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Conserved domains on  [gi|334188265|ref|NP_199684|]
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Pentatricopeptide repeat (PPR) superfamily protein [Arabidopsis thaliana]

Protein Classification

pentatricopeptide repeat-containing protein( domain architecture ID 1000098)

pentatricopeptide repeat (PPR)-containing protein may form anti-parallel alpha helices and bind single-stranded RNA in a sequence-specific and modular manner

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
 131-474 2.67e-20

maturation of RBCL 1; Provisional


The actual alignment was detected with superfamily member PLN03218:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 94.94  E-value: 2.67e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265  131 ESAIQVFELLREQlWYKPNVGIYVKLIVMLGKCKQPEKAHELFQEMINEGCVVNHEVYTALVSAYSRSGRFDAAFTLLER 210
Cdd:PLN03218  454 DGALRVLRLVQEA-GLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGI 532

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265  211 MkSSHNCQPDVHTYSILIKSFLQVFAFDKVQDLLSDMRRQG--IRPNTITYNTLIDAYGKAKMfVEMESTLIQMLGEDDC 288
Cdd:PLN03218  533 M-RSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKACANAGQ-VDRAKEVYQMIHEYNI 610

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265  289 K--PDSWTMnsTLRAFGGNGQIEMMENCYEKFQSSGIEPNIRTFNILLDSYGKSGNYKKMSAVMEYMQKYHYSWTIVTYN 366
Cdd:PLN03218  611 KgtPEVYTI--AVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYS 688

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265  367 VVIDAFGRAGDLKQMEYLFRLMQSERIFPSCVTLCSLVRAYGRASKADKIGGVLRFIENSDIRLDLVFFNCLVDAYGRME 446
Cdd:PLN03218  689 SLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKD 768

                         330       340
                  ....*....|....*....|....*...
gi 334188265  447 KFAEMKGVLELMEKKGFKPDKITYRTMV 474
Cdd:PLN03218  769 DADVGLDLLSQAKEDGIKPNLVMCRCIT 796
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 131-474 2.67e-20

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 94.94  E-value: 2.67e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265  131 ESAIQVFELLREQlWYKPNVGIYVKLIVMLGKCKQPEKAHELFQEMINEGCVVNHEVYTALVSAYSRSGRFDAAFTLLER 210
Cdd:PLN03218  454 DGALRVLRLVQEA-GLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGI 532

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265  211 MkSSHNCQPDVHTYSILIKSFLQVFAFDKVQDLLSDMRRQG--IRPNTITYNTLIDAYGKAKMfVEMESTLIQMLGEDDC 288
Cdd:PLN03218  533 M-RSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKACANAGQ-VDRAKEVYQMIHEYNI 610

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265  289 K--PDSWTMnsTLRAFGGNGQIEMMENCYEKFQSSGIEPNIRTFNILLDSYGKSGNYKKMSAVMEYMQKYHYSWTIVTYN 366
Cdd:PLN03218  611 KgtPEVYTI--AVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYS 688

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265  367 VVIDAFGRAGDLKQMEYLFRLMQSERIFPSCVTLCSLVRAYGRASKADKIGGVLRFIENSDIRLDLVFFNCLVDAYGRME 446
Cdd:PLN03218  689 SLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKD 768

                         330       340
                  ....*....|....*....|....*...
gi 334188265  447 KFAEMKGVLELMEKKGFKPDKITYRTMV 474
Cdd:PLN03218  769 DADVGLDLLSQAKEDGIKPNLVMCRCIT 796
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 219-268 4.27e-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: 57.76  E-value: 4.27e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 334188265  219 PDVHTYSILIKSFLQVFAFDKVQDLLSDMRRQGIRPNTITYNTLIDAYGK 268
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 363-397 3.22e-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: 43.60  E-value: 3.22e-06
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 334188265  363 VTYNVVIDAFGRAGDLKQMEYLFRLMQSERIFPSC 397
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 165-413 2.38e-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: 43.18  E-value: 2.38e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 165 QPEKAHELFQEM--INEGcvvNHEVYTALVSAYSRSGRFDAAFTLLERMKSSHNCQPDVHTYsiLIKSFLQVFAFDKVQD 242
Cdd:COG2956   23 QPDKAIDLLEEAleLDPE---TVEAHLALGNLYRRRGEYDRAIRIHQKLLERDPDRAEALLE--LAQDYLKAGLLDRAEE 97

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 243 LLSDMRRQGIRpNTITYNTLIDAYGKAKMFVEMESTLIQMLGEDdckPDSWTMNSTL-RAFGGNGQIEMMENCYEKFQSs 321
Cdd:COG2956   98 LLEKLLELDPD-DAEALRLLAEIYEQEGDWEKAIEVLERLLKLG---PENAHAYCELaELYLEQGDYDEAIEALEKALK- 172

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 322 gIEPN-IRTFNILLDSYGKSGNYKKmsAVMEYMQKY-HYSWTIVTYNVVIDAFGRAGDLKQ-MEYLFRLMQSERIFPSCV 398
Cdd:COG2956  173 -LDPDcARALLLLAELYLEQGDYEE--AIAALERALeQDPDYLPALPRLAELYEKLGDPEEaLELLRKALELDPSDDLLL 249

                        250
                 ....*....|....*
gi 334188265 399 TLCSLVRAYGRASKA 413
Cdd:COG2956  250 ALADLLERKEGLEAA 264
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 131-474 2.67e-20

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 94.94  E-value: 2.67e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265  131 ESAIQVFELLREQlWYKPNVGIYVKLIVMLGKCKQPEKAHELFQEMINEGCVVNHEVYTALVSAYSRSGRFDAAFTLLER 210
Cdd:PLN03218  454 DGALRVLRLVQEA-GLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGI 532

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265  211 MkSSHNCQPDVHTYSILIKSFLQVFAFDKVQDLLSDMRRQG--IRPNTITYNTLIDAYGKAKMfVEMESTLIQMLGEDDC 288
Cdd:PLN03218  533 M-RSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKACANAGQ-VDRAKEVYQMIHEYNI 610

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265  289 K--PDSWTMnsTLRAFGGNGQIEMMENCYEKFQSSGIEPNIRTFNILLDSYGKSGNYKKMSAVMEYMQKYHYSWTIVTYN 366
Cdd:PLN03218  611 KgtPEVYTI--AVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYS 688

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265  367 VVIDAFGRAGDLKQMEYLFRLMQSERIFPSCVTLCSLVRAYGRASKADKIGGVLRFIENSDIRLDLVFFNCLVDAYGRME 446
Cdd:PLN03218  689 SLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKD 768

                         330       340
                  ....*....|....*....|....*...
gi 334188265  447 KFAEMKGVLELMEKKGFKPDKITYRTMV 474
Cdd:PLN03218  769 DADVGLDLLSQAKEDGIKPNLVMCRCIT 796
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 130-291 7.30e-13

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 71.45  E-value: 7.30e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265  130 WESAIQVFELLREQlWYKPNVGIYVKLIVMLGKCKQPEKAHELFQEMINEGCVVNHEVYTALVSAYSRSGRFDAAFTLLE 209
Cdd:PLN03218  630 WDFALSIYDDMKKK-GVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYE 708

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265  210 RMKSShNCQPDVHTYSILIKSFLQVFAFDKVQDLLSDMRRQGIRPNTITYNTLIDAYGKAKMFvEMESTLIQMLGEDDCK 289
Cdd:PLN03218  709 DIKSI-KLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDA-DVGLDLLSQAKEDGIK 786


                  ..
gi 334188265  290 PD 291
Cdd:PLN03218  787 PN 788
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 219-268 4.27e-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: 57.76  E-value: 4.27e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 334188265  219 PDVHTYSILIKSFLQVFAFDKVQDLLSDMRRQGIRPNTITYNTLIDAYGK 268
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 188-476 1.27e-10

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 64.13  E-value: 1.27e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265  188 YTALVSAYSRSGRFDAAFTLLERMKSShNCQPDVHTYSILIKSFLQVFAFDKVQDLLSDMRRQGIRPNTITYNTLIDAYG 267
Cdd:PLN03218  440 FNMLMSVCASSQDIDGALRVLRLVQEA-GLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCA 518

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265  268 KAKmfvemestliQMLgeddckpdswtmnstlRAFGGngqiemmencYEKFQSSGIEPNIRTFNILLDSYGKSGNYKKMS 347
Cdd:PLN03218  519 RAG----------QVA----------------KAFGA----------YGIMRSKNVKPDRVVFNALISACGQSGAVDRAF 562

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265  348 AVMEYMQKY-------HyswtiVTYNVVIDAFGRAGDLKQMEYLFRLMQSERI--FPSCVTL----CSLVRAYGRASKad 414
Cdd:PLN03218  563 DVLAEMKAEthpidpdH-----ITVGALMKACANAGQVDRAKEVYQMIHEYNIkgTPEVYTIavnsCSQKGDWDFALS-- 635

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 334188265  415 kiggVLRFIENSDIRLDLVFFNCLVDAYGRMEKFAEMKGVLELMEKKGFKPDKITYRTMVKA 476
Cdd:PLN03218  636 ----IYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGA 693
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 188-231 2.53e-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: 55.83  E-value: 2.53e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 334188265  188 YTALVSAYSRSGRFDAAFTLLERMKsSHNCQPDVHTYSILIKSF 231
Cdd:pfam13041   6 YNTLINGYCKKGKVEEAFKLFNEMK-KRGVKPNVYTYTILINGL 48
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 254-482 1.10e-07

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 54.88  E-value: 1.10e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265  254 PNTITYNTLIDAYGKAKMFvEMESTLIQMLGEDDCKPDSWTMNSTLRAFGGNGQIEMMENCYEKFQSSGIEPNIRTFNIL 333
Cdd:PLN03218  435 PTLSTFNMLMSVCASSQDI-DGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGAL 513

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265  334 LDSYGKSGNYKKMSAVMEYMQKYHYSWTIVTYNVVIDAFGRAGDLKQMEYLFRLMQSER--IFPSCVTLCSLVRAYGRAS 411
Cdd:PLN03218  514 IDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKACANAG 593

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 334188265  412 KADKIGGVLRFIENSDIRLDLVFFNCLVDAYGRMEKFAEMKGVLELMEKKGFKPDKITYRTMVKAYRISGM 482
Cdd:PLN03218  594 QVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGD 664
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 316-373 1.19e-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: 1.19e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 334188265  316 EKFQSSGIEPNIRTFNILLDSYGKSGNYKKMSAVMEYMQKYHYSWTIVTYNVVIDAFG 373
Cdd:pfam13812   4 REMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIG 61
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 431-477 1.70e-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: 47.74  E-value: 1.70e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 334188265  431 DLVFFNCLVDAYGRMEKFAEMKGVLELMEKKGFKPDKITYRTMVKAY 477
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
PLN03077 PLN03077
Protein ECB2; Provisional
 156-380 3.01e-07

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 53.31  E-value: 3.01e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 156 LIVMLGKCKQPEKAHELFQEMINEGCVvnheVYTALVSAYSRSGRFDAAFTLLERMKSShnCQPDVHTYSILIKSFLQVF 235
Cdd:PLN03077 430 LIEMYSKCKCIDKALEVFHNIPEKDVI----SWTSIIAGLRLNNRCFEALIFFRQMLLT--LKPNSVTLIAALSACARIG 503

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 236 AFDKVQDLLSDMRRQGIRPNTITYNTLIDAYGKAKmfvEMESTLIQMlgeDDCKPDSWTMNSTLRAFGGNGQIEMMENCY 315
Cdd:PLN03077 504 ALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCG---RMNYAWNQF---NSHEKDVVSWNILLTGYVAHGKGSMAVELF 577

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 334188265 316 EKFQSSGIEPNIRTFNILLDSYGKSGNYKKMSAVMEYMQ-KYHYSWTIVTYNVVIDAFGRAGDLKQ 380
Cdd:PLN03077 578 NRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEeKYSITPNLKHYACVVDLLGRAGKLTE 643
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 325-374 4.86e-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: 46.59  E-value: 4.86e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 334188265  325 PNIRTFNILLDSYGKSGNYKKMSAVMEYMQKYHYSWTIVTYNVVIDAFGR 374
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03077 PLN03077
Protein ECB2; Provisional
 165-493 4.92e-07

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 52.54  E-value: 4.92e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 165 QPEKAHELFQEMINEGCVVNHEVYTALVSAYSRSGRFDAAFTLLERMKSSHNcqpdvhTYSI-LIKSFLQVFA-FDKVQD 242
Cdd:PLN03077  66 QLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHP------SLGVrLGNAMLSMFVrFGELVH 139

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 243 LLSDMRRQGIRpNTITYNTLIDAYGKAKMFVEMESTLIQMLGEdDCKPDSWTMNSTLRAFGGNGQIEMMENCYEKFQSSG 322
Cdd:PLN03077 140 AWYVFGKMPER-DLFSWNVLVGGYAKAGYFDEALCLYHRMLWA-GVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFG 217

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 323 IEPNIRTFNILLDSYGKSGNYKKMSAVMEYMQKYhyswTIVTYNVVIDAFGRAGDLKQMEYLFRLMQSERIFPSCVTLCS 402
Cdd:PLN03077 218 FELDVDVVNALITMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITS 293

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 403 LVRAYGRASKADKIGGVLRFIENSDIRLDLVFFNCLVDAYGRMEKFAEMKGVLELMEKKgfkpDKITYRTMVKAYRISGM 482
Cdd:PLN03077 294 VISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK----DAVSWTAMISGYEKNGL 369

                        330
                 ....*....|....*..
gi 334188265 483 ------TTHVKELHGVV 493
Cdd:PLN03077 370 pdkaleTYALMEQDNVS 386
PLN03077 PLN03077
Protein ECB2; Provisional
 131-479 1.33e-06

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 51.00  E-value: 1.33e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 131 ESAIQVFELLREqLWYKPNVGIYVKLIVMLGKCKQPEKAHELFQEMINEGCVVNHEVYTALVSAYSRSGRFDAAFTLLER 210
Cdd:PLN03077 270 LEGLELFFTMRE-LSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSR 348

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 211 MKSShncqpDVHTYSILIKSFLQVFAFDKVQDLLSDMRRQGIRPNTITY------------------------------- 259
Cdd:PLN03077 349 METK-----DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIasvlsacaclgdldvgvklhelaerkglisy 423

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 260 ----NTLIDAYGKAK-------MFVEME-------STLI-----------------QMLGedDCKPDSWTMNSTLRAFGG 304
Cdd:PLN03077 424 vvvaNALIEMYSKCKcidkaleVFHNIPekdviswTSIIaglrlnnrcfealiffrQMLL--TLKPNSVTLIAALSACAR 501

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 305 NGQIEMMENCYEKFQSSGIEPNIRTFNILLDSYGKSGNYKKMSAVMEYMQKYHYSWtivtyNVVIDAFGRAGDLKQMEYL 384
Cdd:PLN03077 502 IGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSW-----NILLTGYVAHGKGSMAVEL 576

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 385 FRLMQSERIFPSCVTLCSLVRAYGRASKAdkIGGVLRF---IENSDIRLDLVFFNCLVDAYGRMEKFAEmkgVLELMEKK 461
Cdd:PLN03077 577 FNRMVESGVNPDEVTFISLLCACSRSGMV--TQGLEYFhsmEEKYSITPNLKHYACVVDLLGRAGKLTE---AYNFINKM 651

                        410
                 ....*....|....*...
gi 334188265 462 GFKPDKITYRTMVKAYRI 479
Cdd:PLN03077 652 PITPDPAVWGALLNACRI 669
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 172-231 1.57e-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: 45.43  E-value: 1.57e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265  172 LFQEMINEGCVVNHEVYTALVSAYSRSGRFDAAFTLLERMKSSHnCQPDVHTYSILIKSF 231
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKG-IKPTLDTYNAILGVI 60
PLN03077 PLN03077
Protein ECB2; Provisional
 146-484 1.60e-06

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 51.00  E-value: 1.60e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 146 YKPNVGIYVKLIVMLGKCKQPEKAHELFQEMINEGCVVnhevYTALVSAYSRSGRFDAAFTLLERMKSShNCQPDVHTYS 225
Cdd:PLN03077 218 FELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCIS----WNAMISGYFENGECLEGLELFFTMREL-SVDPDLMTIT 292

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 226 ILIKSflqvfafdkvQDLLSDMR----------RQGIRPNTITYNTLIDAYGKA-------KMFVEME-------STLI- 280
Cdd:PLN03077 293 SVISA----------CELLGDERlgremhgyvvKTGFAVDVSVCNSLIQMYLSLgswgeaeKVFSRMEtkdavswTAMIs 362

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 281 ---------------QMLGEDDCKPDSWTMNSTLRAFGGNGQIEMMENCYEKFQSSGIEPNIRTFNILLDSYGKSGNYKK 345
Cdd:PLN03077 363 gyeknglpdkaletyALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDK 442

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 346 MSAVMEYM-QKYHYSWTivtynVVIDAFGRAGDLKQMEYLFRLMQSErIFPSCVTLCSLVRAYGRA----SKADKIGGVL 420
Cdd:PLN03077 443 ALEVFHNIpEKDVISWT-----SIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIgalmCGKEIHAHVL 516

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 421 RfienSDIRLDLVFFNCLVDAY---GRME----KF------------------AEMKG--VLEL---MEKKGFKPDKITY 470
Cdd:PLN03077 517 R----TGIGFDGFLPNALLDLYvrcGRMNyawnQFnshekdvvswnilltgyvAHGKGsmAVELfnrMVESGVNPDEVTF 592

                        410
                 ....*....|....
gi 334188265 471 RTMVKAYRISGMTT 484
Cdd:PLN03077 593 ISLLCACSRSGMVT 606
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 254-339 1.74e-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: 1.74e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265  254 PNTITYNTLIDAYGKakmfvemestliqmlgeddckpdswtmnstlrafggNGQIEMMENCYEKFQSSGIEPNIRTFNIL 333
Cdd:pfam13041   1 PDVVTYNTLINGYCK------------------------------------KGKVEEAFKLFNEMKKRGVKPNVYTYTIL 44


                  ....*.
gi 334188265  334 LDSYGK 339
Cdd:pfam13041  45 INGLCK 50
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 243-305 2.35e-06

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 45.04  E-value: 2.35e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 334188265  243 LLSDMRRQGIRPNTITYNTLIDAYGKAKMFVEMESTLIQMlGEDDCKPDSWTMNSTLRAFGGN 305
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERM-KKKGIKPTLDTYNAILGVIGGR 63
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 363-397 3.22e-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: 43.60  E-value: 3.22e-06
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 334188265  363 VTYNVVIDAFGRAGDLKQMEYLFRLMQSERIFPSC 397
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 90-265 3.85e-06

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 49.48  E-value: 3.85e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265  90 ISIILRREATKSIIEKKKGSKKLLPRTVLESLHERITAL--------RWESAIQVFELLREQlwykpNVGIYVKLIVMLG 161
Cdd:PLN03081 328 FSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALvdlyskwgRMEDARNVFDRMPRK-----NLISWNALIAGYG 402

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 162 KCKQPEKAHELFQEMINEGCVVNHEVYTALVSAYSRSGRFDAAFTLLERMKSSHNCQPDVHTYSILIKSFLQVFAFDKVq 241
Cdd:PLN03081 403 NHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEA- 481

                        170       180
                 ....*....|....*....|....
gi 334188265 242 dlLSDMRRQGIRPNTITYNTLIDA 265
Cdd:PLN03081 482 --YAMIRRAPFKPTVNMWAALLTA 503
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 324-490 3.99e-06

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 49.88  E-value: 3.99e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265  324 EPNIRTFNILLDSYGKSGNYKKMSAVMEYMQKYHYSWTIVTYNVVIDAFGRAGDLKQMEYLFRLMQSERIFPSCVTLCSL 403
Cdd:PLN03218  434 NPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGAL 513

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265  404 VRAYGRASKADKIGGVLRFIENSDIRLDLVFFNCLVDAYGR-------MEKFAEMKGvlelmEKKGFKPDKITYRTMVKA 476
Cdd:PLN03218  514 IDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQsgavdraFDVLAEMKA-----ETHPIDPDHITVGALMKA 588

                         170
                  ....*....|....
gi 334188265  477 YRISGMTTHVKELH 490
Cdd:PLN03218  589 CANAGQVDRAKEVY 602
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 361-409 6.48e-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: 43.12  E-value: 6.48e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 334188265  361 TIVTYNVVIDAFGRAGDLKQMEYLFRLMQSERIFPSCVTLCSLVRAYGR 409
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 ...
 148-197 1.42e-05

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 42.35  E-value: 1.42e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 334188265  148 PNVGIYVKLIVMLGKCKQPEKAHELFQEMINEGCVVNHEVYTALVSAYSR 197
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 207-268 2.90e-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: 41.96  E-value: 2.90e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 334188265  207 LLERMKSShNCQPDVHTYSILIKSFLQVFAFDKVQDLLSDMRRQGIRPNTITYNTLIDAYGK 268
Cdd:pfam13812   2 ILREMVRD-GIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGG 62
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 251-276 3.36e-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: 40.79  E-value: 3.36e-05
                          10        20        30
                  ....*....|....*....|....*....|...
gi 334188265  251 GIRPNTITYNTLIDAYGKA-------KMFVEME 276
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAgrvdeafELLDEME 34
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 257-292 7.45e-05

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 39.75  E-value: 7.45e-05
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 334188265  257 ITYNTLIDAYGKAKMFVEMESTLIQMLgEDDCKPDS 292
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMK-ERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 187-221 7.91e-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: 39.75  E-value: 7.91e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 334188265  187 VYTALVSAYSRSGRFDAAFTLLERMKSShNCQPDV 221
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKER-GIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 435-466 9.72e-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: 39.36  E-value: 9.72e-05
                          10        20        30
                  ....*....|....*....|....*....|..
gi 334188265  435 FNCLVDAYGRMEKFAEMKGVLELMEKKGFKPD 466
Cdd:TIGR00756   3 YNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 165-481 2.26e-04

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 43.71  E-value: 2.26e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 165 QPEKAHELFQEMINEGCVVNHEVYTALVSAYSRSGRFDAAFTLlermkssHNCQ------PDVHTYSILIKSFLQVFAFD 238
Cdd:PLN03081 204 NYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQL-------HCCVlktgvvGDTFVSCALIDMYSKCGDIE 276

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 239 KVQDLLSDMRRQgirpNTITYNTLIDAYGkAKMFVEMESTLIQMLGEDDCKPDSWTMNSTLRAFGGNGQIEMMENCYEKF 318
Cdd:PLN03081 277 DARCVFDGMPEK----TTVAWNSMLAGYA-LHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGL 351

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 319 QSSGIEPNIRTFNILLDSYGKSGNYKKMSAVMEYMQKYHyswtIVTYNVVIDAFGRAGDLKQMEYLFRLMQSERIFPSCV 398
Cdd:PLN03081 352 IRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKN----LISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHV 427

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 399 TLCSLVRA---YGRASKADKIggVLRFIENSDIRLDLVFFNCLVDAYGRMEKFAEmkgVLELMEKKGFKPDKITYRTMVK 475
Cdd:PLN03081 428 TFLAVLSAcrySGLSEQGWEI--FQSMSENHRIKPRAMHYACMIELLGREGLLDE---AYAMIRRAPFKPTVNMWAALLT 502


                 ....*.
gi 334188265 476 AYRISG 481
Cdd:PLN03081 503 ACRIHK 508
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 165-413 2.38e-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: 43.18  E-value: 2.38e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 165 QPEKAHELFQEM--INEGcvvNHEVYTALVSAYSRSGRFDAAFTLLERMKSSHNCQPDVHTYsiLIKSFLQVFAFDKVQD 242
Cdd:COG2956   23 QPDKAIDLLEEAleLDPE---TVEAHLALGNLYRRRGEYDRAIRIHQKLLERDPDRAEALLE--LAQDYLKAGLLDRAEE 97

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 243 LLSDMRRQGIRpNTITYNTLIDAYGKAKMFVEMESTLIQMLGEDdckPDSWTMNSTL-RAFGGNGQIEMMENCYEKFQSs 321
Cdd:COG2956   98 LLEKLLELDPD-DAEALRLLAEIYEQEGDWEKAIEVLERLLKLG---PENAHAYCELaELYLEQGDYDEAIEALEKALK- 172

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334188265 322 gIEPN-IRTFNILLDSYGKSGNYKKmsAVMEYMQKY-HYSWTIVTYNVVIDAFGRAGDLKQ-MEYLFRLMQSERIFPSCV 398
Cdd:COG2956  173 -LDPDcARALLLLAELYLEQGDYEE--AIAALERALeQDPDYLPALPRLAELYEKLGDPEEaLELLRKALELDPSDDLLL 249

                        250
                 ....*....|....*
gi 334188265 399 TLCSLVRAYGRASKA 413
Cdd:COG2956  250 ALADLLERKEGLEAA 264
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 419-477 2.60e-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: 39.26  E-value: 2.60e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 334188265  419 VLRFIENSDIRLDLVFFNCLVDAYGRMEKFAEMKGVLELMEKKGFKPDKITYRTMVKAY 477
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 363-393 3.62e-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: 3.62e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 334188265  363 VTYNVVIDAFGRAGDLKQMEYLFRLMQSERI 393
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 322-353 7.27e-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: 36.94  E-value: 7.27e-04
                          10        20        30
                  ....*....|....*....|....*....|..
gi 334188265  322 GIEPNIRTFNILLDSYGKSGNYKKMSAVMEYM 353
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 152-184 9.23e-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: 36.66  E-value: 9.23e-04
                          10        20        30
                  ....*....|....*....|....*....|...
gi 334188265  152 IYVKLIVMLGKCKQPEKAHELFQEMINEGCVVN 184
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 362-408 9.42e-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: 37.72  E-value: 9.42e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 334188265  362 IVTYNVVIDAFGRAGDLKQMEYLFRLMQSERIFPSCVTLCSLVRAYG 408
Cdd:pfam13812  15 VNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIG 61
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 187-214 1.10e-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: 1.10e-03
                          10        20
                  ....*....|....*....|....*...
gi 334188265  187 VYTALVSAYSRSGRFDAAFTLLERMKSS 214
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELFKEMKEK 29
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 361-388 6.21e-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: 34.24  E-value: 6.21e-03
                          10        20
                  ....*....|....*....|....*...
gi 334188265  361 TIVTYNVVIDAFGRAGDLKQMEYLFRLM 388
Cdd:pfam12854   6 DVVTYNTLINGLCRAGRVDEAFELLDEM 33
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 257-285 7.19e-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: 33.98  E-value: 7.19e-03
                          10        20
                  ....*....|....*....|....*....
gi 334188265  257 ITYNTLIDAYGKAKMFVEMESTLIQMLGE 285
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEK 29
 
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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