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Conserved domains on  [gi|79312733|ref|NP_001030630|]
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Tetratricopeptide repeat (TPR)-like superfamily protein [Arabidopsis thaliana]

Protein Classification

pentatricopeptide repeat-containing protein( domain architecture ID 13329608)

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

Gene Ontology:  GO:0003723
PubMed:  23635770

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
177-416 8.79e-16

maturation of RBCL 1; Provisional


The actual alignment was detected with superfamily member PLN03218:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 80.69  E-value: 8.79e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733   177 IFDRLGEFGLEKNTESMNLLLDTLCKEKRVEQARVVLLQLKS-HITPNAHTFNIFIHGWCKANRVEEALWTIQEMKG--H 253
Cdd:PLN03218  494 VFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSkNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAetH 573
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733   254 GFRPCVISYTTIIRCYCQ--QFEFIK-VYEMLSEMEANGSPPnsiTYTTIMSSLNAQKEFEEALRVATRMKRSGCKPDSL 330
Cdd:PLN03218  574 PIDPDHITVGALMKACANagQVDRAKeVYQMIHEYNIKGTPE---VYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEV 650
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733   331 FYNCLIHTLARAGRLEEAERVFRvEMPELGVSINT-----------------------------------STYNSMIAMY 375
Cdd:PLN03218  651 FFSALVDVAGHAGDLDKAFEILQ-DARKQGIKLGTvsysslmgacsnaknwkkalelyediksiklrptvSTMNALITAL 729
                         250       260       270       280
                  ....*....|....*....|....*....|....*....|.
gi 79312733   376 CHHDEEDKAIELLKEMESSNLCnPDVHTYQPLLRSCFKRGD 416
Cdd:PLN03218  730 CEGNQLPKALEVLSEMKRLGLC-PNTITYSILLVASERKDD 769
PPR_2 super family cl38385
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
399-449 9.94e-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.


The actual alignment was detected with superfamily member pfam13041:

Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 45.43  E-value: 9.94e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 79312733   399 PDVHTYQPLLRSCFKRGDVVEVGKLLKEMVtKHHLSLDESTYTFLIQRLCR 449
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMK-KRGVKPNVYTYTILINGLCK 50
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
439-470 3.01e-03

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


:

Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 35.51  E-value: 3.01e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 79312733   439 TYTFLIQRLCRANMCEWAYCLFEEMISQDITP 470
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEP 33
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
177-416 8.79e-16

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 80.69  E-value: 8.79e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733   177 IFDRLGEFGLEKNTESMNLLLDTLCKEKRVEQARVVLLQLKS-HITPNAHTFNIFIHGWCKANRVEEALWTIQEMKG--H 253
Cdd:PLN03218  494 VFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSkNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAetH 573
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733   254 GFRPCVISYTTIIRCYCQ--QFEFIK-VYEMLSEMEANGSPPnsiTYTTIMSSLNAQKEFEEALRVATRMKRSGCKPDSL 330
Cdd:PLN03218  574 PIDPDHITVGALMKACANagQVDRAKeVYQMIHEYNIKGTPE---VYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEV 650
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733   331 FYNCLIHTLARAGRLEEAERVFRvEMPELGVSINT-----------------------------------STYNSMIAMY 375
Cdd:PLN03218  651 FFSALVDVAGHAGDLDKAFEILQ-DARKQGIKLGTvsysslmgacsnaknwkkalelyediksiklrptvSTMNALITAL 729
                         250       260       270       280
                  ....*....|....*....|....*....|....*....|.
gi 79312733   376 CHHDEEDKAIELLKEMESSNLCnPDVHTYQPLLRSCFKRGD 416
Cdd:PLN03218  730 CEGNQLPKALEVLSEMKRLGLC-PNTITYSILLVASERKDD 769
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
222-271 1.41e-10

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 56.60  E-value: 1.41e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 79312733   222 PNAHTFNIFIHGWCKANRVEEALWTIQEMKGHGFRPCVISYTTIIRCYCQ 271
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
399-449 9.94e-07

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 45.43  E-value: 9.94e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 79312733   399 PDVHTYQPLLRSCFKRGDVVEVGKLLKEMVtKHHLSLDESTYTFLIQRLCR 449
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMK-KRGVKPNVYTYTILINGLCK 50
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
367-401 2.39e-05

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 41.29  E-value: 2.39e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 79312733   367 TYNSMIAMYCHHDEEDKAIELLKEMESSNlCNPDV 401
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERG-IEPDV 35
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
296-504 4.78e-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: 42.02  E-value: 4.78e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733 296 TYTTIMSSLNAQKEFEEALRVATR-MKRSGCKPDSLFYncLIHTLARAGRLEEAERVFR--VEMPELgvsiNTSTYNSMI 372
Cdd:COG2956  44 AHLALGNLYRRRGEYDRAIRIHQKlLERDPDRAEALLE--LAQDYLKAGLLDRAEELLEklLELDPD----DAEALRLLA 117
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733 373 AMYCHHDEEDKAIELLKEMESSNlcNPDVHTYQPLLRSCFKRGDVVEVGKLLKEMVTKHHLSLDesTYTFLIQRLCRANM 452
Cdd:COG2956 118 EIYEQEGDWEKAIEVLERLLKLG--PENAHAYCELAELYLEQGDYDEAIEALEKALKLDPDCAR--ALLLLAELYLEQGD 193
                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|..
gi 79312733 453 CEWAYCLFEEMISQDitPRHRTCLLLLEEVKKKnMHESAERIEHIMKTVKLT 504
Cdd:COG2956 194 YEEAIAALERALEQD--PDYLPALPRLAELYEK-LGDPEEALELLRKALELD 242
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
439-470 3.01e-03

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 35.51  E-value: 3.01e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 79312733   439 TYTFLIQRLCRANMCEWAYCLFEEMISQDITP 470
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEP 33
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
177-416 8.79e-16

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 80.69  E-value: 8.79e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733   177 IFDRLGEFGLEKNTESMNLLLDTLCKEKRVEQARVVLLQLKS-HITPNAHTFNIFIHGWCKANRVEEALWTIQEMKG--H 253
Cdd:PLN03218  494 VFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSkNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAetH 573
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733   254 GFRPCVISYTTIIRCYCQ--QFEFIK-VYEMLSEMEANGSPPnsiTYTTIMSSLNAQKEFEEALRVATRMKRSGCKPDSL 330
Cdd:PLN03218  574 PIDPDHITVGALMKACANagQVDRAKeVYQMIHEYNIKGTPE---VYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEV 650
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733   331 FYNCLIHTLARAGRLEEAERVFRvEMPELGVSINT-----------------------------------STYNSMIAMY 375
Cdd:PLN03218  651 FFSALVDVAGHAGDLDKAFEILQ-DARKQGIKLGTvsysslmgacsnaknwkkalelyediksiklrptvSTMNALITAL 729
                         250       260       270       280
                  ....*....|....*....|....*....|....*....|.
gi 79312733   376 CHHDEEDKAIELLKEMESSNLCnPDVHTYQPLLRSCFKRGD 416
Cdd:PLN03218  730 CEGNQLPKALEVLSEMKRLGLC-PNTITYSILLVASERKDD 769
PLN03218 PLN03218
maturation of RBCL 1; Provisional
169-366 1.57e-12

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 70.29  E-value: 1.57e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733   169 GEWEEAVGIFDRLGEFGLEKNTESMNLLLDTLCKEKRVEQARVVLLQLKSH-ITPNAHTFNIFIHGWCKANRVEEALWTI 247
Cdd:PLN03218  628 GDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQgIKLGTVSYSSLMGACSNAKNWKKALELY 707
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733   248 QEMKGHGFRPCVISYTTIIRCYCQQFEFIKVYEMLSEMEANGSPPNSITYTTIMSSLNAQKEFEEALRVATRMKRSGCKP 327
Cdd:PLN03218  708 EDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKP 787
                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 79312733   328 DSLFYNCLIHTLARagRLEEAervfrVEMPELGVSINTS 366
Cdd:PLN03218  788 NLVMCRCITGLCLR--RFEKA-----CALGEPVVSFDSG 819
PLN03077 PLN03077
Protein ECB2; Provisional
228-470 4.51e-11

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 65.64  E-value: 4.51e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733  228 NIFIHGWCKANRVEEALWTIQEMKghgfRPCVISYTTIIRCYCQQFEFIKVYEMLSEMEANgSPPNSITYTTIMSSLNAQ 307
Cdd:PLN03077 428 NALIEMYSKCKCIDKALEVFHNIP----EKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARI 502
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733  308 KEFEEALRVATRMKRSGCKPDSLFYNCLIHTLARAGRLEEAERVFRVEMPELGvsintsTYNSMIAMYCHHDEEDKAIEL 387
Cdd:PLN03077 503 GALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVV------SWNILLTGYVAHGKGSMAVEL 576
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733  388 LKEMESSNLCnPDVHTYQPLLRSCFKRGDVVEVGKLLKEMVTKHHLSLDESTYTFLIQRLCRANMCEWAYCLFEEMisqD 467
Cdd:PLN03077 577 FNRMVESGVN-PDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM---P 652

                 ...
gi 79312733  468 ITP 470
Cdd:PLN03077 653 ITP 655
PLN03218 PLN03218
maturation of RBCL 1; Provisional
296-470 6.09e-11

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 65.28  E-value: 6.09e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733   296 TYTTIMSSLNAQKEFEEALRVATRMKRSGCKPDSLFYNCLIHTLARAGRLEEAERVFRvEMPELGVSINTSTYNSMIamy 375
Cdd:PLN03218  439 TFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFH-EMVNAGVEANVHTFGALI--- 514
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733   376 chhDEEDKAIELLKE------MESSNLcNPDVHTYQPLLRSCFKRGDVVEVGKLLKEMVTKHH-LSLDESTYTFLIQRLC 448
Cdd:PLN03218  515 ---DGCARAGQVAKAfgaygiMRSKNV-KPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHpIDPDHITVGALMKACA 590
                         170       180
                  ....*....|....*....|....
gi 79312733   449 RANMCEWAYCLFEEMISQDI--TP 470
Cdd:PLN03218  591 NAGQVDRAKEVYQMIHEYNIkgTP 614
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
222-271 1.41e-10

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 56.60  E-value: 1.41e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 79312733   222 PNAHTFNIFIHGWCKANRVEEALWTIQEMKGHGFRPCVISYTTIIRCYCQ 271
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
327-377 1.89e-10

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 56.22  E-value: 1.89e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 79312733   327 PDSLFYNCLIHTLARAGRLEEAERVFRvEMPELGVSINTSTYNSMIAMYCH 377
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFN-EMKKRGVKPNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
364-413 7.42e-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: 54.29  E-value: 7.42e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 79312733   364 NTSTYNSMIAMYCHHDEEDKAIELLKEMESSNlCNPDVHTYQPLLRSCFK 413
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRG-VKPNVYTYTILINGLCK 50
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
250-506 1.75e-09

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 60.27  E-value: 1.75e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733  250 MKGHGFRPCVISYTTIIRCYCQQFEFIKVYEMLSEMEANgsppNSITYTTIMSSLNAQKEFEEALRVATRMKRSG--CKP 327
Cdd:PLN03081 149 VESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPER----NLASWGTIIGGLVDAGNYREAFALFREMWEDGsdAEP 224
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733  328 --------------------------------DSLFYNC-LIHTLARAGRLEEAERVFRvEMPELgvsiNTSTYNSMIAM 374
Cdd:PLN03081 225 rtfvvmlrasaglgsaragqqlhccvlktgvvGDTFVSCaLIDMYSKCGDIEDARCVFD-GMPEK----TTVAWNSMLAG 299
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733  375 YCHHDEEDKAIELLKEMESSNLcNPDVHTYQPLLRSCFKRGdVVEVGKLLKEMVTKHHLSLDESTYTFLI---------- 444
Cdd:PLN03081 300 YALHGYSEEALCLYYEMRDSGV-SIDQFTFSIMIRIFSRLA-LLEHAKQAHAGLIRTGFPLDIVANTALVdlyskwgrme 377
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733  445 ------QRLCRANMCEW---------------AYCLFEEMISQDITPRHRTCLLLLEEVKKKNMHESAERIEHIMKTVKL 503
Cdd:PLN03081 378 darnvfDRMPRKNLISWnaliagygnhgrgtkAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHR 457

                 ...
gi 79312733  504 TAP 506
Cdd:PLN03081 458 IKP 460
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
257-304 2.20e-09

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 53.14  E-value: 2.20e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 79312733   257 PCVISYTTIIRCYCQQFEFIKVYEMLSEMEANGSPPNSITYTTIMSSL 304
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
292-341 3.41e-09

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 52.37  E-value: 3.41e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 79312733   292 PNSITYTTIMSSLNAQKEFEEALRVATRMKRSGCKPDSLFYNCLIHTLAR 341
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
313-445 7.09e-09

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


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 55.87  E-value: 7.09e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733   313 ALRVATRMKRSGCKPDSLFYNCLIHTLARAGRLEE------AERVFRV--EMPELGVSINTSTYNSMIAMYCHHDEEDKA 384
Cdd:pfam17177  30 ALALYDAAKAEGVRLAQYHYNVLLYLCSKAADATDlkpqlaADRGFEVfeAMKAQGVSPNEATYTAVARLAAAKGDGDLA 109
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 79312733   385 IELLKEMESSNLcNPDVHTYQPLLRSCFKRGDV---VEVgkllKEMVTKHHLSLDESTYTFLIQ 445
Cdd:pfam17177 110 FDLVKEMEAAGV-SPRLRSYSPALHAYCEAGDAdkaYEV----EEHMLAHGVELEEPELAALLK 168
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
128-348 3.97e-08

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 56.03  E-value: 3.97e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733  128 VDILGKAKKWDRMKEFVERMRGDKLVTLNTvakIMRRFAGAGEWEEAVGIFDRLGEFGLEKNTESMNLLL---DTLCKEK 204
Cdd:PLN03081 266 IDMYSKCGDIEDARCVFDGMPEKTTVAWNS---MLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIrifSRLALLE 342
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733  205 RVEQARVVLLQ--LKSHITPNAHTFNIFihgwCKANRVEEALWTIQEMKghgfRPCVISYTTIIRCYCQQFEFIKVYEML 282
Cdd:PLN03081 343 HAKQAHAGLIRtgFPLDIVANTALVDLY----SKWGRMEDARNVFDRMP----RKNLISWNALIAGYGNHGRGTKAVEMF 414
                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 79312733  283 SEMEANGSPPNSITYTTIMSSLNAQKEFEEALRVATRMKRS-GCKPDSLFYNCLIHTLARAGRLEEA 348
Cdd:PLN03081 415 ERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENhRIKPRAMHYACMIELLGREGLLDEA 481
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
188-236 1.73e-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: 1.73e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 79312733   188 KNTESMNLLLDTLCKEKRVEQARVVLLQLKSH-ITPNAHTFNIFIHGWCK 236
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRgVKPNVYTYTILINGLCK 50
PLN03218 PLN03218
maturation of RBCL 1; Provisional
128-274 2.92e-07

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 53.34  E-value: 2.92e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733   128 VDILGKAKKWDRMKEFVERMR--GDKLVTLnTVAKIMRRFAGAGEWEEAVGIFDRLGEFGLEKNTESMNLLLDTLCKEKR 205
Cdd:PLN03218  656 VDVAGHAGDLDKAFEILQDARkqGIKLGTV-SYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQ 734
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733   206 VEQARVVLLQLKSH-ITPNAHTFNIFIHGWCKANRVEEALWTIQEMKGHGFRPCVISYTTIIRCYCQQFE 274
Cdd:PLN03218  735 LPKALEVLSEMKRLgLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFE 804
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
324-356 3.09e-07

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


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 46.57  E-value: 3.09e-07
                          10        20        30
                  ....*....|....*....|....*....|...
gi 79312733   324 GCKPDSLFYNCLIHTLARAGRLEEAERVFRvEM 356
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLD-EM 33
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
399-449 9.94e-07

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 45.43  E-value: 9.94e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 79312733   399 PDVHTYQPLLRSCFKRGDVVEVGKLLKEMVtKHHLSLDESTYTFLIQRLCR 449
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMK-KRGVKPNVYTYTILINGLCK 50
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
270-463 1.06e-06

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 51.41  E-value: 1.06e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733  270 CQQFE-------FIKVYEMLSEMEANGS-PPNSITYTTIMSSLNAQKEFEEALRVATRMKRSGCKPDSLFYNCLIHTLAR 341
Cdd:PLN03081  91 CSQIEklvacgrHREALELFEILEAGCPfTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVK 170
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733  342 AGRLEEAERVFRvEMPELgvsiNTSTYNSMIAMYCHHDEEDKAIELLKEMeSSNLCNPDVHTYQPLLRSCFKRGDvVEVG 421
Cdd:PLN03081 171 CGMLIDARRLFD-EMPER----NLASWGTIIGGLVDAGNYREAFALFREM-WEDGSDAEPRTFVVMLRASAGLGS-ARAG 243
                        170       180       190       200
                 ....*....|....*....|....*....|....*....|..
gi 79312733  422 KLLKEMVTKHHLSLDESTYTFLIQRLCRANMCEWAYCLFEEM 463
Cdd:PLN03081 244 QQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGM 285
PLN03077 PLN03077
Protein ECB2; Provisional
260-430 2.32e-06

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 50.23  E-value: 2.32e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733  260 ISYTTIIRCYCQQFEFIKVYEMLSEMEANGSPPNSITYTTIMSSLNAQKEFEEALRVATRMKRSGCKPDSLFYNCLIHTL 339
Cdd:PLN03077 254 ISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMY 333
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733  340 ARAGRLEEAERVF-RVEMPELgvsintSTYNSMIAMYCHHDEEDKAIELLKEMESSNLcNPDVHTYQPLLRSCFKRGDvV 418
Cdd:PLN03077 334 LSLGSWGEAEKVFsRMETKDA------VSWTAMISGYEKNGLPDKALETYALMEQDNV-SPDEITIASVLSACACLGD-L 405
                        170
                 ....*....|..
gi 79312733  419 EVGKLLKEMVTK 430
Cdd:PLN03077 406 DVGVKLHELAER 417
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
315-375 2.47e-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: 2.47e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 79312733   315 RVATRMKRSGCKPDSLFYNCLIHTLARAGRLEEAERVFRvEMPELGVSINTSTYNSMIAMY 375
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFE-RMKKKGIKPTLDTYNAILGVI 60
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
278-397 2.77e-06

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


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 48.16  E-value: 2.77e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733   278 VYEMLSEMEANGSPPNSITYTTIMSSLNAQKEFEEALRVATRMKRSGCKPDSLFYNCLIHTLARAGRLEEAervFRVE-- 355
Cdd:pfam17177  74 GFEVFEAMKAQGVSPNEATYTAVARLAAAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKA---YEVEeh 150
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 79312733   356 MPELGVSINTSTYNSMIAMYCHHDEEDKAIELLKEMESSNLC 397
Cdd:pfam17177 151 MLAHGVELEEPELAALLKVSAKAGRADKVYAYLHRLRDAVRQ 192
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
281-336 4.45e-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: 44.27  E-value: 4.45e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 79312733   281 MLSEMEANGSPPNSITYTTIMSSLNAQKEFEEALRVATRMKRSGCKPDSLFYNCLI 336
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAIL 57
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
220-251 6.46e-06

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


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 42.72  E-value: 6.46e-06
                          10        20        30
                  ....*....|....*....|....*....|..
gi 79312733   220 ITPNAHTFNIFIHGWCKANRVEEALWTIQEMK 251
Cdd:pfam12854   3 LKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
366-396 1.49e-05

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 41.68  E-value: 1.49e-05
                          10        20        30
                  ....*....|....*....|....*....|.
gi 79312733   366 STYNSMIAMYCHHDEEDKAIELLKEMESSNL 396
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
367-401 2.39e-05

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 41.29  E-value: 2.39e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 79312733   367 TYNSMIAMYCHHDEEDKAIELLKEMESSNlCNPDV 401
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERG-IEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
332-365 3.02e-05

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 40.90  E-value: 3.02e-05
                          10        20        30
                  ....*....|....*....|....*....|....
gi 79312733   332 YNCLIHTLARAGRLEEAERVFRvEMPELGVSINT 365
Cdd:TIGR00756   3 YNTLIDGLCKAGRVEEALELFK-EMKERGIEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
225-257 6.18e-05

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 40.13  E-value: 6.18e-05
                          10        20        30
                  ....*....|....*....|....*....|...
gi 79312733   225 HTFNIFIHGWCKANRVEEALWTIQEMKGHGFRP 257
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEP 33
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
295-329 8.72e-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: 39.75  E-value: 8.72e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 79312733   295 ITYTTIMSSLNAQKEFEEALRVATRMKRSGCKPDS 329
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
360-392 1.18e-04

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


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 39.25  E-value: 1.18e-04
                          10        20        30
                  ....*....|....*....|....*....|...
gi 79312733   360 GVSINTSTYNSMIAMYCHHDEEDKAIELLKEME 392
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
248-302 2.47e-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: 2.47e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 79312733   248 QEMKGHGFRPCVISYTTIIRCYCQQFEFIKVYEMLSEMEANGSPPNSITYTTIMS 302
Cdd:pfam13812   4 REMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILG 58
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
226-255 4.58e-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: 37.44  E-value: 4.58e-04
                          10        20        30
                  ....*....|....*....|....*....|
gi 79312733   226 TFNIFIHGWCKANRVEEALWTIQEMKGHGF 255
Cdd:pfam01535   2 TYNSLISGYCKNGKLEEALELFKEMKEKGI 31
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
296-504 4.78e-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: 42.02  E-value: 4.78e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733 296 TYTTIMSSLNAQKEFEEALRVATR-MKRSGCKPDSLFYncLIHTLARAGRLEEAERVFR--VEMPELgvsiNTSTYNSMI 372
Cdd:COG2956  44 AHLALGNLYRRRGEYDRAIRIHQKlLERDPDRAEALLE--LAQDYLKAGLLDRAEELLEklLELDPD----DAEALRLLA 117
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733 373 AMYCHHDEEDKAIELLKEMESSNlcNPDVHTYQPLLRSCFKRGDVVEVGKLLKEMVTKHHLSLDesTYTFLIQRLCRANM 452
Cdd:COG2956 118 EIYEQEGDWEKAIEVLERLLKLG--PENAHAYCELAELYLEQGDYDEAIEALEKALKLDPDCAR--ALLLLAELYLEQGD 193
                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|..
gi 79312733 453 CEWAYCLFEEMISQDitPRHRTCLLLLEEVKKKnMHESAERIEHIMKTVKLT 504
Cdd:COG2956 194 YEEAIAALERALEQD--PDYLPALPRLAELYEK-LGDPEEALELLRKALELD 242
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
260-294 6.54e-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: 37.05  E-value: 6.54e-04
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 79312733   260 ISYTTIIRCYCQQFEFIKVYEMLSEMEANGSPPNS 294
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PLN03077 PLN03077
Protein ECB2; Provisional
162-468 1.07e-03

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 41.76  E-value: 1.07e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733  162 MRRFAGAGEWEEAVGIFDRLGEFGLEKNTESMNLLLdTLCKEKRV--EQARVVLLQLKSHITPNAHTFNIFIHGWCKANR 239
Cdd:PLN03077  58 LRALCSHGQLEQALKLLESMQELRVPVDEDAYVALF-RLCEWKRAveEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGE 136
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733  240 VEEALWTIQEMKGHGfrpcVISYTTIIRCYCQQFEFIKVYEMLSEMEANGSPPNSITYTTIMSSLNAQKEFEEALRVATR 319
Cdd:PLN03077 137 LVHAWYVFGKMPERD----LFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAH 212
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733  320 MKRSGCKPDSLFYNCLIHTLARAGRLEEAERVFRvEMPELgvsiNTSTYNSMIAMYCHHDEEDKAIELLKEMESsNLCNP 399
Cdd:PLN03077 213 VVRFGFELDVDVVNALITMYVKCGDVVSARLVFD-RMPRR----DCISWNAMISGYFENGECLEGLELFFTMRE-LSVDP 286
                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 79312733  400 DVHTYQPLLRSCFKRGDVvEVGKLLKEMVTKHHLSLDESTYTFLIQRLCRANMCEWAYCLFEEMISQDI 468
Cdd:PLN03077 287 DLMTITSVISACELLGDE-RLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDA 354
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
332-361 1.17e-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: 1.17e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 79312733   332 YNCLIHTLARAGRLEEAERVFRvEMPELGV 361
Cdd:pfam01535   3 YNSLISGYCKNGKLEEALELFK-EMKEKGI 31
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
433-463 2.30e-03

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


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 35.78  E-value: 2.30e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 79312733   433 LSLDESTYTFLIQRLCRANMCEWAYCLFEEM 463
Cdd:pfam12854   3 LKPDVVTYNTLINGLCRAGRVDEAFELLDEM 33
PRK12370 PRK12370
HilA/EilA family virulence transcriptional regulator;
285-468 2.64e-03

HilA/EilA family virulence transcriptional regulator;


Pssm-ID: 237080 [Multi-domain]  Cd Length: 553  Bit Score: 40.22  E-value: 2.64e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733  285 MEANGSPPNSITYTTIMSSLNAQKEFEEALRVATRMkrsgCKPDSL---FYNCLIHTLAraGRLEEAERV----FRVEMP 357
Cdd:PRK12370 331 TELDHNNPQALGLLGLINTIHSEYIVGSLLFKQANL----LSPISAdikYYYGWNLFMA--GQLEEALQTinecLKLDPT 404
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733  358 ELGVSINtstynSMIAMYCHHdEEDKAIELLKEMESSNLC-NPDVHTYQPLLRSCFKRGDVVEvgKLLKEMVTKHHLSLd 436
Cdd:PRK12370 405 RAAAGIT-----KLWITYYHT-GIDDAIRLGDELRSQHLQdNPILLSMQVMFLSLKGKHELAR--KLTKEISTQEITGL- 475
                        170       180       190
                 ....*....|....*....|....*....|..
gi 79312733  437 estytfliqrLCrANMCEWAYCLFEEMISQDI 468
Cdd:PRK12370 476 ----------IA-VNLLYAEYCQNSERALPTI 496
PLN03077 PLN03077
Protein ECB2; Provisional
212-411 2.80e-03

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 40.60  E-value: 2.80e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733  212 VLLQLKSHITPNAhTFNIFIHGWCKANRVEEAlwtIQEMKGHGFRpcvisyTTIIRCYCQQFEFIKVYEMLSEMEANGSP 291
Cdd:PLN03077  14 NLFQLASHKAPNV-LPYWNFHGRKRSRGLSVA---ASSSSSTHDS------NSQLRALCSHGQLEQALKLLESMQELRVP 83
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733  292 PNSITYTTIMSSLNAQKEFEEALRVATRMKRSGCKPDSLFYNCLIHTLARAGRLEEAERVFrVEMPELgvsiNTSTYNSM 371
Cdd:PLN03077  84 VDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVF-GKMPER----DLFSWNVL 158
                        170       180       190       200
                 ....*....|....*....|....*....|....*....|
gi 79312733  372 IAMYCHHDEEDKAIELLKEMESSNLcNPDVHTYQPLLRSC 411
Cdd:PLN03077 159 VGGYAKAGYFDEALCLYHRMLWAGV-RPDVYTFPCVLRTC 197
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
439-470 3.01e-03

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 35.51  E-value: 3.01e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 79312733   439 TYTFLIQRLCRANMCEWAYCLFEEMISQDITP 470
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEP 33
PLN03077 PLN03077
Protein ECB2; Provisional
259-415 8.70e-03

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 38.68  E-value: 8.70e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 79312733  259 VISYTTIIRCYCQQFEFIKVYEMLSEMEANGSPPNSITYTTIMSSLNAQKEFEEALRVATRMKRSGCKPDSLFYNCLIHT 338
Cdd:PLN03077 354 AVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEM 433
                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 79312733  339 LARAGRLEEAERVFRvEMPELgvsiNTSTYNSMIAMYCHHDEEDKAIELLKEMESSnlCNPDVHTYQPLLRSCFKRG 415
Cdd:PLN03077 434 YSKCKCIDKALEVFH-NIPEK----DVISWTSIIAGLRLNNRCFEALIFFRQMLLT--LKPNSVTLIAALSACARIG 503
 
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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