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Conserved domains on  [gi|42573413|ref|NP_974803|]
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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
 94-476 2.68e-23

maturation of RBCL 1; Provisional


The actual alignment was detected with superfamily member PLN03218:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 104.19  E-value: 2.68e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413    94 VLLDNLVRHKKfLAVDAILHQMKYETCRFQESL-----FLNLMRhfsrsdlhDKVMEMFNLIqviarvkpslnaISTCLN 168
Cdd:PLN03218  391 DLLEDMEKRGL-LDMDKIYHAKFFKACKKQRAVkeafrFAKLIR--------NPTLSTFNML------------MSVCAS 449

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413   169 llidSGEVNLSRKLLLYAKHNlGLQPNTCIFNILVKHHCKNGDINFAFLVVEEMKRSGISyPNSITYSTLMD-CLFAHSR 247
Cdd:PLN03218  450 ----SQDIDGALRVLRLVQEA-GLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVE-ANVHTFGALIDgCARAGQV 523

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413   248 SKeAVELFEDMISKEgISPDPVTFNVMINGFCRAGEVERAKKILDFMKKNG--CNPNVYNYSALMNGFCKVGKIQEAKQT 325
Cdd:PLN03218  524 AK-AFGAYGIMRSKN-VKPDRVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKACANAGQVDRAKEV 601

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413   326 FDEVKKTGLKLDTVGYTTLMNCFCRNGETDEAMKLLGEMKASRCRADTLTYNVILRGLSSEGRSEEALQMLDQWGSEGVH 405
Cdd:PLN03218  602 YQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIK 681

                         330       340       350       360       370       380       390
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 42573413   406 LNKGSYRIILNAlCCN-GELEKAVKFLSVMSERGIWPHHATWNELVVRLCESGYTEIGVRVLIGFLRIGLIP 476
Cdd:PLN03218  682 LGTVSYSSLMGA-CSNaKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCP 752
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 94-476 2.68e-23

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 104.19  E-value: 2.68e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413    94 VLLDNLVRHKKfLAVDAILHQMKYETCRFQESL-----FLNLMRhfsrsdlhDKVMEMFNLIqviarvkpslnaISTCLN 168
Cdd:PLN03218  391 DLLEDMEKRGL-LDMDKIYHAKFFKACKKQRAVkeafrFAKLIR--------NPTLSTFNML------------MSVCAS 449

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413   169 llidSGEVNLSRKLLLYAKHNlGLQPNTCIFNILVKHHCKNGDINFAFLVVEEMKRSGISyPNSITYSTLMD-CLFAHSR 247
Cdd:PLN03218  450 ----SQDIDGALRVLRLVQEA-GLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVE-ANVHTFGALIDgCARAGQV 523

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413   248 SKeAVELFEDMISKEgISPDPVTFNVMINGFCRAGEVERAKKILDFMKKNG--CNPNVYNYSALMNGFCKVGKIQEAKQT 325
Cdd:PLN03218  524 AK-AFGAYGIMRSKN-VKPDRVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKACANAGQVDRAKEV 601

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413   326 FDEVKKTGLKLDTVGYTTLMNCFCRNGETDEAMKLLGEMKASRCRADTLTYNVILRGLSSEGRSEEALQMLDQWGSEGVH 405
Cdd:PLN03218  602 YQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIK 681

                         330       340       350       360       370       380       390
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 42573413   406 LNKGSYRIILNAlCCN-GELEKAVKFLSVMSERGIWPHHATWNELVVRLCESGYTEIGVRVLIGFLRIGLIP 476
Cdd:PLN03218  682 LGTVSYSSLMGA-CSNaKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCP 752
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 266-315 1.35e-16

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 73.55  E-value: 1.35e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 42573413   266 PDPVTFNVMINGFCRAGEVERAKKILDFMKKNGCNPNVYNYSALMNGFCK 315
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 269-303 2.75e-08

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 49.38  E-value: 2.75e-08
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 42573413   269 VTFNVMINGFCRAGEVERAKKILDFMKKNGCNPNV 303
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 94-476 2.68e-23

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 104.19  E-value: 2.68e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413    94 VLLDNLVRHKKfLAVDAILHQMKYETCRFQESL-----FLNLMRhfsrsdlhDKVMEMFNLIqviarvkpslnaISTCLN 168
Cdd:PLN03218  391 DLLEDMEKRGL-LDMDKIYHAKFFKACKKQRAVkeafrFAKLIR--------NPTLSTFNML------------MSVCAS 449

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413   169 llidSGEVNLSRKLLLYAKHNlGLQPNTCIFNILVKHHCKNGDINFAFLVVEEMKRSGISyPNSITYSTLMD-CLFAHSR 247
Cdd:PLN03218  450 ----SQDIDGALRVLRLVQEA-GLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVE-ANVHTFGALIDgCARAGQV 523

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413   248 SKeAVELFEDMISKEgISPDPVTFNVMINGFCRAGEVERAKKILDFMKKNG--CNPNVYNYSALMNGFCKVGKIQEAKQT 325
Cdd:PLN03218  524 AK-AFGAYGIMRSKN-VKPDRVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKACANAGQVDRAKEV 601

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413   326 FDEVKKTGLKLDTVGYTTLMNCFCRNGETDEAMKLLGEMKASRCRADTLTYNVILRGLSSEGRSEEALQMLDQWGSEGVH 405
Cdd:PLN03218  602 YQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIK 681

                         330       340       350       360       370       380       390
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 42573413   406 LNKGSYRIILNAlCCN-GELEKAVKFLSVMSERGIWPHHATWNELVVRLCESGYTEIGVRVLIGFLRIGLIP 476
Cdd:PLN03218  682 LGTVSYSSLMGA-CSNaKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCP 752
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 193-441 6.92e-23

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 102.65  E-value: 6.92e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413   193 QPNTCIFNILVKHHCKNGDINFAFLVVEEMK-RSGISYPNSITYSTLMDCLFAHSRSKEAVELFEdMISKEGISPDPVTF 271
Cdd:PLN03218  539 KPDRVVFNALISACGQSGAVDRAFDVLAEMKaETHPIDPDHITVGALMKACANAGQVDRAKEVYQ-MIHEYNIKGTPEVY 617

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413   272 NVMINGFCRAGEVERAKKILDFMKKNGCNPNVYNYSALMNGFCKVGKIQEAKQTFDEVKKTGLKLDTVGYTTLMNCFCRN 351
Cdd:PLN03218  618 TIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNA 697

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413   352 GETDEAMKLLGEMKASRCRADTLTYNVILRGLSSEGRSEEALQMLDQWGSEGVHLNKGSYRIILNALCCNGELEKAVKFL 431
Cdd:PLN03218  698 KNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLL 777

                         250
                  ....*....|
gi 42573413   432 SVMSERGIWP 441
Cdd:PLN03218  778 SQAKEDGIKP 787
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 266-315 1.35e-16

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 73.55  E-value: 1.35e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 42573413   266 PDPVTFNVMINGFCRAGEVERAKKILDFMKKNGCNPNVYNYSALMNGFCK 315
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 190-485 1.31e-14

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 76.45  E-value: 1.31e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413  190 LGLQPNTCIFNILVKHHCKNGDINFAFLVVEEMKRSGISYPNSITYSTLMdclfaHSRSKEAVELFEDMiSKEGISPDPV 269
Cdd:PLN03081 253 TGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYAL-----HGYSEEALCLYYEM-RDSGVSIDQF 326

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413  270 TFNVMINGFCRageverakkildfmkkngcnpnvynysalmngfckVGKIQEAKQTFDEVKKTGLKLDTVGYTTLMNCFC 349
Cdd:PLN03081 327 TFSIMIRIFSR-----------------------------------LALLEHAKQAHAGLIRTGFPLDIVANTALVDLYS 371

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413  350 RNGETDEAMKLLGEMKasrcRADTLTYNVILRGLSSEGRSEEALQMLDQWGSEGVHLNKGSYRIILNALCCNGELEKAVK 429
Cdd:PLN03081 372 KWGRMEDARNVFDRMP----RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWE 447

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 42573413  430 FLSVMSE-RGIWP---HHATWNELVVR--LCESGYTEIGvrvligflRIGLIPGPKSWGAVV 485
Cdd:PLN03081 448 IFQSMSEnHRIKPramHYACMIELLGRegLLDEAYAMIR--------RAPFKPTVNMWAALL 501
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 191-465 2.30e-14

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 75.68  E-value: 2.30e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413  191 GLQPNTCIFNILVKHHCKNGDINFAFLVVEEMKRSgisypNSITYSTLMDCLFAHSRSKEAVELFEDMIsKEGISPDPVT 270
Cdd:PLN03081 153 GFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPER-----NLASWGTIIGGLVDAGNYREAFALFREMW-EDGSDAEPRT 226

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413  271 FNVMINGFCRAGEVERAKKILDFMKKNGCNPNVYNYSALMNGFCKVGKIQEAKQTFDEV-KKTglkldTVGYTTLMNCFC 349
Cdd:PLN03081 227 FVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMpEKT-----TVAWNSMLAGYA 301

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413  350 RNGETDEAMKLLGEMKASRCRADTLTYNVILRGLSSEGRSEEALQ-------------------MLD---QWG----SEG 403
Cdd:PLN03081 302 LHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQahaglirtgfpldivantaLVDlysKWGrmedARN 381

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 42573413  404 V-----HLNKGSYRIILNALCCNGELEKAVKFLSVMSERGIWPHHATWNELVVRLCESGYTEIGVRV 465
Cdd:PLN03081 382 VfdrmpRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEI 448
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 230-280 4.88e-14

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 66.23  E-value: 4.88e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 42573413   230 PNSITYSTLMDCLFAHSRSKEAVELFEDMIsKEGISPDPVTFNVMINGFCR 280
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMK-KRGVKPNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 337-383 1.55e-12

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 62.00  E-value: 1.55e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 42573413   337 DTVGYTTLMNCFCRNGETDEAMKLLGEMKASRCRADTLTYNVILRGL 383
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 194-242 1.49e-11

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 59.30  E-value: 1.49e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 42573413   194 PNTCIFNILVKHHCKNGDINFAFLVVEEMKRSGISyPNSITYSTLMDCL 242
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVK-PNVYTYTILINGL 48
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 301-350 2.66e-11

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 58.53  E-value: 2.66e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 42573413   301 PNVYNYSALMNGFCKVGKIQEAKQTFDEVKKTGLKLDTVGYTTLMNCFCR 350
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 262-295 1.16e-10

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


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 56.20  E-value: 1.16e-10
                          10        20        30
                  ....*....|....*....|....*....|....
gi 42573413   262 EGISPDPVTFNVMINGFCRAGEVERAKKILDFMK 295
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 333-365 1.52e-09

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


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 53.12  E-value: 1.52e-09
                          10        20        30
                  ....*....|....*....|....*....|...
gi 42573413   333 GLKLDTVGYTTLMNCFCRNGETDEAMKLLGEMK 365
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 254-313 5.77e-09

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 52.36  E-value: 5.77e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413   254 LFEDMISKeGISPDPVTFNVMINGFCRAGEVERAKKILDFMKKNGCNPNVYNYSALMNGF 313
Cdd:pfam13812   2 ILREMVRD-GIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 269-303 2.75e-08

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 49.38  E-value: 2.75e-08
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 42573413   269 VTFNVMINGFCRAGEVERAKKILDFMKKNGCNPNV 303
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 326-380 6.29e-08

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 49.28  E-value: 6.29e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 42573413   326 FDEVKKTGLKLDTVGYTTLMNCFCRNGETDEAMKLLGEMKASRCRADTLTYNVIL 380
Cdd:pfam13812   3 LREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAIL 57
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 269-299 2.70e-07

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 46.69  E-value: 2.70e-07
                          10        20        30
                  ....*....|....*....|....*....|.
gi 42573413   269 VTFNVMINGFCRAGEVERAKKILDFMKKNGC 299
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 242-387 3.58e-07

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 52.95  E-value: 3.58e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413  242 LFAHSRSKEAVELFEDMISKEGISPDPVTFNVMINGFCRAGEVERAKKILDFMKKNGCNPNVYNYSALMNGFCKVGKIQE 321
Cdd:PLN03081  97 LVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLID 176

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 42573413  322 AKQTFDEVKKTGLkldtVGYTTLMNCFCRNGETDEAMKLLGEMKASRCRADTLTYNVILRGLSSEG 387
Cdd:PLN03081 177 ARRLFDEMPERNL----ASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLG 238
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 297-328 3.94e-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: 3.94e-07
                          10        20        30
                  ....*....|....*....|....*....|..
gi 42573413   297 NGCNPNVYNYSALMNGFCKVGKIQEAKQTFDE 328
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDE 32
PLN03077 PLN03077
Protein ECB2; Provisional
 198-454 6.61e-07

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 52.16  E-value: 6.61e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413  198 IFNILVKHHCKNGDINFAFLVVEEMKRSGIsypnsITYSTLMDCLFAHSRSKEAVELFEDMISKEgISPDPVTFNVMING 277
Cdd:PLN03077 224 VVNALITMYVKCGDVVSARLVFDRMPRRDC-----ISWNAMISGYFENGECLEGLELFFTMRELS-VDPDLMTITSVISA 297

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413  278 FCRAGEVERAKKILDFMKKNGCNPNVYNYSALMNGFCKVGKIQEAKQTFDEVKKTglklDTVGYTTLMNCFCRNGETDEA 357
Cdd:PLN03077 298 CELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK----DAVSWTAMISGYEKNGLPDKA 373

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413  358 MKLLGEMKASRCRADTLTYNVILRGLSSEGRseealqmLDQwgseGVHL-----NKG--SYRIILNALC-----CNgELE 425
Cdd:PLN03077 374 LETYALMEQDNVSPDEITIASVLSACACLGD-------LDV----GVKLhelaeRKGliSYVVVANALIemyskCK-CID 441

                        250       260
                 ....*....|....*....|....*....
gi 42573413  426 KAVKFLSVMSERGIwphhATWNELVVRLC 454
Cdd:PLN03077 442 KALEVFHNIPEKDV----ISWTSIIAGLR 466
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 341-373 7.60e-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: 7.60e-07
                          10        20        30
                  ....*....|....*....|....*....|...
gi 42573413   341 YTTLMNCFCRNGETDEAMKLLGEMKASRCRADT 373
Cdd:TIGR00756   3 YNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 372-419 1.23e-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: 45.43  E-value: 1.23e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 42573413   372 DTLTYNVILRGLSSEGRSEEALQMLDQWGSEGVHLNKGSYRIILNALC 419
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
PLN03077 PLN03077
Protein ECB2; Provisional
 245-500 2.03e-06

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 50.62  E-value: 2.03e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413  245 HSRSK---EAVELFEDMISKegispDPVTFNVMINGFCRAGEVERAKKILDFMKKNgCNPNVYNYSALMNGFCKVGKIQE 321
Cdd:PLN03077 434 YSKCKcidKALEVFHNIPEK-----DVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMC 507

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413  322 AKQTFDEVKKTGLKLDTVGYTTLMNCFCRNGETDEAMKllgemKASRCRADTLTYNVILRGLSSEGRSEEALQMLDQWGS 401
Cdd:PLN03077 508 GKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWN-----QFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVE 582

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413  402 EGVHLNKGSYRIILNALCCNGELEKAVKFLSVMSER-GIWP---HHATWNELVVRL--CESGYTEIGvrvligflRIGLI 475
Cdd:PLN03077 583 SGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKySITPnlkHYACVVDLLGRAgkLTEAYNFIN--------KMPIT 654

                        250       260       270
                 ....*....|....*....|....*....|...
gi 42573413  476 PGPKSWGAVVESiCK--------ERKLVHVFEL 500
Cdd:PLN03077 655 PDPAVWGALLNA-CRihrhvelgELAAQHIFEL 686
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 289-351 2.25e-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: 2.25e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 42573413   289 KILDFMKKNGCNPNVYNYSALMNGFCKVGKIQEAKQTFDEVKKTGLKLDTVGYTTLMNCFCRN 351
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGGR 63
PLN03077 PLN03077
Protein ECB2; Provisional
 199-372 6.95e-06

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 48.69  E-value: 6.95e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413  199 FNILVKHHCKNGDINFAFLVVEEMKRSGISyPNSITYSTLmdcLFAHSRS---KEAVELFEDMISKEGISPDPVTFNVMI 275
Cdd:PLN03077 557 WNILLTGYVAHGKGSMAVELFNRMVESGVN-PDEVTFISL---LCACSRSgmvTQGLEYFHSMEEKYSITPNLKHYACVV 632

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413  276 NGFCRAGEVERAKKildFMKKNGCNPNVYNYSALMNGfCKVGKIQE-----AKQTFDevkktgLKLDTVGYTTLM-NCFC 349
Cdd:PLN03077 633 DLLGRAGKLTEAYN---FINKMPITPDPAVWGALLNA-CRIHRHVElgelaAQHIFE------LDPNSVGYYILLcNLYA 702

                        170       180
                 ....*....|....*....|...
gi 42573413  350 RNGETDEAMKLLGEMKASRCRAD 372
Cdd:PLN03077 703 DAGKWDEVARVRKTMRENGLTVD 725
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 341-369 8.74e-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: 42.45  E-value: 8.74e-06
                          10        20
                  ....*....|....*....|....*....
gi 42573413   341 YTTLMNCFCRNGETDEAMKLLGEMKASRC 369
Cdd:pfam01535   3 YNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 191-223 1.23e-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: 41.95  E-value: 1.23e-05
                          10        20        30
                  ....*....|....*....|....*....|...
gi 42573413   191 GLQPNTCIFNILVKHHCKNGDINFAFLVVEEMK 223
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 233-267 7.28e-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: 7.28e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 42573413   233 ITYSTLMDCLFAHSRSKEAVELFEDMISKeGISPD 267
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKER-GIEPD 34
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 306-338 9.97e-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: 9.97e-05
                          10        20        30
                  ....*....|....*....|....*....|...
gi 42573413   306 YSALMNGFCKVGKIQEAKQTFDEVKKTGLKLDT 338
Cdd:TIGR00756   3 YNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 220-365 1.27e-04

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 44.86  E-value: 1.27e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413  220 EEMKRSGISyPNSITY-STLMDCLFAhSRSKEAVELFEDMISKEGISPDPVTFNVMINGFCRAGEVERAkkiLDFMKKNG 298
Cdd:PLN03081 415 ERMIAEGVA-PNHVTFlAVLSACRYS-GLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEA---YAMIRRAP 489

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 42573413  299 CNPNVYNYSALMNGfCKVGKIQEAKQTFDEvKKTGLKLDTVG-YTTLMNCFCRNGETDEAMKLLGEMK 365
Cdd:PLN03081 490 FKPTVNMWAALLTA-CRIHKNLELGRLAAE-KLYGMGPEKLNnYVVLLNLYNSSGRQAEAAKVVETLK 555
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 223-367 1.61e-04

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


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 43.15  E-value: 1.61e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413   223 KRSGISYPNSITYSTLMDClfahSRSKE---AVELFEDMISkEGISPDPVTFNVMINgFCRAGEV----------ERAKK 289
Cdd:pfam17177   3 KKKGKQTPESELRFQLDKC----SKHADatgALALYDAAKA-EGVRLAQYHYNVLLY-LCSKAADatdlkpqlaaDRGFE 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413   290 ILDFMKKNGCNPNVYNYSAlmngfckVGKIQEAKQTFD-------EVKKTGL--KLDTvgYTTLMNCFCRNGETDEAMKL 360
Cdd:pfam17177  77 VFEAMKAQGVSPNEATYTA-------VARLAAAKGDGDlafdlvkEMEAAGVspRLRS--YSPALHAYCEAGDADKAYEV 147


                  ....*..
gi 42573413   361 LGEMKAS 367
Cdd:pfam17177 148 EEHMLAH 154
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 208-361 2.16e-04

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


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 42.77  E-value: 2.16e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413   208 KNGDINFAFLVVEEMKRSGISYP----NSITY----STLMDCLFAHSRSKEAVELFEDMISKeGISPDPVTFNVMINGFC 279
Cdd:pfam17177  23 KHADATGALALYDAAKAEGVRLAqyhyNVLLYlcskAADATDLKPQLAADRGFEVFEAMKAQ-GVSPNEATYTAVARLAA 101

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413   280 RAGEVERAKKILDFMKKNGCNPNVYNYSALMNGFCKVGKIQEAKQTFDEVKKTGLKLDTVGYTTLMNCFCRNGETDEAMK 359
Cdd:pfam17177 102 AKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAGRADKVYA 181


                  ..
gi 42573413   360 LL 361
Cdd:pfam17177 182 YL 183
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 217-278 2.39e-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: 2.39e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 42573413   217 LVVEEMKRSGISyPNSITYSTLMDCLFAHSRSKEAVELFEDMiSKEGISPDPVTFNVMINGF 278
Cdd:pfam13812   1 SILREMVRDGIQ-LNVNTYTHLLHAYANVGNLKLALEIFERM-KKKGIKPTLDTYNAILGVI 60
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 197-232 5.35e-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: 37.43  E-value: 5.35e-04
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 42573413   197 CIFNILVKHHCKNGDINFAFLVVEEMKRSGISyPNS 232
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIE-PDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 410-441 1.73e-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: 35.89  E-value: 1.73e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 42573413   410 SYRIILNALCCNGELEKAVKFLSVMSERGIWP 441
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEP 33
PLN03077 PLN03077
Protein ECB2; Provisional
 129-364 2.25e-03

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 40.60  E-value: 2.25e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413  129 NLMRHFSRSDLHDKVMEMFNLIqviarvkPSLNAIS-------TCLNllidsgevNLSRKLLLYAKHNLG-LQPNTCIFN 200
Cdd:PLN03077 429 ALIEMYSKCKCIDKALEVFHNI-------PEKDVISwtsiiagLRLN--------NRCFEALIFFRQMLLtLKPNSVTLI 493

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413  201 ILVKHHCKNGDINFAFLVVEEMKRSGISY----PNSitystLMDCLFAHSRSKEAVELFEdmiSKEgisPDPVTFNVMIN 276
Cdd:PLN03077 494 AALSACARIGALMCGKEIHAHVLRTGIGFdgflPNA-----LLDLYVRCGRMNYAWNQFN---SHE---KDVVSWNILLT 562

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42573413  277 GFCRAGEVERAKKILDFMKKNGCNPNVYNYSALMNGFCKVGKIQEAKQTFDEVK-KTGLKLDTVGYTTLMNCFCRNGETD 355
Cdd:PLN03077 563 GYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEeKYSITPNLKHYACVVDLLGRAGKLT 642


                 ....*....
gi 42573413  356 EAMKLLGEM 364
Cdd:PLN03077 643 EAYNFINKM 651
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 233-261 4.13e-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: 4.13e-03
                          10        20
                  ....*....|....*....|....*....
gi 42573413   233 ITYSTLMDCLFAHSRSKEAVELFEDMISK 261
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEK 29
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 375-407 4.40e-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: 34.74  E-value: 4.40e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 42573413   375 TYNVILRGLSSEGRSEEALQMLDQWGSEGVHLN 407
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 189-239 5.69e-03

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 35.41  E-value: 5.69e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 42573413   189 NLGLQPNTCIFNILVKHHCKNGDINFAFLVVEEMKRSGISyPNSITYSTLM 239
Cdd:pfam13812   8 RDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIK-PTLDTYNAIL 57
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 198-227 7.38e-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: 7.38e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 42573413   198 IFNILVKHHCKNGDINFAFLVVEEMKRSGI 227
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 306-334 8.38e-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: 8.38e-03
                          10        20
                  ....*....|....*....|....*....
gi 42573413   306 YSALMNGFCKVGKIQEAKQTFDEVKKTGL 334
Cdd:pfam01535   3 YNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 410-439 8.55e-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: 8.55e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 42573413   410 SYRIILNALCCNGELEKAVKFLSVMSERGI 439
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELFKEMKEKGI 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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