEQIFSRMNDWSLKPDHHTYNTLVDGYCR 413
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 ...
 753-802 4.91e-14

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: 67.00  E-value: 4.91e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 186478651  753 PDEYTYTILIHGCAIAGDINKAFTLRDEMALKGIIPNIVTYNALIKGLCK 802
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 654-872 2.44e-12

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 71.06  E-value: 2.44e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  654 NSLFRLDKIDEACLLLQKIVDFDLLlpgyqSLKEFLEASATTCLKTQKiaeSVENSTPKKLLVPNNIV--YNVAIAGLCK 731
Cdd:PLN03218  378 NRLLRDGRIKDCIDLLEDMEKRGLL-----DMDKIYHAKFFKACKKQR---AVKEAFRFAKLIRNPTLstFNMLMSVCAS 449

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  732 AGKLEDARKLFSdLLSSDRFIPDEYTYTILIHGCAIAGDINKAFTLRDEMALKGIIPNIVTYNALIKGLCKLGNVDRAQR 811
Cdd:PLN03218  450 SQDIDGALRVLR-LVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFG 528

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 186478651  812 LLHKLPQKGITPNAITYNTLIDGLVKSGNVAEA------MRLKEKMIEK------GLVRGSDKQGDVDIPKEV 872
Cdd:PLN03218  529 AYGIMRSKNVKPDRVVFNALISACGQSGAVDRAfdvlaeMKAETHPIDPdhitvgALMKACANAGQVDRAKEV 601
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 717-766 9.50e-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: 60.45  E-value: 9.50e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 186478651  717 PNNIVYNVAIAGLCKAGKLEDARKLFSDLLSSdRFIPDEYTYTILIHGCA 766
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKR-GVKPNVYTYTILINGLC 49
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 402-436 2.50e-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: 47.45  E-value: 2.50e-07
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 186478651  402 HTYNTLVDGYCRAGYVDEALKLCDQMCQKEVVPTV 436
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 296-570 3.66e-06

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: 49.73  E-value: 3.66e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 296 VVTYTSLIKG--YCKKGLMEEAEHVF-ELLKEKKLVADQHMYgvLMDGYCRTGQIRDAVRVHDNMIEIGvRTNTTICNSL 372
Cdd:COG2956    6 AAALGWYFKGlnYLLNGQPDKAIDLLeEALELDPETVEAHLA--LGNLYRRRGEYDRAIRIHQKLLERD-PDRAEALLEL 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 373 INGYCKSGQLVEAEQIFSRMNDwsLKPDH-HTYNTLVDGYCRAGYVDEALKLCDQMcQKEVVPTVMTYNILLKGYSRIGA 451
Cdd:COG2956   83 AQDYLKAGLLDRAEELLEKLLE--LDPDDaEALRLLAEIYEQEGDWEKAIEVLERL-LKLGPENAHAYCELAELYLEQGD 159

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 452 FHDVLSLWKMMLKrgVNADEISCSTLL-EALFKLGDFNEAMKLWENVLARGlLTDTITLNVMISGLCKMEKVNEAKEILD 530
Cdd:COG2956  160 YDEAIEALEKALK--LDPDCARALLLLaELYLEQGDYEEAIAALERALEQD-PDYLPALPRLAELYEKLGDPEEALELLR 236

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|.
gi 186478651 531 NVniFRCKPAVQTYQALSHGYYKVGNLKEAFA-VKEYMERK 570
Cdd:COG2956  237 KA--LELDPSDDLLLALADLLERKEGLEAALAlLERQLRRH 275
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 826-857 8.87e-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: 8.87e-06
                          10        20        30
                  ....*....|....*....|....*....|..
gi 186478651  826 ITYNTLIDGLVKSGNVAEAMRLKEKMIEKGLV 857
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIE 32
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 756-790 5.56e-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: 40.90  E-value: 5.56e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 186478651  756 YTYTILIHGCAIAGDINKAFTLRDEMALKGIIPNI 790
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 791-825 5.62e-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: 40.90  E-value: 5.62e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 186478651  791 VTYNALIKGLCKLGNVDRAQRLLHKLPQKGITPNA 825
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 221-247 1.60e-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: 39.64  E-value: 1.60e-04
                          10        20
                  ....*....|....*....|....*..
gi 186478651  221 VSPDVFTCSIVVNAYCRSGNVDKAMVF 247
Cdd:pfam12854   3 LKPDVVTYNTLINGLCRAGRVDEAFEL 29
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 236-677 9.03e-36

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 146.95  E-value: 9.03e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  236 CRS-GNVDKAMVFAKetessLGLELNVVTYNSLINGYAMIGDVEGMTRVLRLMSERGVSRNVVTYTSLIKGYCKKGLMEE 314
Cdd:PLN03218  416 CKKqRAVKEAFRFAK-----LIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDA 490

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  315 AEHVFELLKEKKLVADQHMYGVLMDGYCRTGQIRDAVRVHDNMIEIGVRTNTTICNSLINGYCKSGQLVEAEQIFSRMND 394
Cdd:PLN03218  491 MFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKA 570

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  395 WS--LKPDHHTYNTLVDGYCRAGYVDEALKLCDQMCQKEVVPTVMTYNILLKGYSRIGAFHDVLSLWKMMLKRGVNADEI 472
Cdd:PLN03218  571 EThpIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEV 650

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  473 SCSTLLEAlfklgdfneamklwenvlarglltdtitlnvmiSGLCKMekVNEAKEILDNVNIFRCKPAVQTYQALSHGYY 552
Cdd:PLN03218  651 FFSALVDV---------------------------------AGHAGD--LDKAFEILQDARKQGIKLGTVSYSSLMGACS 695

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  553 KVGNLKEAFAVKEYMERKGIFPTIEMYNTLISGAFKYRHLNKVADLVIELRARGLTPTVATYGALITGWCNIGMIDKAYA 632
Cdd:PLN03218  696 NAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLD 775

                         410       420       430       440
                  ....*....|....*....|....*....|....*....|....*
gi 186478651  633 TCFEMIEKGITLNVNICSKIANSLFRldKIDEACLLLQKIVDFDL 677
Cdd:PLN03218  776 LLSQAKEDGIKPNLVMCRCITGLCLR--RFEKACALGEPVVSFDS 818
PLN03077 PLN03077
Protein ECB2; Provisional
 243-834 1.91e-24

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 109.94  E-value: 1.91e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 243 KAMVFAKETESSLGLELNvvtyNSLINGYAMIGDVEGMTRVLRLMSERgvsrNVVTYTSLIKGYCKKGLMEEAEHVFELL 322
Cdd:PLN03077 107 RVCSRALSSHPSLGVRLG----NAMLSMFVRFGELVHAWYVFGKMPER----DLFSWNVLVGGYAKAGYFDEALCLYHRM 178

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 323 KEKKLVADQHMYGVLMdgycRT-GQIRDAVR---VHDNMIEIGVRTNTTICNSLINGYCKSGQLVEAEQIFSRMNdwslK 398
Cdd:PLN03077 179 LWAGVRPDVYTFPCVL----RTcGGIPDLARgreVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMP----R 250

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 399 PDHHTYNTLVDGYCRAGYVDEALKLCDQMCQKEVVPTVMTYNILLKGYSRIGAFHDVLSLWKMMLKRGVNADEISCSTLL 478
Cdd:PLN03077 251 RDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLI 330

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 479 EALFKLGDFNEAmklwENVLARGLLTDTITLNVMISGLCKM---EKVNEAKEILDNVNIfrcKPAVQTYQALSHGYYKVG 555
Cdd:PLN03077 331 QMYLSLGSWGEA----EKVFSRMETKDAVSWTAMISGYEKNglpDKALETYALMEQDNV---SPDEITIASVLSACACLG 403

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 556 NLKEAFAVKEYMERKGIFPTIEMYNTLISGAFKYRHLNKVadlvIELRARGLTPTVATYGALITGWCnigmidkAYATCF 635
Cdd:PLN03077 404 DLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKA----LEVFHNIPEKDVISWTSIIAGLR-------LNNRCF 472

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 636 E-------MIEK----GITLNVNICSKIANSLFRLDKIDEAcLLLQKIVDFDLLLPGYqslkefLEASATTCLKTQkIAE 704
Cdd:PLN03077 473 EaliffrqMLLTlkpnSVTLIAALSACARIGALMCGKEIHA-HVLRTGIGFDGFLPNA------LLDLYVRCGRMN-YAW 544

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 705 SVENSTPKKLlvpnnIVYNVAIAGLCKAGKLEDARKLFSDLLSSdRFIPDEYTYTILIHGCAIAGDINKAFTLRDEMALK 784
Cdd:PLN03077 545 NQFNSHEKDV-----VSWNILLTGYVAHGKGSMAVELFNRMVES-GVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEK 618

                        570       580       590       600       610
                 ....*....|....*....|....*....|....*....|....*....|.
gi 186478651 785 -GIIPNIVTYNALIKGLCKLGNVDRAQRLLHKLPqkgITPNAITYNTLIDG 834
Cdd:PLN03077 619 ySITPNLKHYACVVDLLGRAGKLTEAYNFINKMP---ITPDPAVWGALLNA 666
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 347-832 2.42e-21

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 100.34  E-value: 2.42e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  347 IRDAVRVHDNMIEIGVRTNTTICNSLINGYCKSGQLVEAEQIFSRMNDWSLKPDH------HTYNTLVdgycRAGYVDEA 420
Cdd:PLN03218  314 LRKGVSSATNSLSLDKKNNGVKDAELPGQSSGQAASDVEEENSLAAYNGGVSGKRkspeyiDAYNRLL----RDGRIKDC 389

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  421 LKLCDQMCQKEVVPTVMTYNI-LLKGYSRIGAFHDVLSLWKMMLkrgvnadEISCST---LLEALFKLGDFNEAMKLWEN 496
Cdd:PLN03218  390 IDLLEDMEKRGLLDMDKIYHAkFFKACKKQRAVKEAFRFAKLIR-------NPTLSTfnmLMSVCASSQDIDGALRVLRL 462

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  497 VLARGLLTDTITLNVMISGLCKMEKVNEAKEILDNVNIFRCKPAVQTYQALSHGYYKVGNLKEAFAVKEYMERKGIFPTI 576
Cdd:PLN03218  463 VQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDR 542

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  577 EMYNTLISGAFKYRHLNKVADLVIELRARG--LTPTVATYGALITGWCNIGMIDKAYATcFEMIEK-GI-------TLNV 646
Cdd:PLN03218  543 VVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKACANAGQVDRAKEV-YQMIHEyNIkgtpevyTIAV 621

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  647 NICSKIANslfrldkIDEAClllqKIVDfDLLLPGYQSLKEFLEASATTCLKTQKI--AESVENSTPKKLLVPNNIVYNV 724
Cdd:PLN03218  622 NSCSQKGD-------WDFAL----SIYD-DMKKKGVKPDEVFFSALVDVAGHAGDLdkAFEILQDARKQGIKLGTVSYSS 689

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  725 AIAGLCKAGKLEDARKLFSDLLSSdRFIPDEYTYTILIHGCAIAGDINKAFTLRDEMALKGIIPNIVTYNALIKGLCKLG 804
Cdd:PLN03218  690 LMGACSNAKNWKKALELYEDIKSI-KLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKD 768

                         490       500
                  ....*....|....*....|....*...
gi 186478651  805 NVDRAQRLLHKLPQKGITPNAITYNTLI 832
Cdd:PLN03218  769 DADVGLDLLSQAKEDGIKPNLVMCRCIT 796
PLN03077 PLN03077
Protein ECB2; Provisional
 300-854 1.03e-20

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 98.00  E-value: 1.03e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 300 TSLIKGYCKKGLMEEAEHVFELLKEKKLVADQHMYGVLMdgycRTGQIRDAV--------RVHDNMIEIGVRtnttICNS 371
Cdd:PLN03077  55 NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALF----RLCEWKRAVeegsrvcsRALSSHPSLGVR----LGNA 126

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 372 LINGYCKSGQLVEAEQIFSRMNDWSLkpdhHTYNTLVDGYCRAGYVDEALKLCDQMCQKEVVPTVMTYNILLKgysRIGA 451
Cdd:PLN03077 127 MLSMFVRFGELVHAWYVFGKMPERDL----FSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLR---TCGG 199

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 452 FHDvlslWKM-------MLKRGVNADEISCSTLLEALFKLGDFNEAMKLWENVLARglltDTITLNVMISGLCKMEKVNE 524
Cdd:PLN03077 200 IPD----LARgrevhahVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGYFENGECLE 271

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 525 AKEILDNVNIFRCKPAVQTYQALSHGYYKVGNLKEAFAVKEYMERKGIFPTIEMYNTLISGAFKYRHLNKVADLVielrA 604
Cdd:PLN03077 272 GLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVF----S 347

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 605 RGLTPTVATYGALITGWCNIGMIDKAYATCFEMIEKGITLN-VNICSKIAN--SLFRLD------KIDEACLLLQKIVDF 675
Cdd:PLN03077 348 RMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDeITIASVLSAcaCLGDLDvgvklhELAERKGLISYVVVA 427

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 676 DLLLPGYQslkefleasattclKTQKIAESVE--NSTPKKllvpNNIVYNVAIAGLCKAGKLEDARKLFSDLLSSDRfiP 753
Cdd:PLN03077 428 NALIEMYS--------------KCKCIDKALEvfHNIPEK----DVISWTSIIAGLRLNNRCFEALIFFRQMLLTLK--P 487

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 754 DEYTYTILIHGCAIAGDIN-----KAFTLRDEMALKGIIPN-------------------------IVTYNALIKGLCKL 803
Cdd:PLN03077 488 NSVTLIAALSACARIGALMcgkeiHAHVLRTGIGFDGFLPNalldlyvrcgrmnyawnqfnshekdVVSWNILLTGYVAH 567

                        570       580       590       600       610
                 ....*....|....*....|....*....|....*....|....*....|.
gi 186478651 804 GNVDRAQRLLHKLPQKGITPNAITYNTLIDGLVKSGNVAEAMRLKEKMIEK 854
Cdd:PLN03077 568 GKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEK 618
PLN03077 PLN03077
Protein ECB2; Provisional
 157-655 1.55e-20

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 97.61  E-value: 1.55e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 157 VFDMILKVYAEKGLVKNALHVFDNMGNYGRIpsllSCNSLLSNLVRKGENFVALHVYDQMISFEVSPDVFTCSIVVNAYC 236
Cdd:PLN03077 224 VVNALITMYVKCGDVVSARLVFDRMPRRDCI----SWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACE 299

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 237 RSGNVDkamvFAKETES---SLGLELNVVTYNSLINGYAMIGDVEGMTRVLRLMSergvSRNVVTYTSLIKGYCKKGLME 313
Cdd:PLN03077 300 LLGDER----LGREMHGyvvKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPD 371

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 314 EAEHVFELLKEKKLVADQHMYGVLMDGYCRTGQIRDAVRVHDNMIEIGVRTNTTICNSLINGYCKSGQLVEAEQIFSRMN 393
Cdd:PLN03077 372 KALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIP 451

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 394 DwslkPDHHTYNTLVDGYCRAGYVDEALKLCDQMCQKeVVPTVMTYNILLKGYSRIGAFHDVLSLWKMMLKRGVNADEIS 473
Cdd:PLN03077 452 E----KDVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFL 526

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 474 CSTLLEALFKLGDFNEAMKLWeNVLARglltDTITLNVMISGLCKMEKVNEAKEILDNVNIFRCKPAVQTYQALSHGYYK 553
Cdd:PLN03077 527 PNALLDLYVRCGRMNYAWNQF-NSHEK----DVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSR 601

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 554 VGNLKEAFAVKEYMERK-GIFPTIEMYNTLISGAFKYRHLNKVADLVIELRargLTPTVATYGALITGwC----NIGMID 628
Cdd:PLN03077 602 SGMVTQGLEYFHSMEEKySITPNLKHYACVVDLLGRAGKLTEAYNFINKMP---ITPDPAVWGALLNA-CrihrHVELGE 677

                        490       500
                 ....*....|....*....|....*..
gi 186478651 629 KAYATCFEMIEKGITLNVNICSKIANS 655
Cdd:PLN03077 678 LAAQHIFELDPNSVGYYILLCNLYADA 704
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 166-477 6.09e-18

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 89.17  E-value: 6.09e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  166 AEKGLVKNALHVFDNMGNYGRIPSLLSCNSLLSNLVRKGENFVALHVYDQMISFEVSPDVFTCSIVVNAYCRSGNVDKAM 245
Cdd:PLN03218  483 AKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAF 562

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  246 -VFAKETESSLGLELNVVTYNSLINGYAMIGDVEGMTRVLRLMSERGVSRNVVTYTSLIKGYCKKGLMEEAEHVFELLKE 324
Cdd:PLN03218  563 dVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKK 642

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  325 KKLVADQHMYGVLMDGYCRTGQIRDAVRVHDNMIEIGVRTNTTICNSLINGYCKSGQLVEAEQIFSRMNDWSLKPDHHTY 404
Cdd:PLN03218  643 KGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTM 722

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 186478651  405 NTLVDGYCRAGYVDEALKLCDQMCQKEVVPTVMTYNILLKGYSRIGAFHDVLSLWKMMLKRGVNADEISCSTL 477
Cdd:PLN03218  723 NALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCI 795
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 212-518 1.06e-17

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 88.40  E-value: 1.06e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  212 VYDQMISFEVSPDVFTCSIVVNAYCRSGNVDKAmvF-AKETESSLGLELNVVTYNSLINGYAMIGDVEGMTRVLRLMSER 290
Cdd:PLN03218  494 VFHEMVNAGVEANVHTFGALIDGCARAGQVAKA--FgAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAE 571

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  291 G--VSRNVVTYTSLIKGYCKKGLMEEAEHVFELLKEKKLVADQHMYGVLMDGYCRTGQIRDAVRVHDNMIEIGVRTNTTI 368
Cdd:PLN03218  572 ThpIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVF 651

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  369 CNSLINGYCKSGQLVEAEQIFSRMNDWSLKPDHHTYNTLVDGYCRAGYVDEALKLCDQMCQKEVVPTVMTYNILLKGYSR 448
Cdd:PLN03218  652 FSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCE 731

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 186478651  449 IGAFHDVLSLWKMMLKRGVNADEISCSTLLEALFKLGDFNEAMKLWENVLArglltDTITLNVM----ISGLCK 518
Cdd:PLN03218  732 GNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKE-----DGIKPNLVmcrcITGLCL 800
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 254-652 1.75e-17

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 87.23  E-value: 1.75e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 254 SLGLELNVVTYNSLINGYAMIGDVEGMTRVLRLMSERgvsrNVVTYTSLIKGYCKKGLMEEAEHVFELLKEKKLVADQHM 333
Cdd:PLN03081 151 SSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPER----NLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRT 226

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 334 YGVLMDGYCRTGQIRDAVRVHDNMIEIGVRTNTTICNSLINGYCKSGQLVEAEQIFSRMndwslkPDHHT--YNTLVDGY 411
Cdd:PLN03081 227 FVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGM------PEKTTvaWNSMLAGY 300

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 412 CRAGYVDEALKLCDQMCQKEVVPTVMTYNILLKGYSRIG-------------------------AFHDVLSLW------- 459
Cdd:PLN03081 301 ALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLAllehakqahaglirtgfpldivantALVDLYSKWgrmedar 380

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 460 ---KMMLKRGVnadeISCSTLLEALFKLGDFNEAMKLWENVLARGLLTDTITLNVMISGLCKMEKVNEAKEILDNVN-IF 535
Cdd:PLN03081 381 nvfDRMPRKNL----ISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSeNH 456

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 536 RCKPAVQTYQALSHGYYKVGNLKEAFAvkeyMERKGIF-PTIEMYNTLISGAFKYRHLnKVADLVIElRARGLTP-TVAT 613
Cdd:PLN03081 457 RIKPRAMHYACMIELLGREGLLDEAYA----MIRRAPFkPTVNMWAALLTACRIHKNL-ELGRLAAE-KLYGMGPeKLNN 530

                        410       420       430
                 ....*....|....*....|....*....|....*....
gi 186478651 614 YGALITGWCNIGMIDKAYATCFEMIEKGITLnVNICSKI 652
Cdd:PLN03081 531 YVVLLNLYNSSGRQAEAAKVVETLKRKGLSM-HPACTWI 568
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 259-632 2.17e-17

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 87.23  E-value: 2.17e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 259 LNVVTYNSLINGYAMIGDVEGMTRVLRLMSERGVSRNVVTYTSLIKGYCKKGLMEEAEHVFELLKEKKLVAdqhmYGVLM 338
Cdd:PLN03081 121 LPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLAS----WGTII 196

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 339 DGYCRTGQIRDAVRVHDNMIEIGVRTNTTICNSLINGYCKSGQLVEAEQIFSRMNDWSLKPDHHTYNTLVDGYCRAGYVD 418
Cdd:PLN03081 197 GGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIE 276

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 419 EALKLCDQMCQKevvpTVMTYNILLKGYSRIGAFHDVLSLWKMMLKRGVNADEISCSTLLEALFKLGDFNEAMKLWENVL 498
Cdd:PLN03081 277 DARCVFDGMPEK----TTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLI 352

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 499 ARGLLTDTITLNVMISGLCKMEKVNEAKEILDNVNIfrckPAVQTYQALSHGYYKVGNLKEAFAVKEYMERKGIFPTIEM 578
Cdd:PLN03081 353 RTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVT 428

                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 186478651 579 YNTLISgAFKYRHLNKVADLVIELRAR--GLTPTVATYGALITGWCNIGMIDKAYA 632
Cdd:PLN03081 429 FLAVLS-ACRYSGLSEQGWEIFQSMSEnhRIKPRAMHYACMIELLGREGLLDEAYA 483
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 788-837 6.65e-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: 72.40  E-value: 6.65e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 186478651  788 PNIVTYNALIKGLCKLGNVDRAQRLLHKLPQKGITPNAITYNTLIDGLVK 837
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 ...
 365-413 3.78e-14

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: 67.39  E-value: 3.78e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 186478651  365 NTTICNSLINGYCKSGQLVEAEQIFSRMNDWSLKPDHHTYNTLVDGYCR 413
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 ...
 753-802 4.91e-14

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: 67.00  E-value: 4.91e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 186478651  753 PDEYTYTILIHGCAIAGDINKAFTLRDEMALKGIIPNIVTYNALIKGLCK 802
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 ...
 260-308 5.87e-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: 63.92  E-value: 5.87e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 186478651  260 NVVTYNSLINGYAMIGDVEGMTRVLRLMSERGVSRNVVTYTSLIKGYCK 308
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 ...
 399-448 6.10e-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: 63.92  E-value: 6.10e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 186478651  399 PDHHTYNTLVDGYCRAGYVDEALKLCDQMCQKEVVPTVMTYNILLKGYSR 448
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 209-502 6.78e-13

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 72.60  E-value: 6.78e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 209 ALHVYDQMISFEVSPDVFTCSIVVNAYCRSGNvdkamvfaketesslgLELNVVTYNSLIngyamigdvegmtrvlrlms 288
Cdd:PLN03081 309 ALCLYYEMRDSGVSIDQFTFSIMIRIFSRLAL----------------LEHAKQAHAGLI-------------------- 352

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 289 ERGVSRNVVTYTSLIKGYCKKGLMEEAEHVFELLKEKKLVAdqhmYGVLMDGYCRTGQIRDAVRVHDNMIEIGVRTNTTI 368
Cdd:PLN03081 353 RTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLIS----WNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVT 428

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 369 CNSLINGYCKSGQLVEAEQIFSRMN-DWSLKPDHHTYNTLVDGYCRAGYVDEALKLcdqMCQKEVVPTVMTYNILLKGyS 447
Cdd:PLN03081 429 FLAVLSACRYSGLSEQGWEIFQSMSeNHRIKPRAMHYACMIELLGREGLLDEAYAM---IRRAPFKPTVNMWAALLTA-C 504

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 186478651 448 RIgafHDVLSLWKMMLKR--GVNADEISCSTLLEALF-KLGDFNEAMKLWENVLARGL 502
Cdd:PLN03081 505 RI---HKNLELGRLAAEKlyGMGPEKLNNYVVLLNLYnSSGRQAEAAKVVETLKRKGL 559
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 654-872 2.44e-12

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 71.06  E-value: 2.44e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  654 NSLFRLDKIDEACLLLQKIVDFDLLlpgyqSLKEFLEASATTCLKTQKiaeSVENSTPKKLLVPNNIV--YNVAIAGLCK 731
Cdd:PLN03218  378 NRLLRDGRIKDCIDLLEDMEKRGLL-----DMDKIYHAKFFKACKKQR---AVKEAFRFAKLIRNPTLstFNMLMSVCAS 449

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  732 AGKLEDARKLFSdLLSSDRFIPDEYTYTILIHGCAIAGDINKAFTLRDEMALKGIIPNIVTYNALIKGLCKLGNVDRAQR 811
Cdd:PLN03218  450 SQDIDGALRVLR-LVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFG 528

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 186478651  812 LLHKLPQKGITPNAITYNTLIDGLVKSGNVAEA------MRLKEKMIEK------GLVRGSDKQGDVDIPKEV 872
Cdd:PLN03218  529 AYGIMRSKNVKPDRVVFNALISACGQSGAVDRAfdvlaeMKAETHPIDPdhitvgALMKACANAGQVDRAKEV 601
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 717-766 9.50e-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: 60.45  E-value: 9.50e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 186478651  717 PNNIVYNVAIAGLCKAGKLEDARKLFSDLLSSdRFIPDEYTYTILIHGCA 766
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKR-GVKPNVYTYTILINGLC 49
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 294-343 1.09e-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: 60.45  E-value: 1.09e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 186478651  294 RNVVTYTSLIKGYCKKGLMEEAEHVFELLKEKKLVADQHMYGVLMDGYCR 343
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 397-427 1.36e-11

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: 59.67  E-value: 1.36e-11
                          10        20        30
                  ....*....|....*....|....*....|.
gi 186478651  397 LKPDHHTYNTLVDGYCRAGYVDEALKLCDQM 427
Cdd:pfam12854   3 LKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 541-857 3.60e-11

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 66.82  E-value: 3.60e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 541 VQTYQALSHGYYKVGNLKEAFAVKEYMERKGIFPTIEMYNTLISGAFKYRHLNKVADLVIELRARGLtptvATYGALITG 620
Cdd:PLN03081 123 ASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNL----ASWGTIIGG 198

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 621 WCNIGMIDKAYATCFEMIEKGI-----TLNVNICSKIANSLFRLDKIDEACLLLQKIVDFDLLLPGyqslkefLEASATT 695
Cdd:PLN03081 199 LVDAGNYREAFALFREMWEDGSdaeprTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCA-------LIDMYSK 271

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 696 CLKTQKiAESVENSTPKKLLVpnniVYNVAIAGLCKAGKLEDARKLFSDLLSSDRFIpDEYTYTILIHGCAIAGDINKAF 775
Cdd:PLN03081 272 CGDIED-ARCVFDGMPEKTTV----AWNSMLAGYALHGYSEEALCLYYEMRDSGVSI-DQFTFSIMIRIFSRLALLEHAK 345

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 776 TLRDEMALKGIIPNIVTYNALIKGLCKLGNVDRAQRLLHKLPQKgitpNAITYNTLIDGLVKSGNVAEAMRLKEKMIEKG 855
Cdd:PLN03081 346 QAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRK----NLISWNALIAGYGNHGRGTKAVEMFERMIAEG 421


                 ..
gi 186478651 856 LV 857
Cdd:PLN03081 422 VA 423
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 717-875 1.92e-10

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 64.90  E-value: 1.92e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  717 PNNIVYNVAIAGLCKAGKLEDARKLFSdLLSSDRFIPDEYTYTILIHGCAIAGDINKAFTLRDEMA--LKGIIPNIVTYN 794
Cdd:PLN03218  505 ANVHTFGALIDGCARAGQVAKAFGAYG-IMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKaeTHPIDPDHITVG 583

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  795 ALIKGLCKLGNVDRAQRLLHKLPQKGITPNAITYNTLIDGLVKSGNVAEAMRLKEKMIEKG----------LVRGSDKQG 864
Cdd:PLN03218  584 ALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGvkpdevffsaLVDVAGHAG 663

                         170
                  ....*....|.
gi 186478651  865 DVDIPKEVVLD 875
Cdd:PLN03218  664 DLDKAFEILQD 674
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 784-815 7.11e-10

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: 54.66  E-value: 7.11e-10
                          10        20        30
                  ....*....|....*....|....*....|..
gi 186478651  784 KGIIPNIVTYNALIKGLCKLGNVDRAQRLLHK 815
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDE 32
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 819-851 9.54e-10

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: 54.27  E-value: 9.54e-10
                          10        20        30
                  ....*....|....*....|....*....|...
gi 186478651  819 KGITPNAITYNTLIDGLVKSGNVAEAMRLKEKM 851
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 290-320 4.79e-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: 52.35  E-value: 4.79e-09
                          10        20        30
                  ....*....|....*....|....*....|.
gi 186478651  290 RGVSRNVVTYTSLIKGYCKKGLMEEAEHVFE 320
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLD 31
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 777-832 7.43e-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: 52.75  E-value: 7.43e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 186478651  777 LRDEMALKGIIPNIVTYNALIKGLCKLGNVDRAQRLLHKLPQKGITPNAITYNTLI 832
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAIL 57
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 434-483 1.92e-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: 51.21  E-value: 1.92e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 186478651  434 PTVMTYNILLKGYSRIGAFHDVLSLWKMMLKRGVNADEISCSTLLEALFK 483
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 528-584 6.86e-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: 50.05  E-value: 6.86e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 186478651  528 ILDNVNIFRCKPAVQTYQALSHGYYKVGNLKEAFAVKEYMERKGIFPTIEMYNTLIS 584
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILG 58
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 470-518 1.26e-07

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: 48.90  E-value: 1.26e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 186478651  470 DEISCSTLLEALFKLGDFNEAMKLWENVLARGLLTDTITLNVMISGLCK 518
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 753-798 1.42e-07

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: 49.28  E-value: 1.42e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 186478651  753 PDEYTYTILIHGCAIAGDINKAFTLRDEMALKGIIPNIVTYNALIK 798
Cdd:pfam13812  13 LNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILG 58
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 402-436 2.50e-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: 47.45  E-value: 2.50e-07
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 186478651  402 HTYNTLVDGYCRAGYVDEALKLCDQMCQKEVVPTV 436
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 255-306 4.00e-07

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: 47.74  E-value: 4.00e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 186478651  255 LGLELNVVTYNSLINGYAMIGDVEGMTRVLRLMSERGVSRNVVTYTSLIKGY 306
Cdd:pfam13812   9 DGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 823-856 5.58e-07

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: 46.97  E-value: 5.58e-07
                          10        20        30
                  ....*....|....*....|....*....|....
gi 186478651  823 PNAITYNTLIDGLVKSGNVAEAMRLKEKMIEKGL 856
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGV 34
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 297-327 9.11e-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: 9.11e-07
                          10        20        30
                  ....*....|....*....|....*....|.
gi 186478651  297 VTYTSLIKGYCKKGLMEEAEHVFELLKEKKL 327
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 731-839 1.29e-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: 50.09  E-value: 1.29e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  731 KAGKLEDARKLFSDLlSSDRFIPDEYTYTILIHGCAIAGDINKAFTLRDEMALKGIIPNIVTYNALIKGLCKLGNVDRAQ 810
Cdd:pfam17177  67 PQLAADRGFEVFEAM-KAQGVSPNEATYTAVARLAAAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAY 145

                          90       100
                  ....*....|....*....|....*....
gi 186478651  811 RLLHKLPQKGITPNAITYNTLIDGLVKSG 839
Cdd:pfam17177 146 EVEEHMLAHGVELEEPELAALLKVSAKAG 174
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 726-903 1.65e-06

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 51.79  E-value: 1.65e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 726 IAGLCKAGKLEDARKLFSDLLSSDRFIPDEYTYTILIHGCAIAGDINKAFTLRDEMALKGIIPNIVTYNALIKGLCKLGN 805
Cdd:PLN03081  94 IEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGM 173

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 806 VDRAQRLLHKLPQKgitpNAITYNTLIDGLVKSGNVAEAMRLKEKMIEKG----------LVRGSDKQGDVDIPKEVVLd 875
Cdd:PLN03081 174 LIDARRLFDEMPER----NLASWGTIIGGLVDAGNYREAFALFREMWEDGsdaeprtfvvMLRASAGLGSARAGQQLHC- 248

                        170       180       190
                 ....*....|....*....|....*....|....*..
gi 186478651 876 PEVKLG-------STGVIEMNSN--ELYDVRRVSEAV 903
Cdd:PLN03081 249 CVLKTGvvgdtfvSCALIDMYSKcgDIEDARCVFDGM 285
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 756-867 2.30e-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: 49.32  E-value: 2.30e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  756 YTYTILIHGCAIAGD---------INKAFTLRDEMALKGIIPNIVTYNALIKGLCKLGNVDRAQRLLHKLPQKGITPNAI 826
Cdd:pfam17177  47 YHYNVLLYLCSKAADatdlkpqlaADRGFEVFEAMKAQGVSPNEATYTAVARLAAAKGDGDLAFDLVKEMEAAGVSPRLR 126

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 186478651  827 TYNTLIDGLVKSGNVAEAMRLKEKMIEKG----------LVRGSDKQGDVD 867
Cdd:pfam17177 127 SYSPALHAYCEAGDADKAYEVEEHMLAHGveleepelaaLLKVSAKAGRAD 177
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 297-330 3.43e-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: 44.37  E-value: 3.43e-06
                          10        20        30
                  ....*....|....*....|....*....|....
gi 186478651  297 VTYTSLIKGYCKKGLMEEAEHVFELLKEKKLVAD 330
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 296-570 3.66e-06

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: 49.73  E-value: 3.66e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 296 VVTYTSLIKG--YCKKGLMEEAEHVF-ELLKEKKLVADQHMYgvLMDGYCRTGQIRDAVRVHDNMIEIGvRTNTTICNSL 372
Cdd:COG2956    6 AAALGWYFKGlnYLLNGQPDKAIDLLeEALELDPETVEAHLA--LGNLYRRRGEYDRAIRIHQKLLERD-PDRAEALLEL 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 373 INGYCKSGQLVEAEQIFSRMNDwsLKPDH-HTYNTLVDGYCRAGYVDEALKLCDQMcQKEVVPTVMTYNILLKGYSRIGA 451
Cdd:COG2956   83 AQDYLKAGLLDRAEELLEKLLE--LDPDDaEALRLLAEIYEQEGDWEKAIEVLERL-LKLGPENAHAYCELAELYLEQGD 159

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 452 FHDVLSLWKMMLKrgVNADEISCSTLL-EALFKLGDFNEAMKLWENVLARGlLTDTITLNVMISGLCKMEKVNEAKEILD 530
Cdd:COG2956  160 YDEAIEALEKALK--LDPDCARALLLLaELYLEQGDYEEAIAALERALEQD-PDYLPALPRLAELYEKLGDPEEALELLR 236

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|.
gi 186478651 531 NVniFRCKPAVQTYQALSHGYYKVGNLKEAFA-VKEYMERK 570
Cdd:COG2956  237 KA--LELDPSDDLLLALADLLERKEGLEAALAlLERQLRRH 275
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 574-623 4.09e-06

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: 44.66  E-value: 4.09e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 186478651  574 PTIEMYNTLISGAFKYRHLNKVADLVIELRARGLTPTVATYGALITGWCN 623
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 ...
 539-585 4.56e-06

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: 44.28  E-value: 4.56e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 186478651  539 PAVQTYQALSHGYYKVGNLKEAFAVKEYMERKGIFPTIEMYNTLISG 585
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILING 47
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 385-853 6.69e-06

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 49.87  E-value: 6.69e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 385 AEQIFSRMNDWSLKPDHHTYNTLVDGYCRAGYVDEALKLCDQMCQKEVVptvmTYNILLKGYSRIGAFHDVLSLWKMMLK 464
Cdd:PLN03081 142 VKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLA----SWGTIIGGLVDAGNYREAFALFREMWE 217

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 465 RGVNADEISCSTLLEALFKLGDFNEAMKLWENVLARGLLTDTItlnvMISGLCKMekvneakeildnvnifrckpavqty 544
Cdd:PLN03081 218 DGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTF----VSCALIDM------------------------- 268

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 545 qalshgYYKVGNLKEAFAVKEYMERKgifptiemyntlisgafkyrhlnkvadlvielrargltpTVATYGALITGWCNI 624
Cdd:PLN03081 269 ------YSKCGDIEDARCVFDGMPEK---------------------------------------TTVAWNSMLAGYALH 303

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 625 GMIDKAYATCFEMIEKGITLNVNICSKIANSLFRLDKIDEAclllqkivdfdlllpgyqslkefleasattclkTQKIAE 704
Cdd:PLN03081 304 GYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHA---------------------------------KQAHAG 350

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 705 SVENStpkkllVPNNIVYNVAIAGL-CKAGKLEDARKLFsdllssdrfipdeytytilihgcaiagdinkaftlrDEMAL 783
Cdd:PLN03081 351 LIRTG------FPLDIVANTALVDLySKWGRMEDARNVF------------------------------------DRMPR 388

                        410       420       430       440       450       460       470
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 784 KgiipNIVTYNALIKGLCKLGNVDRAQRLLHKLPQKGITPNAITYNTLIDGLVKSGNVAEAMRLKEKMIE 853
Cdd:PLN03081 389 K----NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSE 454
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 826-857 8.87e-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: 8.87e-06
                          10        20        30
                  ....*....|....*....|....*....|..
gi 186478651  826 ITYNTLIDGLVKSGNVAEAMRLKEKMIEKGLV 857
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIE 32
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 753-781 9.76e-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: 43.10  E-value: 9.76e-06
                          10        20
                  ....*....|....*....|....*....
gi 186478651  753 PDEYTYTILIHGCAIAGDINKAFTLRDEM 781
Cdd:pfam12854   5 PDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 826-856 1.13e-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: 42.84  E-value: 1.13e-05
                          10        20        30
                  ....*....|....*....|....*....|.
gi 186478651  826 ITYNTLIDGLVKSGNVAEAMRLKEKMIEKGL 856
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 403-432 1.22e-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: 42.84  E-value: 1.22e-05
                          10        20        30
                  ....*....|....*....|....*....|
gi 186478651  403 TYNTLVDGYCRAGYVDEALKLCDQMCQKEV 432
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 388-446 1.48e-05

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: 43.50  E-value: 1.48e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 186478651  388 IFSRMNDWSLKPDHHTYNTLVDGYCRAGYVDEALKLCDQMCQKEVVPTVMTYNILLKGY 446
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 343-507 2.68e-05

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: 46.24  E-value: 2.68e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  343 RTGQIRDAVRVHDNMIEIGVRTNTTICNSLINGYCKSGQLVEAE---------QIFSRMNDWSLKPDHHTYNTLVDGYCR 413
Cdd:pfam17177  23 KHADATGALALYDAAKAEGVRLAQYHYNVLLYLCSKAADATDLKpqlaadrgfEVFEAMKAQGVSPNEATYTAVARLAAA 102

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  414 AGYVDEALKLCDQMCQKEVVPTVMTYNILLKGYSRIGAFHDVLSLWKMMLKRGVNADEISCSTLLEALFKLGDfneAMKL 493
Cdd:pfam17177 103 KGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAGR---ADKV 179

                         170
                  ....*....|....
gi 186478651  494 WEnVLARglLTDTI 507
Cdd:pfam17177 180 YA-YLHR--LRDAV 190
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 368-400 2.72e-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: 2.72e-05
                          10        20        30
                  ....*....|....*....|....*....|...
gi 186478651  368 ICNSLINGYCKSGQLVEAEQIFSRMNDWSLKPD 400
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 646-857 2.81e-05

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 47.94  E-value: 2.81e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 646 VNICSKIANSLF--RLDKIDEACLLLQKIVDFDLLLPGYQSLkefleASATTCLKTQKIAESVENSTPKKLLVPNNIVYN 723
Cdd:PLN03081  88 VSLCSQIEKLVAcgRHREALELFEILEAGCPFTLPASTYDAL-----VEACIALKSIRCVKAVYWHVESSGFEPDQYMMN 162

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 724 VAIAGLCKAGKLEDARKLFSDLlsSDRfipDEYTYTILIHGCAIAGDINKAFTLRDEMALKGIIPNIVTYNALIKGLCKL 803
Cdd:PLN03081 163 RVLLMHVKCGMLIDARRLFDEM--PER---NLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGL 237

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 186478651 804 GNVdRAQRLLHKLPQK-GITPNAITYNTLIDGLVKSGNVAEAMRLKEKMIEKGLV 857
Cdd:PLN03081 238 GSA-RAGQQLHCCVLKtGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTV 291
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 715-744 3.64e-05

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: 41.56  E-value: 3.64e-05
                          10        20        30
                  ....*....|....*....|....*....|
gi 186478651  715 LVPNNIVYNVAIAGLCKAGKLEDARKLFSD 744
Cdd:pfam12854   3 LKPDVVTYNTLINGLCRAGRVDEAFELLDE 32
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 791-821 4.56e-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: 4.56e-05
                          10        20        30
                  ....*....|....*....|....*....|.
gi 186478651  791 VTYNALIKGLCKLGNVDRAQRLLHKLPQKGI 821
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 262-296 5.51e-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: 40.90  E-value: 5.51e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 186478651  262 VTYNSLINGYAMIGDVEGMTRVLRLMSERGVSRNV 296
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 756-790 5.56e-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: 40.90  E-value: 5.56e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 186478651  756 YTYTILIHGCAIAGDINKAFTLRDEMALKGIIPNI 790
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 791-825 5.62e-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: 40.90  E-value: 5.62e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 186478651  791 VTYNALIKGLCKLGNVDRAQRLLHKLPQKGITPNA 825
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 370-392 1.00e-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: 40.02  E-value: 1.00e-04
                          10        20
                  ....*....|....*....|...
gi 186478651  370 NSLINGYCKSGQLVEAEQIFSRM 392
Cdd:pfam12854  11 NTLINGLCRAGRVDEAFELLDEM 33
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 563-618 1.11e-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: 40.80  E-value: 1.11e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 186478651  563 VKEYMERKGIFPTIEMYNTLISGAFKYRHLNKVADLVIELRARGLTPTVATYGALI 618
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAIL 57
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 256-288 1.25e-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: 40.02  E-value: 1.25e-04
                          10        20        30
                  ....*....|....*....|....*....|...
gi 186478651  256 GLELNVVTYNSLINGYAMIGDVEGMTRVLRLMS 288
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 500-530 1.32e-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: 39.64  E-value: 1.32e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 186478651  500 RGLLTDTITLNVMISGLCKMEKVNEAKEILD 530
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLD 31
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 531-644 1.56e-04

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: 43.92  E-value: 1.56e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  531 NVNIFRCKPAVQTYQALshgyyKVGNLKEAFAVKEYMERKGIFPTIEMYNTLISGAFKYRHLNKVADLVIELRARGLTPT 610
Cdd:pfam17177  50 NVLLYLCSKAADATDLK-----PQLAADRGFEVFEAMKAQGVSPNEATYTAVARLAAAKGDGDLAFDLVKEMEAAGVSPR 124

                          90       100       110
                  ....*....|....*....|....*....|....
gi 186478651  611 VATYGALITGWCNIGMIDKAYATCFEMIEKGITL 644
Cdd:pfam17177 125 LRSYSPALHAYCEAGDADKAYEVEEHMLAHGVEL 158
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 221-247 1.60e-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: 39.64  E-value: 1.60e-04
                          10        20
                  ....*....|....*....|....*..
gi 186478651  221 VSPDVFTCSIVVNAYCRSGNVDKAMVF 247
Cdd:pfam12854   3 LKPDVVTYNTLINGLCRAGRVDEAFEL 29
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 368-392 2.05e-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: 2.05e-04
                          10        20
                  ....*....|....*....|....*
gi 186478651  368 ICNSLINGYCKSGQLVEAEQIFSRM 392
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELFKEM 26
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 318-450 2.05e-04

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: 43.54  E-value: 2.05e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  318 VFELLKEKKLVADQHMYGVLM----------DGYCRTGqIRDAVRVHDNMIEIGVRTNTTICNSLINGYCKSGQLVEAEQ 387
Cdd:pfam17177  33 LYDAAKAEGVRLAQYHYNVLLylcskaadatDLKPQLA-ADRGFEVFEAMKAQGVSPNEATYTAVARLAAAKGDGDLAFD 111

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 186478651  388 IFSRMNDWSLKPDHHTYNTLVDGYCRAGYVDEALKLCDQMCQKEVVPTVMTYNILLKGYSRIG 450
Cdd:pfam17177 112 LVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAG 174
PLN03077 PLN03077
Protein ECB2; Provisional
 723-856 2.47e-04

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 44.84  E-value: 2.47e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 723 NVAIAGLCKAGKLEDARKLFSDLlSSDRFIPDEYTYTILIHGCAiagdiNKAFTLRDEMALKGIIPNIVTY-----NALI 797
Cdd:PLN03077  55 NSQLRALCSHGQLEQALKLLESM-QELRVPVDEDAYVALFRLCE-----WKRAVEEGSRVCSRALSSHPSLgvrlgNAML 128

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 186478651 798 KGLCKLGNVDRAQRLLHKLPQKgitpNAITYNTLIDGLVKSGNVAEAMRLKEKMIEKGL 856
Cdd:PLN03077 129 SMFVRFGELVHAWYVFGKMPER----DLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGV 183
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 505-553 2.54e-04

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: 39.27  E-value: 2.54e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 186478651  505 DTITLNVMISGLCKMEKVNEAKEILDNVNIFRCKPAVQTYQALSHGYYK 553
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03077 PLN03077
Protein ECB2; Provisional
 258-430 2.57e-04

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 44.84  E-value: 2.57e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 258 ELNVVTYNSLINGYAMIGDVEGMTRVLRLMSERGVSRNVVTYTSLIKGYCKKGLMEEAEHVFELLKEK-KLVADQHMYGV 336
Cdd:PLN03077 551 EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKySITPNLKHYAC 630

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651 337 LMDGYCRTGQIRDAvrvHDNMIEIGVRTNTTICNSLINGyCKSGQLVE-----AEQIFsrmndwSLKPDHHTYNTLV-DG 410
Cdd:PLN03077 631 VVDLLGRAGKLTEA---YNFINKMPITPDPAVWGALLNA-CRIHRHVElgelaAQHIF------ELDPNSVGYYILLcNL 700

                        170       180
                 ....*....|....*....|
gi 186478651 411 YCRAGYVDEALKLCDQMCQK 430
Cdd:PLN03077 701 YADAGKWDEVARVRKTMREN 720
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 262-292 2.91e-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: 38.60  E-value: 2.91e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 186478651  262 VTYNSLINGYAMIGDVEGMTRVLRLMSERGV 292
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 237-362 4.09e-04

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: 42.77  E-value: 4.09e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  237 RSGNVDKAMVFAKETESSlGLELNVVTYNSLIN--GYAMIGDVE----GMTRVLRL---MSERGVSRNVVTYTSLIKGYC 307
Cdd:pfam17177  23 KHADATGALALYDAAKAE-GVRLAQYHYNVLLYlcSKAADATDLkpqlAADRGFEVfeaMKAQGVSPNEATYTAVARLAA 101

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 186478651  308 KKGLMEEAEHVFELLKEKKLVADQHMYGVLMDGYCRTGQIRDAVRVHDNMIEIGV 362
Cdd:pfam17177 102 AKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGV 156
MRP-S27 pfam10037
Mitochondrial 28S ribosomal protein S27; Members of this family of small ribosomal proteins ...
 792-856 5.14e-04

Mitochondrial 28S ribosomal protein S27; Members of this family of small ribosomal proteins possess one of three conserved blocks of sequence found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins, leaving open the possibility that MRP-S27 might be a functional partner of GTP-binding ribosomal proteins.


Pssm-ID: 462947 [Multi-domain]  Cd Length: 395  Bit Score: 43.58  E-value: 5.14e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 186478651  792 TYNALIKGLCKLGNVDRAQRLLHKLPQKGITPNAITYNTLIDGLVKSGNVAEAMRLKEKMIEKGL 856
Cdd:pfam10037 107 TSHAWIRQCLKYGAPDKALYTLKNKVQYGIFPDNFTFNLLMDSFLKNGDYKSAASVVTELMLQEA 171
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 438-467 6.27e-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: 37.83  E-value: 6.27e-04
                          10        20        30
                  ....*....|....*....|....*....|
gi 186478651  438 TYNILLKGYSRIGAFHDVLSLWKMMLKRGV 467
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 605-637 1.02e-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: 37.33  E-value: 1.02e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 186478651  605 RGLTPTVATYGALITGWCNIGMIDKAYATCFEM 637
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 333-362 1.07e-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: 37.06  E-value: 1.07e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 186478651  333 MYGVLMDGYCRTGQIRDAVRVHDNMIEIGV 362
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 282-341 1.11e-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: 38.11  E-value: 1.11e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  282 RVLRLMSERGVSRNVVTYTSLIKGYCKKGLMEEAEHVFELLKEKKLVADQHMYGVLMDGY 341
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 811-856 1.32e-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: 37.72  E-value: 1.32e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 186478651  811 RLLHKLPQKGITPNAITYNTLIDGLVKSGNVAEAMRLKEKMIEKGL 856
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGI 46
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 437-471 1.53e-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: 36.66  E-value: 1.53e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 186478651  437 MTYNILLKGYSRIGAFHDVLSLWKMMLKRGVNADE 471
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 ...
 756-786 2.06e-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: 36.29  E-value: 2.06e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 186478651  756 YTYTILIHGCAIAGDINKAFTLRDEMALKGI 786
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 720-755 2.22e-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: 36.28  E-value: 2.22e-03
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 186478651  720 IVYNVAIAGLCKAGKLEDARKLFSDLLSSDrFIPDE 755
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERG-IEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 332-359 4.05e-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: 35.51  E-value: 4.05e-03
                          10        20
                  ....*....|....*....|....*...
gi 186478651  332 HMYGVLMDGYCRTGQIRDAVRVHDNMIE 359
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKE 28
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 352-411 5.39e-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: 5.39e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 186478651  352 RVHDNMIEIGVRTNTTICNSLINGYCKSGQLVEAEQIFSRMNDWSLKPDHHTYNTLVDGY 411
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 613-646 6.18e-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: 6.18e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 186478651  613 TYGALITGWCNIGMIDKAYATCFEMIEKGITLNV 646
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 609-646 8.89e-03

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: 35.03  E-value: 8.89e-03
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 186478651  609 PTVATYGALITGWCNIGMIDKAYAtCF-EMIEKGITLNV 646
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFK-LFnEMKKRGVKPNV 38
 
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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