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Conserved domains on  [gi|334184699|ref|NP_001189682|]
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Tetratricopeptide repeat (TPR)-like 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
 270-583 4.51e-24

maturation of RBCL 1; Provisional


The actual alignment was detected with superfamily member PLN03218:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 107.66  E-value: 4.51e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  270 AIDVFQRMKRDRCKPTTETYNLMINLYGKASKSYMSWKLYCEMRSHQCKPNICTYTALVNAFAREGLCEKAEEIFEQLQE 349
Cdd:PLN03218  456 ALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRS 535

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  350 DGLEPDVYVYNALMESYSRAGypyGAAEIFSLMQHMGCE-----PDRASYNIMVDAYGRAGLHSDAEAVFEEMKRLGIAP 424
Cdd:PLN03218  536 KNVKPDRVVFNALISACGQSG---AVDRAFDVLAEMKAEthpidPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKG 612

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  425 TMKSHMLLLSAYSKARDVTKCEAIVKEMSENGVEPDTFVLNSMLNLYGRLGQFTKMEKILAEMENGPCTADISTYNILIN 504
Cdd:PLN03218  613 TPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMG 692

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 334184699  505 IYGKAGFLERIEELFVELKEKNFRPDVVTWTSRIGAYSRKKLYVKCLEVFEEMIDSGCAPDGGTAKVLLSACSSEEQVE 583
Cdd:PLN03218  693 ACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDAD 771
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 175-223 1.28e-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: 48.13  E-value: 1.28e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 334184699  175 PDVICFNLLIDAYGQKFQYKEAESLYVQLLESRYVPTEDTYALLIKAYC 223
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
PPR_3 super family cl37870
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 233-298 1.22e-06

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


The actual alignment was detected with superfamily member pfam13812:

Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 45.81  E-value: 1.22e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 334184699  233 VVLVEMQNHHVSPKTIGvtvYNAYIEGLMkRKGNTEEAIDVFQRMKRDRCKPTTETYNLMINLYGK 298
Cdd:pfam13812   1 SILREMVRDGIQLNVNT---YTHLLHAYA-NVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGG 62
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 270-583 4.51e-24

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 107.66  E-value: 4.51e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  270 AIDVFQRMKRDRCKPTTETYNLMINLYGKASKSYMSWKLYCEMRSHQCKPNICTYTALVNAFAREGLCEKAEEIFEQLQE 349
Cdd:PLN03218  456 ALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRS 535

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  350 DGLEPDVYVYNALMESYSRAGypyGAAEIFSLMQHMGCE-----PDRASYNIMVDAYGRAGLHSDAEAVFEEMKRLGIAP 424
Cdd:PLN03218  536 KNVKPDRVVFNALISACGQSG---AVDRAFDVLAEMKAEthpidPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKG 612

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  425 TMKSHMLLLSAYSKARDVTKCEAIVKEMSENGVEPDTFVLNSMLNLYGRLGQFTKMEKILAEMENGPCTADISTYNILIN 504
Cdd:PLN03218  613 TPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMG 692

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 334184699  505 IYGKAGFLERIEELFVELKEKNFRPDVVTWTSRIGAYSRKKLYVKCLEVFEEMIDSGCAPDGGTAKVLLSACSSEEQVE 583
Cdd:PLN03218  693 ACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDAD 771
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 284-333 1.31e-10

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 56.60  E-value: 1.31e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 334184699  284 PTTETYNLMINLYGKASKSYMSWKLYCEMRSHQCKPNICTYTALVNAFAR 333
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 ...
 175-223 1.28e-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: 48.13  E-value: 1.28e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 334184699  175 PDVICFNLLIDAYGQKFQYKEAESLYVQLLESRYVPTEDTYALLIKAYC 223
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 260-487 3.48e-07

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: 52.04  E-value: 3.48e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 260 LMKRKGNTEEAIDVFQR-MKRDrckPTTETYNLMI-NLYGKASKSYMSWKLYCEMRSHQCKpNICTYTALVNAFAREGLC 337
Cdd:COG2956   51 LYRRRGEYDRAIRIHQKlLERD---PDRAEALLELaQDYLKAGLLDRAEELLEKLLELDPD-DAEALRLLAEIYEQEGDW 126

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 338 EKAEEIFEQLQEDGLEpDVYVYNALMESYSRAGYPYGAAEIFSlmQHMGCEPDRASYNIM-VDAYGRAGLHSDAEAVFEE 416
Cdd:COG2956  127 EKAIEVLERLLKLGPE-NAHAYCELAELYLEQGDYDEAIEALE--KALKLDPDCARALLLlAELYLEQGDYEEAIAALER 203

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 334184699 417 MkrLGIAPTMKSHMLLLS-AYSKARDVTKCEAIVKEMSENgvEPDTFVLNSMLNLYGRLGQFTKMEKILAEM 487
Cdd:COG2956  204 A--LEQDPDYLPALPRLAeLYEKLGDPEEALELLRKALEL--DPSDDLLLALADLLERKEGLEAALALLERQ 271
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 393-425 7.86e-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: 45.52  E-value: 7.86e-07
                          10        20        30
                  ....*....|....*....|....*....|...
gi 334184699  393 SYNIMVDAYGRAGLHSDAEAVFEEMKRLGIAPT 425
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 233-298 1.22e-06

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 45.81  E-value: 1.22e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 334184699  233 VVLVEMQNHHVSPKTIGvtvYNAYIEGLMkRKGNTEEAIDVFQRMKRDRCKPTTETYNLMINLYGK 298
Cdd:pfam13812   1 SILREMVRDGIQLNVNT---YTHLLHAYA-NVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGG 62
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 252-286 5.42e-04

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 37.82  E-value: 5.42e-04
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 334184699  252 VYNAYIEGLMKRkGNTEEAIDVFQRMKRDRCKPTT 286
Cdd:TIGR00756   2 TYNTLIDGLCKA-GRVEEALELFKEMKERGIEPDV 35
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 270-583 4.51e-24

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 107.66  E-value: 4.51e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  270 AIDVFQRMKRDRCKPTTETYNLMINLYGKASKSYMSWKLYCEMRSHQCKPNICTYTALVNAFAREGLCEKAEEIFEQLQE 349
Cdd:PLN03218  456 ALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRS 535

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  350 DGLEPDVYVYNALMESYSRAGypyGAAEIFSLMQHMGCE-----PDRASYNIMVDAYGRAGLHSDAEAVFEEMKRLGIAP 424
Cdd:PLN03218  536 KNVKPDRVVFNALISACGQSG---AVDRAFDVLAEMKAEthpidPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKG 612

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  425 TMKSHMLLLSAYSKARDVTKCEAIVKEMSENGVEPDTFVLNSMLNLYGRLGQFTKMEKILAEMENGPCTADISTYNILIN 504
Cdd:PLN03218  613 TPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMG 692

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 334184699  505 IYGKAGFLERIEELFVELKEKNFRPDVVTWTSRIGAYSRKKLYVKCLEVFEEMIDSGCAPDGGTAKVLLSACSSEEQVE 583
Cdd:PLN03218  693 ACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDAD 771
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 252-592 1.57e-22

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 102.65  E-value: 1.57e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  252 VYNAYIEGLMKRKGNTEEAIDvFQRMKRDrckPTTETYNLMINLYGKASKSYMSWKLYCEMRSHQCKPNICTYTALVNAF 331
Cdd:PLN03218  407 IYHAKFFKACKKQRAVKEAFR-FAKLIRN---PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTC 482

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  332 AREGLCEKAEEIFEQLQEDGLEPDVYVYNALMESYSRAGYPYGAAEIFSLMQHMGCEPDRASYNIMVDAYGRAGLHSDAE 411
Cdd:PLN03218  483 AKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAF 562

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  412 AVFEEMKRLG--IAPTMKSHMLLLSAYSKARDVTKCEAIVKEMSENGVEPDTFVLNSMLNLYGRLGQFTKMEKILAEMEN 489
Cdd:PLN03218  563 DVLAEMKAEThpIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKK 642

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  490 GPCTADISTYNILINIYGKAGFLERIEELFVELKEKNFRPDVVTWTSRIGAYSRKKLYVKCLEVFEEMIDSGCAPDGGTA 569
Cdd:PLN03218  643 KGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTM 722

                         330       340
                  ....*....|....*....|...
gi 334184699  570 KVLLSACSSEEQVEQVTSVLRTM 592
Cdd:PLN03218  723 NALITALCEGNQLPKALEVLSEM 745
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 209-576 3.81e-21

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 98.41  E-value: 3.81e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  209 VPTEDTYALLIKAYCMAGLIERAEVVLVEMQNHHVSPKTIgvtVYNAYIEGLMKrKGNTEEAIDVFQRMKRDRCKPTTET 288
Cdd:PLN03218  434 NPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCK---LYTTLISTCAK-SGKVDAMFEVFHEMVNAGVEANVHT 509

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  289 YNLMINLYGKASKSYMSWKLYCEMRSHQCKPNICTYTALVNAFAREGLCEKAeeiFEQLQEDGLE-----PDVYVYNALM 363
Cdd:PLN03218  510 FGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRA---FDVLAEMKAEthpidPDHITVGALM 586

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  364 ESYSRAGYPYGAAEIFSLMQHMGCEPDRASYNIMVDAYGRAGLHSDAEAVFEEMKRLGIAPTMKSHMLLLSAYSKARDVT 443
Cdd:PLN03218  587 KACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLD 666

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  444 KCEAIVKEMSENGVEPDTFVLNSMLNLYGRLGQFTKMEKILAEMENGPCTADISTYNILINIYGKAGFLERIEELFVELK 523
Cdd:PLN03218  667 KAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMK 746

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|...
gi 334184699  524 EKNFRPDVVTWTSRIGAYSRKKLYVKCLEVFEEMIDSGCAPDGGTAKVLLSAC 576
Cdd:PLN03218  747 RLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLC 799
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 167-426 1.41e-19

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 93.40  E-value: 1.41e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  167 ILRKSSFQPDVICFNLLIDAYGQKFQYKEAESLYVQL-LESRYV-PTEDTYALLIKAYCMAGLIERAEVVLVEMQNHHV- 243
Cdd:PLN03218  532 IMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMkAETHPIdPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIk 611

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  244 -SPKtigvtVYNAYIEGLMKrKGNTEEAIDVFQRMKRDRCKPTTETYNLMINLYGKASKSYMSWKLYCEMRSHQCKPNIC 322
Cdd:PLN03218  612 gTPE-----VYTIAVNSCSQ-KGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTV 685

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  323 TYTALVNAFAREGLCEKAEEIFEQLQEDGLEPDVYVYNALMESYSRAGYPYGAAEIFSLMQHMGCEPDRASYNIMVDAYG 402
Cdd:PLN03218  686 SYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASE 765

                         250       260
                  ....*....|....*....|....
gi 334184699  403 RAGLHSDAEAVFEEMKRLGIAPTM 426
Cdd:PLN03218  766 RKDDADVGLDLLSQAKEDGIKPNL 789
PLN03077 PLN03077
Protein ECB2; Provisional
 170-589 7.24e-19

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 91.06  E-value: 7.24e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 170 KSSFQPDVICFNLLIDAYGQKFQYKEAESLYvqlleSRyVPTED--TYALLIKAYCMAGLIERAEVVLVEMQNHHVSPKT 247
Cdd:PLN03077 316 KTGFAVDVSVCNSLIQMYLSLGSWGEAEKVF-----SR-METKDavSWTAMISGYEKNGLPDKALETYALMEQDNVSPDE 389

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 248 IG--------------------------------VTVYNAYIEGLMKRKgNTEEAIDVFQRMKRDrckpTTETYNLMINL 295
Cdd:PLN03077 390 ITiasvlsacaclgdldvgvklhelaerkglisyVVVANALIEMYSKCK-CIDKALEVFHNIPEK----DVISWTSIIAG 464

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 296 YGKASKSYMSWKLYCEMRSHqCKPNICTYTALVNAFAREGLCEKAEEIFEQLQEDGLEPDVYVYNALMESYSRAGYPYGA 375
Cdd:PLN03077 465 LRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYA 543

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 376 AEIFSLmqhmgCEPDRASYNIMVDAYGRAGLHSDAEAVFEEMKRLGIAPTMKSHMLLLSAYSKARDVTKCEAIVKEMSEN 455
Cdd:PLN03077 544 WNQFNS-----HEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEK 618

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 456 -GVEPDTFVLNSMLNLYGRLGQFTKMEKILAEMengPCTADISTYNILIN---IYGKAGFLERIEELFVELKEK------ 525
Cdd:PLN03077 619 ySITPNLKHYACVVDLLGRAGKLTEAYNFINKM---PITPDPAVWGALLNacrIHRHVELGELAAQHIFELDPNsvgyyi 695

                        410       420       430       440       450       460
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 334184699 526 ---NFRPDVVTWtsRIGAYSRKKLYVKCLEVfeemiDSGCA--PDGGTAKVLLSACSSEEQVEQVTSVL 589
Cdd:PLN03077 696 llcNLYADAGKW--DEVARVRKTMRENGLTV-----DPGCSwvEVKGKVHAFLTDDESHPQIKEINTVL 757
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 245-592 1.09e-18

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 90.31  E-value: 1.09e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 245 PKTIGVTVYNAYIEGLMKRKgNTEEAIDVFQRMKRDRCKPTTETYNLMINLYGKASKSYMSWKLYCEMRSHqckpNICTY 324
Cdd:PLN03081 118 PFTLPASTYDALVEACIALK-SIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPER----NLASW 192

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 325 TALVNAFAREGLCEKAEEIFEQLQEDGLEPDVYVYNALMESYSRAGYPYGAAEIFSLMQHMGCEPDRASYNIMVDAYGRA 404
Cdd:PLN03081 193 GTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKC 272

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 405 GLHSDAEAVFEEMKRlgiaPTMKSHMLLLSAYSKARDVTKCEAIVKEMSENGVEPDTFVLNSMLNLYGRLGQFTKMEKIL 484
Cdd:PLN03081 273 GDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAH 348

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 485 AEMENGPCTADISTYNILINIYGKAGFLERIEELFVELKEKNfrpdVVTWTSRIGAYSRKKLYVKCLEVFEEMIDSGCAP 564
Cdd:PLN03081 349 AGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKN----LISWNALIAGYGNHGRGTKAVEMFERMIAEGVAP 424

                        330       340
                 ....*....|....*....|....*...
gi 334184699 565 DGGTAKVLLSACSSEEQVEQVTSVLRTM 592
Cdd:PLN03081 425 NHVTFLAVLSACRYSGLSEQGWEIFQSM 452
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 174-470 3.27e-18

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 89.17  E-value: 3.27e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  174 QPDVICFNLLIDAYGQKFQYKEAESLYvQLLESRYV-PTEDTYALLIKAYCMAGLIERAEVVLVEM--QNHHVSPK--TI 248
Cdd:PLN03218  504 EANVHTFGALIDGCARAGQVAKAFGAY-GIMRSKNVkPDRVVFNALISACGQSGAVDRAFDVLAEMkaETHPIDPDhiTV 582

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  249 GvtvynayieGLMK---RKGNTEEAIDVFQRMKRDRCKPTTETYNLMINLYGKASKSYMSWKLYCEMRSHQCKPNICTYT 325
Cdd:PLN03218  583 G---------ALMKacaNAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFS 653

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  326 ALVNAFAREGLCEKAEEIFEQLQEDGLEPDVYVYNALMESYSRAGYPYGAAEIFSLMQHMGCEPDRASYNIMVDAYGRAG 405
Cdd:PLN03218  654 ALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGN 733

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 334184699  406 LHSDAEAVFEEMKRLGIAPTMKSHMLLLSAYSKARDVTKCEAIVKEMSENGVEPDTFVLNSMLNL 470
Cdd:PLN03218  734 QLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGL 798
PLN03077 PLN03077
Protein ECB2; Provisional
 192-578 3.75e-18

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 88.75  E-value: 3.75e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 192 QYKEAESLYVQLLESRYVPTEDTYALLIKAYCMAGLIERAEVVLVEMQNHHVSpktIGVTVYNAYIEGLMkRKGNTEEAI 271
Cdd:PLN03077  66 QLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPS---LGVRLGNAMLSMFV-RFGELVHAW 141

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 272 DVFQRM-KRDrckptTETYNLMINLYGKASKSYMSWKLYCEMRSHQCKPNICTYTALVNAFAREGLCEKAEEIFEQLQED 350
Cdd:PLN03077 142 YVFGKMpERD-----LFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRF 216

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 351 GLEPDVYVYNALMESYSRAGYPYGAAEIFSLMQHMgcepDRASYNIMVDAYgraglhsdaeavFEemkrlgiaptmkSHM 430
Cdd:PLN03077 217 GFELDVDVVNALITMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGY------------FE------------NGE 268

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 431 lllsayskardvtkCEAIVK---EMSENGVEPDTFVLNSMLNLYGRLGQFTKMEKILAEMENGPCTADISTYNILINIYG 507
Cdd:PLN03077 269 --------------CLEGLElffTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYL 334

                        330       340       350       360       370       380       390
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 334184699 508 KAGFLERIEELFVELKEKnfrpDVVTWTSRIGAYSRKKLYVKCLEVFEEMIDSGCAPDGGTAKVLLSACSS 578
Cdd:PLN03077 335 SLGSWGEAEKVFSRMETK----DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACAC 401
PLN03077 PLN03077
Protein ECB2; Provisional
 176-557 1.18e-16

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 83.75  E-value: 1.18e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 176 DVICFNLLIDAYGQKFQYKEAESLYVQLLESRYVPTEDTYALLIKAYCMAGLIERAEvvlvemQNHHVSPKT---IGVTV 252
Cdd:PLN03077 252 DCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGR------EMHGYVVKTgfaVDVSV 325

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 253 YNAYIEgLMKRKGNTEEAIDVFQRMK-RDRCKPTTetynlMINLYGKASKSYMSWKLYCEMRSHQCKPNICTYTALVNAF 331
Cdd:PLN03077 326 CNSLIQ-MYLSLGSWGEAEKVFSRMEtKDAVSWTA-----MISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSAC 399

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 332 AREGLCEKAEEIFEQLQEDGLEPDVYVYNALMESYSRAGYPYGAAEIFSLMQhmgcEPDRASYNIMVdaygrAGL---HS 408
Cdd:PLN03077 400 ACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIP----EKDVISWTSII-----AGLrlnNR 470

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 409 DAEAV--FEEMKrLGIAPTMKSHMLLLSAYSKARDVTKCEAIVKEMSENGVEPDTFVLNSMLNLYGRLGQftkMEKILAE 486
Cdd:PLN03077 471 CFEALifFRQML-LTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGR---MNYAWNQ 546

                        330       340       350       360       370       380       390
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 334184699 487 MENgpCTADISTYNILINIYGKAGFLERIEELFVELKEKNFRPDVVTWTSRIGAYSRKKLYVKCLEVFEEM 557
Cdd:PLN03077 547 FNS--HEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSM 615
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 192-565 2.92e-16

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 82.61  E-value: 2.92e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 192 QYKEAESLYVQLLESRYVPTEDTYALLIKAYCMAGLIeraevvLVEMQNHHVSPKTiGVtVYNAYIE-GL--MKRK-GNT 267
Cdd:PLN03081 204 NYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSA------RAGQQLHCCVLKT-GV-VGDTFVScALidMYSKcGDI 275

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 268 EEAIDVFQRMKRDrckpTTETYNLMINLYGKASKSYMSWKLYCEMRSHQCKPNICTYTALVNAFAREGLCEKAEEIFEQL 347
Cdd:PLN03081 276 EDARCVFDGMPEK----TTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGL 351

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 348 QEDGLEPDVYVYNALMESYSRAGYPYGAAEIFSLMQHMgcepDRASYNIMVDAYGRAGLHSDAEAVFEEMKRLGIAPTMK 427
Cdd:PLN03081 352 IRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRK----NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHV 427

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 428 SHMLLLSAYSKARDVTKCEAIVKEMSEN-GVEPDTFVLNSMLNLYGRLGQFTK--------------------------- 479
Cdd:PLN03081 428 TFLAVLSACRYSGLSEQGWEIFQSMSENhRIKPRAMHYACMIELLGREGLLDEayamirrapfkptvnmwaalltacrih 507

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 480 ----MEKILAEMENGPCTADISTYNILINIYGKAGFLERIEELFVELKEKNFR-PDVVTWTS------------RIGAYS 542
Cdd:PLN03081 508 knleLGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSmHPACTWIEvkkqdhsffsgdRLHPQS 587

                        410       420
                 ....*....|....*....|...
gi 334184699 543 RkKLYVKCLEVFEEMIDSGCAPD 565
Cdd:PLN03081 588 R-EIYQKLDELMKEISEYGYVAE 609
PLN03077 PLN03077
Protein ECB2; Provisional
 176-584 1.39e-14

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 77.20  E-value: 1.39e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 176 DVICFNLLIDAYGQKFQYKEAESLYVQLLESRYVPTEDTYALLIKAyCmAGLIEraevvLVEMQNHHVSPKTIG----VT 251
Cdd:PLN03077 151 DLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRT-C-GGIPD-----LARGREVHAHVVRFGfeldVD 223

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 252 VYNAYIEGLMKrKGNTEEAIDVFQRMKRDRCKptteTYNLMINLYGKASKSYMSWKLYCEMRSHQCKPNICTYTALVNAF 331
Cdd:PLN03077 224 VVNALITMYVK-CGDVVSARLVFDRMPRRDCI----SWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISAC 298

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 332 AREGLCEKAEEIFEQLQEDGLEPDVYVYNALMESYSRAGYPYGAAEIFSLMQHMgcepDRASYNIMVDAYGRAGLHSDAE 411
Cdd:PLN03077 299 ELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK----DAVSWTAMISGYEKNGLPDKAL 374

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 412 AVFEEMKRLGIAPT--------------------MKSHML---------------LLSAYSKARDVTKCEAIVKEMSENG 456
Cdd:PLN03077 375 ETYALMEQDNVSPDeitiasvlsacaclgdldvgVKLHELaerkglisyvvvanaLIEMYSKCKCIDKALEVFHNIPEKD 454

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 457 V------------------------------EPDTFVLNSMLNLYGRLGQFTKMEKILAEMENGPCTADISTYNILINIY 506
Cdd:PLN03077 455 ViswtsiiaglrlnnrcfealiffrqmlltlKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLY 534

                        410       420       430       440       450       460       470
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 334184699 507 GKAGFLERIEELFvELKEKnfrpDVVTWTSRIGAYSRKKLYVKCLEVFEEMIDSGCAPDGGTAKVLLSACSSEEQVEQ 584
Cdd:PLN03077 535 VRCGRMNYAWNQF-NSHEK----DVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQ 607
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 284-333 1.31e-10

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 56.60  E-value: 1.31e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 334184699  284 PTTETYNLMINLYGKASKSYMSWKLYCEMRSHQCKPNICTYTALVNAFAR 333
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 328-484 1.46e-10

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: 61.26  E-value: 1.46e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  328 VNAFAREGLCEKAEEIFEQLQEDGLEPDVYVYNALMESYSRAGYP------YGAAEIFSLMQHM---GCEPDRASYNIMV 398
Cdd:pfam17177  18 LDKCSKHADATGALALYDAAKAEGVRLAQYHYNVLLYLCSKAADAtdlkpqLAADRGFEVFEAMkaqGVSPNEATYTAVA 97

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  399 DAYGRAGLHSDAEAVFEEMKRLGIAPTMKSHMLLLSAYSKARDVTKCEAIVKEMSENGVEPDTFVLNSMLNLYGRLGQFT 478
Cdd:pfam17177  98 RLAAAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAGRAD 177


                  ....*.
gi 334184699  479 KMEKIL 484
Cdd:pfam17177 178 KVYAYL 183
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 424-594 2.12e-10

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 63.74  E-value: 2.12e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  424 PTMKSHMLLLSAYSKARDVTKCEAIVKEMSENGVEPDTFVLNSMLNLYGRLGQFTKMEKILAEMENGPCTADISTYNILI 503
Cdd:PLN03218  435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALI 514

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  504 NIYGKAGFLERIEELFVELKEKNFRPDVVTWTSRIGAYSRKKLYVKCLEVFEEM------IDsgcaPDGGTAKVLLSACS 577
Cdd:PLN03218  515 DGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMkaethpID----PDHITVGALMKACA 590

                         170
                  ....*....|....*..
gi 334184699  578 SEEQVEQVTSVLRTMHK 594
Cdd:PLN03218  591 NAGQVDRAKEVYQMIHE 607
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 174-464 6.50e-10

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 62.20  E-value: 6.50e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 174 QPDVICFNLLIDAYGQKFQYKEAESLYVQLLESRYVPTEDTYALLIKAYCMAGLIERAEvvlvemQNH-----HVSPKTI 248
Cdd:PLN03081 287 EKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAK------QAHaglirTGFPLDI 360

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 249 gvtVYNAYIEGLMKRKGNTEEAIDVFQRMKRDrckpTTETYNLMINLYGKASKSYMSWKLYCEMRSHQCKPNICTYTALV 328
Cdd:PLN03081 361 ---VANTALVDLYSKWGRMEDARNVFDRMPRK----NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVL 433

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 329 NAFAREGLCEKAEEIFEQLQED-GLEPDVYVYNALMESYSRAGY-----------PY-----------GAAEI------- 378
Cdd:PLN03081 434 SACRYSGLSEQGWEIFQSMSENhRIKPRAMHYACMIELLGREGLldeayamirraPFkptvnmwaallTACRIhknlelg 513

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 379 -FSLMQHMGCEPDR-ASYNIMVDAYGRAGLHSDAEAVFEEMKRLG---------IAPTMKSHMLLL--SAYSKARDV-TK 444
Cdd:PLN03081 514 rLAAEKLYGMGPEKlNNYVVLLNLYNSSGRQAEAAKVVETLKRKGlsmhpactwIEVKKQDHSFFSgdRLHPQSREIyQK 593

                        330       340
                 ....*....|....*....|.
gi 334184699 445 CEAIVKEMSENG-VEPDTFVL 464
Cdd:PLN03081 594 LDELMKEISEYGyVAEENELL 614
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 343-402 1.60e-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: 54.29  E-value: 1.60e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  343 IFEQLQEDGLEPDVYVYNALMESYSRAGYPYGAAEIFSLMQHMGCEPDRASYNIMVDAYG 402
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIG 61
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 354-403 3.02e-09

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 52.75  E-value: 3.02e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 334184699  354 PDVYVYNALMESYSRAGYPYGAAEIFSLMQHMGCEPDRASYNIMVDAYGR 403
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 ...
 319-368 1.55e-08

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 50.82  E-value: 1.55e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 334184699  319 PNICTYTALVNAFAREGLCEKAEEIFEQLQEDGLEPDVYVYNALMESYSR 368
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 ...
 249-294 1.59e-08

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 50.82  E-value: 1.59e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 334184699  249 GVTVYNAYIEGLMKrKGNTEEAIDVFQRMKRDRCKPTTETYNLMIN 294
Cdd:pfam13041   2 DVVTYNTLINGYCK-KGKVEEAFKLFNEMKKRGVKPNVYTYTILIN 46
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 263-420 4.09e-08

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


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 53.94  E-value: 4.09e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  263 RKGNTEEAIDVFQRMKRDRCKPTTETYNLMINLYGKAS---------KSYMSWKLYCEMRSHQCKPNICTYTALVNAFAR 333
Cdd:pfam17177  23 KHADATGALALYDAAKAEGVRLAQYHYNVLLYLCSKAAdatdlkpqlAADRGFEVFEAMKAQGVSPNEATYTAVARLAAA 102

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  334 EGLCEKAEEIFEQLQEDGLEPDVYVYNALMESYSRAGYPYGAAEIFSLMQHMGCEPDRASYNIMVDAYGRAGlhsDAEAV 413
Cdd:pfam17177 103 KGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAG---RADKV 179


                  ....*..
gi 334184699  414 FEEMKRL 420
Cdd:pfam17177 180 YAYLHRL 186
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 495-543 7.57e-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: 48.90  E-value: 7.57e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 334184699  495 DISTYNILINIYGKAGFLERIEELFVELKEKNFRPDVVTWTSRIGAYSR 543
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 ...
 389-438 1.11e-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: 48.51  E-value: 1.11e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 334184699  389 PDRASYNIMVDAYGRAGLHSDAEAVFEEMKRLGIAPTMKSHMLLLSAYSK 438
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 ...
 175-223 1.28e-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: 48.13  E-value: 1.28e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 334184699  175 PDVICFNLLIDAYGQKFQYKEAESLYVQLLESRYVPTEDTYALLIKAYC 223
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 311-366 1.39e-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: 48.51  E-value: 1.39e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 334184699  311 EMRSHQCKPNICTYTALVNAFAREGLCEKAEEIFEQLQEDGLEPDVYVYNALMESY 366
Cdd:pfam13812   5 EMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 260-487 3.48e-07

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: 52.04  E-value: 3.48e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 260 LMKRKGNTEEAIDVFQR-MKRDrckPTTETYNLMI-NLYGKASKSYMSWKLYCEMRSHQCKpNICTYTALVNAFAREGLC 337
Cdd:COG2956   51 LYRRRGEYDRAIRIHQKlLERD---PDRAEALLELaQDYLKAGLLDRAEELLEKLLELDPD-DAEALRLLAEIYEQEGDW 126

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 338 EKAEEIFEQLQEDGLEpDVYVYNALMESYSRAGYPYGAAEIFSlmQHMGCEPDRASYNIM-VDAYGRAGLHSDAEAVFEE 416
Cdd:COG2956  127 EKAIEVLERLLKLGPE-NAHAYCELAELYLEQGDYDEAIEALE--KALKLDPDCARALLLlAELYLEQGDYEEAIAALER 203

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 334184699 417 MkrLGIAPTMKSHMLLLS-AYSKARDVTKCEAIVKEMSENgvEPDTFVLNSMLNLYGRLGQFTKMEKILAEM 487
Cdd:COG2956  204 A--LEQDPDYLPALPRLAeLYEKLGDPEEALELLRKALEL--DPSDDLLLALADLLERKEGLEAALALLERQ 271
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 529-576 4.04e-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: 4.04e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 334184699  529 PDVVTWTSRIGAYSRKKLYVKCLEVFEEMIDSGCAPDGGTAKVLLSAC 576
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 385-418 5.20e-07

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


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 46.18  E-value: 5.20e-07
                          10        20        30
                  ....*....|....*....|....*....|....
gi 334184699  385 MGCEPDRASYNIMVDAYGRAGLHSDAEAVFEEMK 418
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 393-425 7.86e-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: 45.52  E-value: 7.86e-07
                          10        20        30
                  ....*....|....*....|....*....|...
gi 334184699  393 SYNIMVDAYGRAGLHSDAEAVFEEMKRLGIAPT 425
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 459-504 9.04e-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: 45.82  E-value: 9.04e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 334184699  459 PDTFVLNSMLNLYGRLGQFTKMEKILAEMENGPCTADISTYNILIN 504
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILIN 46
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 233-298 1.22e-06

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 45.81  E-value: 1.22e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 334184699  233 VVLVEMQNHHVSPKTIGvtvYNAYIEGLMkRKGNTEEAIDVFQRMKRDRCKPTTETYNLMINLYGK 298
Cdd:pfam13812   1 SILREMVRDGIQLNVNT---YTHLLHAYA-NVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGG 62
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 393-422 1.36e-06

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 44.76  E-value: 1.36e-06
                          10        20        30
                  ....*....|....*....|....*....|
gi 334184699  393 SYNIMVDAYGRAGLHSDAEAVFEEMKRLGI 422
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 413-472 6.02e-06

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 43.89  E-value: 6.02e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  413 VFEEMKRLGIAPTMKSHMLLLSAYSKARDVTKCEAIVKEMSENGVEPDTFVLNSMLNLYG 472
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIG 61
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 322-356 7.87e-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: 42.83  E-value: 7.87e-06
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 334184699  322 CTYTALVNAFAREGLCEKAEEIFEQLQEDGLEPDV 356
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 323-558 1.05e-05

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: 47.42  E-value: 1.05e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 323 TYTALVNAFAREGLCEKAEEIFEQLQEdgLEPD-VYVYNALMESYSRAGYPYGAAEIFSLMQHMgcEPDRAS-YNIMVDA 400
Cdd:COG2956   44 AHLALGNLYRRRGEYDRAIRIHQKLLE--RDPDrAEALLELAQDYLKAGLLDRAEELLEKLLEL--DPDDAEaLRLLAEI 119

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 401 YGRAGLHSDAEAVFEEMKRLGiAPTMKSHMLLLSAYSKARDVTKCEAIVKEMSEngVEPDTFVLNSML-NLYGRLGQFTK 479
Cdd:COG2956  120 YEQEGDWEKAIEVLERLLKLG-PENAHAYCELAELYLEQGDYDEAIEALEKALK--LDPDCARALLLLaELYLEQGDYEE 196

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 480 MEKILAEM-ENGPctADISTYNILINIYGKAGFLERIEELFVELKEKNFRPDVVTWTSRIgaYSRKKLYVKCLEVFEEMI 558
Cdd:COG2956  197 AIAALERAlEQDP--DYLPALPRLAELYEKLGDPEEALELLRKALELDPSDDLLLALADL--LERKEGLEAALALLERQL 272
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 448-508 1.32e-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: 43.12  E-value: 1.32e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 334184699  448 IVKEMSENGVEPDTFVLNSMLNLYGRLGQFTKMEKILAEMENGPCTADISTYNILINIYGK 508
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGG 62
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 482-541 1.33e-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: 43.12  E-value: 1.33e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  482 KILAEMENGPCTADISTYNILINIYGKAGFLERIEELFVELKEKNFRPDVVTWTSRIGAY 541
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 167-295 1.69e-05

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 47.95  E-value: 1.69e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  167 ILRKSSFQPDVICFNLLIDAYGQKFQYKEAESLYVQLLESRYVPTEDTYALLIKAYCMAGLIERAEVVLVEMQNHHVSPK 246
Cdd:PLN03218  674 DARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPN 753

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 334184699  247 TIGVTVynayiegLMK---RKGNTEEAIDVFQRMKRDRCKPTTETYNLMINL 295
Cdd:PLN03218  754 TITYSI-------LLVaseRKDDADVGLDLLSQAKEDGIKPNLVMCRCITGL 798
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 273-331 1.81e-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: 42.73  E-value: 1.81e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 334184699  273 VFQRMKRDRCKPTTETYNLMINLYGKASKSYMSWKLYCEMRSHQCKPNICTYTALVNAF 331
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 518-576 1.99e-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: 42.73  E-value: 1.99e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 334184699  518 LFVELKEKNFRPDVVTWTSRIGAYSRKKLYVKCLEVFEEMIDSGCAPDGGTAKVLLSAC 576
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 317-346 2.84e-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: 41.18  E-value: 2.84e-05
                          10        20        30
                  ....*....|....*....|....*....|
gi 334184699  317 CKPNICTYTALVNAFAREGLCEKAEEIFEQ 346
Cdd:pfam12854   3 LKPDVVTYNTLINGLCRAGRVDEAFELLDE 32
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 532-565 4.43e-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: 4.43e-05
                          10        20        30
                  ....*....|....*....|....*....|....
gi 334184699  532 VTWTSRIGAYSRKKLYVKCLEVFEEMIDSGCAPD 565
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 532-562 4.46e-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: 40.53  E-value: 4.46e-05
                          10        20        30
                  ....*....|....*....|....*....|.
gi 334184699  532 VTWTSRIGAYSRKKLYVKCLEVFEEMIDSGC 562
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 498-531 5.03e-05

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 40.52  E-value: 5.03e-05
                          10        20        30
                  ....*....|....*....|....*....|....
gi 334184699  498 TYNILINIYGKAGFLERIEELFVELKEKNFRPDV 531
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 357-390 6.00e-05

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 40.52  E-value: 6.00e-05
                          10        20        30
                  ....*....|....*....|....*....|....
gi 334184699  357 YVYNALMESYSRAGYPYGAAEIFSLMQHMGCEPD 390
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 378-438 6.94e-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: 41.19  E-value: 6.94e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 334184699  378 IFSLMQHMGCEPDRASYNIMVDAYGRAGLHSDAEAVFEEMKRLGIAPTMKSHMLLLSAYSK 438
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGG 62
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 497-527 8.87e-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: 39.76  E-value: 8.87e-05
                          10        20        30
                  ....*....|....*....|....*....|.
gi 334184699  497 STYNILINIYGKAGFLERIEELFVELKEKNF 527
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 ...
 323-352 8.96e-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: 39.76  E-value: 8.96e-05
                          10        20        30
                  ....*....|....*....|....*....|
gi 334184699  323 TYTALVNAFAREGLCEKAEEIFEQLQEDGL 352
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELFKEMKEKGI 31
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 112-417 1.60e-04

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: 43.95  E-value: 1.60e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 112 QKILSFIQKEtDPDKVADVLGAL----PSTHASWDDLINVsvqLRLNKKWDSIILVCEWILRKSSFQPDVIcfNLLIDAY 187
Cdd:COG2956   13 FKGLNYLLNG-QPDKAIDLLEEAleldPETVEAHLALGNL---YRRRGEYDRAIRIHQKLLERDPDRAEAL--LELAQDY 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 188 GQKFQYKEAESLYVQLLESRyvPT-EDTYALLIKAYCMAGLIERAEVVLVEMQNhhVSPKTIGVTVYNAYIEGlmkRKGN 266
Cdd:COG2956   87 LKAGLLDRAEELLEKLLELD--PDdAEALRLLAEIYEQEGDWEKAIEVLERLLK--LGPENAHAYCELAELYL---EQGD 159

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 267 TEEAIDVFQRmkrdrckpttetynlMINLYGKASKSYMswklycemrshqckpnictytALVNAFAREGLCEKAEEIFEQ 346
Cdd:COG2956  160 YDEAIEALEK---------------ALKLDPDCARALL---------------------LLAELYLEQGDYEEAIAALER 203

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 334184699 347 LQEdgLEPD-VYVYNALMESYSRAGYPYGAAEIfsLMQHMGCEPDRASYNIMVDAYGRAGLHSDAEAVFEEM 417
Cdd:COG2956  204 ALE--QDPDyLPALPRLAELYEKLGDPEEALEL--LRKALELDPSDDLLLALADLLERKEGLEAALALLERQ 271
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 208-238 4.81e-04

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


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 37.71  E-value: 4.81e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 334184699  208 YVPTEDTYALLIKAYCMAGLIERAEVVLVEM 238
Cdd:pfam12854   3 LKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 252-286 5.42e-04

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 37.82  E-value: 5.42e-04
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 334184699  252 VYNAYIEGLMKRkGNTEEAIDVFQRMKRDRCKPTT 286
Cdd:TIGR00756   2 TYNTLIDGLCKA-GRVEEALELFKEMKERGIEPDV 35
PLN03077 PLN03077
Protein ECB2; Provisional
 171-430 7.25e-04

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 42.53  E-value: 7.25e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 171 SSFQPDVICFNLLIDAYGQKFQYKEAESLYVQLLESRYVPTEDTYALLIKAYCMAGLIeraevvlvemqnhhvspktigv 250
Cdd:PLN03077 548 NSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMV---------------------- 605

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 251 tvynayIEGLMkrkgnteeaidVFQRMKRD-RCKPTTETYNLMINLYGKASKSYMSWKLYCEMrshQCKPNICTYTALVN 329
Cdd:PLN03077 606 ------TQGLE-----------YFHSMEEKySITPNLKHYACVVDLLGRAGKLTEAYNFINKM---PITPDPAVWGALLN 665

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699 330 A---FAREGLCE-KAEEIFEqlqedgLEP-DVYVYNALMESYSRAGYPYGAAEIFSLMQHMGCEPDRASYNIMVDAYGRA 404
Cdd:PLN03077 666 AcriHRHVELGElAAQHIFE------LDPnSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHA 739

                        250       260       270
                 ....*....|....*....|....*....|....*...
gi 334184699 405 GLHSDA------------EAVFEEMKRLGIAPTMKSHM 430
Cdd:PLN03077 740 FLTDDEshpqikeintvlEGFYEKMKASGLAGSESSSM 777
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 437-602 1.11e-03

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


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 40.84  E-value: 1.11e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  437 SKARDVTKCEAIVKEMSENGVEPDTFVLNSMLNLYGRLGQFTKMEKILA---------EMENGPCTADISTYNILINIYG 507
Cdd:pfam17177  22 SKHADATGALALYDAAKAEGVRLAQYHYNVLLYLCSKAADATDLKPQLAadrgfevfeAMKAQGVSPNEATYTAVARLAA 101

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  508 KAGFLERIEELFVELKEKNFRPDVVTWTSRIGAYSRKKLYVKCLEVFEEMIDSGCAPDGGTAKVLLSACS---SEEQVEQ 584
Cdd:pfam17177 102 AKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAkagRADKVYA 181

                         170
                  ....*....|....*...
gi 334184699  585 VTSVLRTMHKGVTVSSLV 602
Cdd:pfam17177 182 YLHRLRDAVRQVSESTAG 199
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 288-321 1.16e-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: 1.16e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 334184699  288 TYNLMINLYGKASKSYMSWKLYCEMRSHQCKPNI 321
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 432-461 1.70e-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: 1.70e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 334184699  432 LLSAYSKARDVTKCEAIVKEMSENGVEPDT 461
Cdd:TIGR00756   6 LIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 214-245 3.62e-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: 3.62e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 334184699  214 TYALLIKAYCMAGLIERAEVVLVEMQNHHVSP 245
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEP 33
Mtf2 pfam19189
Mtf2 family; This family appears to be distantly related to PPR repeats.
 412-499 4.02e-03

Mtf2 family; This family appears to be distantly related to PPR repeats.


Pssm-ID: 437034  Cd Length: 195  Bit Score: 38.93  E-value: 4.02e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334184699  412 AVFEEMKRLGIaptmKSHML---------LLSAYSKA-RDVTKCEAIVKEMSENGVEPD--TF-VLNSMLNLYGRLGQFT 478
Cdd:pfam19189  92 AIFEYAKRLSI----ESYVLgcttdvyneLLRTRWEGfRDLYGVLSLLEEMKVNGVQGDleTReILEKIRREVGEQENDP 167

                          90       100
                  ....*....|....*....|.
gi 334184699  479 KMEKILAEMENGPCTADISTY 499
Cdd:pfam19189 168 KGVGVLWSKEDKRDLDELEKY 188
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 357-387 4.61e-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: 34.75  E-value: 4.61e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 334184699  357 YVYNALMESYSRAGYPYGAAEIFSLMQHMGC 387
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
 
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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