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Conserved domains on  [gi|145353124|ref|NP_195209|]
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Pentatricopeptide repeat (PPR) superfamily protein [Arabidopsis thaliana]

Protein Classification

pentatricopeptide repeat-containing protein( domain architecture ID 11477578)

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

CATH:  1.25.40.10
Gene Ontology:  GO:0003723
PubMed:  19004664|23635770|25882680|34065603|18031283|30809817|24471833
SCOP:  4001344

Graphical summary

 Zoom to residue level

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List of domain hits

 Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 1-1089 0e+00

maturation of RBCL 1; Provisional


:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 1858.00  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124    1 MEVTSTTFISTTRSSKYLTLTSYSPVILPASTLRRDFLGCCHSLR-PSPHLRTRAGKRNSRRSSIRSPRLVVRASIDSGL 79
Cdd:PLN03218    1 MMASASSPLSLSRHSRLLTLPSTIPPILPASTLRRDFLGCSHNLRpPNSASRLRGGKSKSIRSRIRSPRLVVNASLGSGL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124   80 ILIVVAVTAFSAIAFaYCQSTFRKRKSSDEVATVHGGKNSAENRREIH---GDIHEGNPVEINVGFrKVEEESVNLLEEE 156
Cdd:PLN03218   81 VLVVVAVTAFSAISF-AYLQHTRRRKSSPLVATPSGGGISTLNREDVQsldGDVHKGTSTEINVGF-RDLVEEVEHTEEE 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  157 KAHQIHEVAVMDYDSVSAEDSQFAVASVTTVATAHTLIDESFSSSIVNGSVALESATFGVKTPEKQVGNSEDQKGLEHDF 236
Cdd:PLN03218  159 KTHQAQERALMEEESVVVEGSESSRESVRVVADEHTLSDESASSRVVHGSVALLSLSFGVENPELQNGNSPDQTKLELDL 238

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  237 SQAVVGIHSIASP----QVVDDTRALEYEYNGLLQKPLEYS---IFAESKREEIHTFYGSNHSSAKSSRLPSLKAVSPAV 309
Cdd:PLN03218  239 SQLVVGRHSIAESlftqTVLDSLDYDSYEYNGLLQEAAISSgkgIFAESKREELYTFYEEKQSRAKSSRLPNVKGLRKGV 318

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  310 TSATNSLFLDHKNNGVIDTQFPGQSSGQATGDVQEENLVAHSNGGVSHIRKdvkgdwkfpsdgkhvghqidesmpqfpar 389
Cdd:PLN03218  319 SSATNSLSLDKKNNGVKDAELPGQSSGQAASDVEEENSLAAYNGGVSGKRK----------------------------- 369

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  390 nfelhnsngrSPETSDAYNRLLRDGRIKDCISLLEDLDQRDLLDMDKIYHASFFKACKKQRAVKEAFRFTKLILNPTMST 469
Cdd:PLN03218  370 ----------SPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLST 439

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  470 FNMLMSVCASSQDIEGARGVLRLVQESGMTADCKLYTTLISSCAKSGKVDAMFEVFHQMSNSGVEANLHTFGALIDGCAR 549
Cdd:PLN03218  440 FNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCAR 519

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  550 AGQVAKAFGAYGILRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHISIGALMKACCNAGQVERAK 629
Cdd:PLN03218  520 AGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAK 599

                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  630 EVYQMIHKYGIRGTPEVYTIAVNSCSKSGDWDFACSIYKDMKEKDVTPDEVFFSALIDVAGHAKMLDEAFGILQDAKSQG 709
Cdd:PLN03218  600 EVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQG 679

                         730       740       750       760       770       780       790       800
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  710 IRLGTISYSSLMGACCNAKDWKKALELYEKIKSIKLRPTISTMNALITALCEGNQLPKAMEYLDEIKTLGLKPNTITYSM 789
Cdd:PLN03218  680 IKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSI 759

                         810       820       830       840       850       860       870       880
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  790 LMLASERKDDFEVSFKLLSQAKGDGVSPNLIMCRCITSLCKRRFEKACAGGEPVVSFKSGRPQIENKWTSMALMVYRETI 869
Cdd:PLN03218  760 LLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETI 839

                         890       900       910       920       930       940       950       960
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  870 SGGTVPTTEVVSQVLGCLQLPHDAALRDRLISTLGINISSQKQHNIFPLVDGFGEYDPRAFSLLEEATSLGVLPSVSFNK 949
Cdd:PLN03218  840 SAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEYDPRAFSLLEEAASLGVVPSVSFKK 919

                         970       980       990      1000      1010      1020      1030      1040
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  950 IPLFFDTTELPKNVAEVYLLTIFKGLKHRLAAGAKIPHINLIISIQEKEIRTPEGEKTIDLTGRVGQEIGALLRRLDIPY 1029
Cdd:PLN03218  920 SPIVIDAEELPVFAAEVYLLTILKGLKHRLAAGAKLPNVTILLPTEKKEIYTPKGEKTINLAGRVGQAVAALLRRLGLPY 999

                        1050      1060      1070      1080      1090      1100
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 145353124 1030 HRKDS--RLRINGVSLKNWFQPKLDSPFSgGKPGDLRSSQVPLGNQISRQQRSIRLGNLSLE 1089
Cdd:PLN03218 1000 QGSEShgKLRINGLSLRRWFQPKLKSPFS-GKPEDLSSSQSRLGKGIADQQRAIRLGNLSLE 1060
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 1-1089 0e+00

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 1858.00  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124    1 MEVTSTTFISTTRSSKYLTLTSYSPVILPASTLRRDFLGCCHSLR-PSPHLRTRAGKRNSRRSSIRSPRLVVRASIDSGL 79
Cdd:PLN03218    1 MMASASSPLSLSRHSRLLTLPSTIPPILPASTLRRDFLGCSHNLRpPNSASRLRGGKSKSIRSRIRSPRLVVNASLGSGL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124   80 ILIVVAVTAFSAIAFaYCQSTFRKRKSSDEVATVHGGKNSAENRREIH---GDIHEGNPVEINVGFrKVEEESVNLLEEE 156
Cdd:PLN03218   81 VLVVVAVTAFSAISF-AYLQHTRRRKSSPLVATPSGGGISTLNREDVQsldGDVHKGTSTEINVGF-RDLVEEVEHTEEE 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  157 KAHQIHEVAVMDYDSVSAEDSQFAVASVTTVATAHTLIDESFSSSIVNGSVALESATFGVKTPEKQVGNSEDQKGLEHDF 236
Cdd:PLN03218  159 KTHQAQERALMEEESVVVEGSESSRESVRVVADEHTLSDESASSRVVHGSVALLSLSFGVENPELQNGNSPDQTKLELDL 238

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  237 SQAVVGIHSIASP----QVVDDTRALEYEYNGLLQKPLEYS---IFAESKREEIHTFYGSNHSSAKSSRLPSLKAVSPAV 309
Cdd:PLN03218  239 SQLVVGRHSIAESlftqTVLDSLDYDSYEYNGLLQEAAISSgkgIFAESKREELYTFYEEKQSRAKSSRLPNVKGLRKGV 318

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  310 TSATNSLFLDHKNNGVIDTQFPGQSSGQATGDVQEENLVAHSNGGVSHIRKdvkgdwkfpsdgkhvghqidesmpqfpar 389
Cdd:PLN03218  319 SSATNSLSLDKKNNGVKDAELPGQSSGQAASDVEEENSLAAYNGGVSGKRK----------------------------- 369

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  390 nfelhnsngrSPETSDAYNRLLRDGRIKDCISLLEDLDQRDLLDMDKIYHASFFKACKKQRAVKEAFRFTKLILNPTMST 469
Cdd:PLN03218  370 ----------SPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLST 439

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  470 FNMLMSVCASSQDIEGARGVLRLVQESGMTADCKLYTTLISSCAKSGKVDAMFEVFHQMSNSGVEANLHTFGALIDGCAR 549
Cdd:PLN03218  440 FNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCAR 519

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  550 AGQVAKAFGAYGILRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHISIGALMKACCNAGQVERAK 629
Cdd:PLN03218  520 AGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAK 599

                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  630 EVYQMIHKYGIRGTPEVYTIAVNSCSKSGDWDFACSIYKDMKEKDVTPDEVFFSALIDVAGHAKMLDEAFGILQDAKSQG 709
Cdd:PLN03218  600 EVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQG 679

                         730       740       750       760       770       780       790       800
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  710 IRLGTISYSSLMGACCNAKDWKKALELYEKIKSIKLRPTISTMNALITALCEGNQLPKAMEYLDEIKTLGLKPNTITYSM 789
Cdd:PLN03218  680 IKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSI 759

                         810       820       830       840       850       860       870       880
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  790 LMLASERKDDFEVSFKLLSQAKGDGVSPNLIMCRCITSLCKRRFEKACAGGEPVVSFKSGRPQIENKWTSMALMVYRETI 869
Cdd:PLN03218  760 LLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETI 839

                         890       900       910       920       930       940       950       960
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  870 SGGTVPTTEVVSQVLGCLQLPHDAALRDRLISTLGINISSQKQHNIFPLVDGFGEYDPRAFSLLEEATSLGVLPSVSFNK 949
Cdd:PLN03218  840 SAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEYDPRAFSLLEEAASLGVVPSVSFKK 919

                         970       980       990      1000      1010      1020      1030      1040
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  950 IPLFFDTTELPKNVAEVYLLTIFKGLKHRLAAGAKIPHINLIISIQEKEIRTPEGEKTIDLTGRVGQEIGALLRRLDIPY 1029
Cdd:PLN03218  920 SPIVIDAEELPVFAAEVYLLTILKGLKHRLAAGAKLPNVTILLPTEKKEIYTPKGEKTINLAGRVGQAVAALLRRLGLPY 999

                        1050      1060      1070      1080      1090      1100
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 145353124 1030 HRKDS--RLRINGVSLKNWFQPKLDSPFSgGKPGDLRSSQVPLGNQISRQQRSIRLGNLSLE 1089
Cdd:PLN03218 1000 QGSEShgKLRINGLSLRRWFQPKLKSPFS-GKPEDLSSSQSRLGKGIADQQRAIRLGNLSLE 1060
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 477-638 2.85e-13

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: 70.12  E-value: 2.85e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124   477 CASSQDIEGARGVLRLVQESGMTADCKLYTTLISSCAKSG---------KVDAMFEVFHQMSNSGVEANLHTFGALIDGC 547
Cdd:pfam17177   21 CSKHADATGALALYDAAKAEGVRLAQYHYNVLLYLCSKAAdatdlkpqlAADRGFEVFEAMKAQGVSPNEATYTAVARLA 100

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124   548 ARAGQVAKAFGAYGILRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAetHPIDPDHISIGALMKACCNAGqveR 627
Cdd:pfam17177  101 AAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLA--HGVELEEPELAALLKVSAKAG---R 175

                          170
                   ....*....|.
gi 145353124   628 AKEVYQMIHKY 638
Cdd:pfam17177  176 ADKVYAYLHRL 186
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 505-536 4.82e-06

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 43.98  E-value: 4.82e-06
                           10        20        30
                   ....*....|....*....|....*....|..
gi 145353124   505 YTTLISSCAKSGKVDAMFEVFHQMSNSGVEAN 536
Cdd:TIGR00756    3 YNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 1-1089 0e+00

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 1858.00  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124    1 MEVTSTTFISTTRSSKYLTLTSYSPVILPASTLRRDFLGCCHSLR-PSPHLRTRAGKRNSRRSSIRSPRLVVRASIDSGL 79
Cdd:PLN03218    1 MMASASSPLSLSRHSRLLTLPSTIPPILPASTLRRDFLGCSHNLRpPNSASRLRGGKSKSIRSRIRSPRLVVNASLGSGL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124   80 ILIVVAVTAFSAIAFaYCQSTFRKRKSSDEVATVHGGKNSAENRREIH---GDIHEGNPVEINVGFrKVEEESVNLLEEE 156
Cdd:PLN03218   81 VLVVVAVTAFSAISF-AYLQHTRRRKSSPLVATPSGGGISTLNREDVQsldGDVHKGTSTEINVGF-RDLVEEVEHTEEE 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  157 KAHQIHEVAVMDYDSVSAEDSQFAVASVTTVATAHTLIDESFSSSIVNGSVALESATFGVKTPEKQVGNSEDQKGLEHDF 236
Cdd:PLN03218  159 KTHQAQERALMEEESVVVEGSESSRESVRVVADEHTLSDESASSRVVHGSVALLSLSFGVENPELQNGNSPDQTKLELDL 238

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  237 SQAVVGIHSIASP----QVVDDTRALEYEYNGLLQKPLEYS---IFAESKREEIHTFYGSNHSSAKSSRLPSLKAVSPAV 309
Cdd:PLN03218  239 SQLVVGRHSIAESlftqTVLDSLDYDSYEYNGLLQEAAISSgkgIFAESKREELYTFYEEKQSRAKSSRLPNVKGLRKGV 318

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  310 TSATNSLFLDHKNNGVIDTQFPGQSSGQATGDVQEENLVAHSNGGVSHIRKdvkgdwkfpsdgkhvghqidesmpqfpar 389
Cdd:PLN03218  319 SSATNSLSLDKKNNGVKDAELPGQSSGQAASDVEEENSLAAYNGGVSGKRK----------------------------- 369

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  390 nfelhnsngrSPETSDAYNRLLRDGRIKDCISLLEDLDQRDLLDMDKIYHASFFKACKKQRAVKEAFRFTKLILNPTMST 469
Cdd:PLN03218  370 ----------SPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLST 439

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  470 FNMLMSVCASSQDIEGARGVLRLVQESGMTADCKLYTTLISSCAKSGKVDAMFEVFHQMSNSGVEANLHTFGALIDGCAR 549
Cdd:PLN03218  440 FNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCAR 519

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  550 AGQVAKAFGAYGILRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHISIGALMKACCNAGQVERAK 629
Cdd:PLN03218  520 AGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAK 599

                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  630 EVYQMIHKYGIRGTPEVYTIAVNSCSKSGDWDFACSIYKDMKEKDVTPDEVFFSALIDVAGHAKMLDEAFGILQDAKSQG 709
Cdd:PLN03218  600 EVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQG 679

                         730       740       750       760       770       780       790       800
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  710 IRLGTISYSSLMGACCNAKDWKKALELYEKIKSIKLRPTISTMNALITALCEGNQLPKAMEYLDEIKTLGLKPNTITYSM 789
Cdd:PLN03218  680 IKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSI 759

                         810       820       830       840       850       860       870       880
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  790 LMLASERKDDFEVSFKLLSQAKGDGVSPNLIMCRCITSLCKRRFEKACAGGEPVVSFKSGRPQIENKWTSMALMVYRETI 869
Cdd:PLN03218  760 LLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETI 839

                         890       900       910       920       930       940       950       960
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  870 SGGTVPTTEVVSQVLGCLQLPHDAALRDRLISTLGINISSQKQHNIFPLVDGFGEYDPRAFSLLEEATSLGVLPSVSFNK 949
Cdd:PLN03218  840 SAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEYDPRAFSLLEEAASLGVVPSVSFKK 919

                         970       980       990      1000      1010      1020      1030      1040
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  950 IPLFFDTTELPKNVAEVYLLTIFKGLKHRLAAGAKIPHINLIISIQEKEIRTPEGEKTIDLTGRVGQEIGALLRRLDIPY 1029
Cdd:PLN03218  920 SPIVIDAEELPVFAAEVYLLTILKGLKHRLAAGAKLPNVTILLPTEKKEIYTPKGEKTINLAGRVGQAVAALLRRLGLPY 999

                        1050      1060      1070      1080      1090      1100
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 145353124 1030 HRKDS--RLRINGVSLKNWFQPKLDSPFSgGKPGDLRSSQVPLGNQISRQQRSIRLGNLSLE 1089
Cdd:PLN03218 1000 QGSEShgKLRINGLSLRRWFQPKLKSPFS-GKPEDLSSSQSRLGKGIADQQRAIRLGNLSLE 1060
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 477-638 2.85e-13

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: 70.12  E-value: 2.85e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124   477 CASSQDIEGARGVLRLVQESGMTADCKLYTTLISSCAKSG---------KVDAMFEVFHQMSNSGVEANLHTFGALIDGC 547
Cdd:pfam17177   21 CSKHADATGALALYDAAKAEGVRLAQYHYNVLLYLCSKAAdatdlkpqlAADRGFEVFEAMKAQGVSPNEATYTAVARLA 100

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124   548 ARAGQVAKAFGAYGILRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAetHPIDPDHISIGALMKACCNAGqveR 627
Cdd:pfam17177  101 AAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLA--HGVELEEPELAALLKVSAKAG---R 175

                          170
                   ....*....|.
gi 145353124   628 AKEVYQMIHKY 638
Cdd:pfam17177  176 ADKVYAYLHRL 186
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 509-661 7.33e-12

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: 65.88  E-value: 7.33e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124   509 ISSCAKSGKVDAMFEVFHQMSNSGVEANLHTFGALIDGCARAGQ---------VAKAFGAYGILRSKNVKPDRVVFNALI 579
Cdd:pfam17177   18 LDKCSKHADATGALALYDAAKAEGVRLAQYHYNVLLYLCSKAADatdlkpqlaADRGFEVFEAMKAQGVSPNEATYTAVA 97

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124   580 SACGQSGAVDRAFDVLAEMkaETHPIDPDHISIGALMKACCNAGQVERAKEVYQMIHKYGIRGTPEVYTIAVNSCSKSGD 659
Cdd:pfam17177   98 RLAAAKGDGDLAFDLVKEM--EAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAGR 175


                   ..
gi 145353124   660 WD 661
Cdd:pfam17177  176 AD 177
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 445-802 2.51e-11

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 67.97  E-value: 2.51e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  445 ACKKQRAVKEAFRFTKLILNPTM--STFNMLMSVCASSQDIEGARGVLRLVQESGMTADCKLYTTLISSCAKSGKVDAMF 522
Cdd:PLN03081   99 ACGRHREALELFEILEAGCPFTLpaSTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDAR 178

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  523 EVFHQMSnsgvEANLHTFGALIDGCARAGQVAKAFGAYGILRSKNVKPDRVVFNALISACGQSGAVdRAFDVLAEMKAET 602
Cdd:PLN03081  179 RLFDEMP----ERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSA-RAGQQLHCCVLKT 253

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  603 HPIDPDHISIGAL-MKACCnaGQVERAKEVYQmihkygirGTPEVYTIAVNSCSKS----GDWDFACSIYKDMKEKDVTP 677
Cdd:PLN03081  254 GVVGDTFVSCALIdMYSKC--GDIEDARCVFD--------GMPEKTTVAWNSMLAGyalhGYSEEALCLYYEMRDSGVSI 323

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  678 DEVFFSALIDVA-----------GHAKMLDEAF-----------------GILQDAKSQGIRL---GTISYSSLMGACCN 726
Cdd:PLN03081  324 DQFTFSIMIRIFsrlallehakqAHAGLIRTGFpldivantalvdlyskwGRMEDARNVFDRMprkNLISWNALIAGYGN 403

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  727 AKDWKKALELYEKIKSIKLRPTISTMNALITAlC-------EGNQL-----------PKAMEY------------LDE-- 774
Cdd:PLN03081  404 HGRGTKAVEMFERMIAEGVAPNHVTFLAVLSA-CrysglseQGWEIfqsmsenhrikPRAMHYacmiellgreglLDEay 482

                         410       420       430
                  ....*....|....*....|....*....|
gi 145353124  775 --IKTLGLKPNTITYSMLMLASERKDDFEV 802
Cdd:PLN03081  483 amIRRAPFKPTVNMWAALLTACRIHKNLEL 512
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 505-549 7.26e-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: 58.14  E-value: 7.26e-11
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*
gi 145353124   505 YTTLISSCAKSGKVDAMFEVFHQMSNSGVEANLHTFGALIDGCAR 549
Cdd:pfam13041    6 YNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03077 PLN03077
Protein ECB2; Provisional
 393-796 1.92e-10

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 65.26  E-value: 1.92e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  393 LHNSNGRSPETSDAYNRLLRDGRIKDCISLLEDLdQRDLLDMDKIYHASFFKACKKQRAVKEAFRFTKLILNpTMSTF-- 470
Cdd:PLN03077   44 AASSSSSTHDSNSQLRALCSHGQLEQALKLLESM-QELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALS-SHPSLgv 121

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  471 ---NMLMSVCASSQDIEGARGVLRLVQESGMTAdcklYTTLISSCAKSGKVDAMFEVFHQMSNSGVEANLHTFGALIDGC 547
Cdd:PLN03077  122 rlgNAMLSMFVRFGELVHAWYVFGKMPERDLFS----WNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTC 197

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  548 ------ARAGQVAKAFGAYGI--------------LRSKNVKPDRVVF-----------NALISACGQSGAVDRAFDVLA 596
Cdd:PLN03077  198 ggipdlARGREVHAHVVRFGFeldvdvvnalitmyVKCGDVVSARLVFdrmprrdciswNAMISGYFENGECLEGLELFF 277

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  597 EMKAEThpIDPDHISIGALMKACCNAGQVERAKEVY-------------------QMIHKYGIRGTPEV----------- 646
Cdd:PLN03077  278 TMRELS--VDPDLMTITSVISACELLGDERLGREMHgyvvktgfavdvsvcnsliQMYLSLGSWGEAEKvfsrmetkdav 355

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  647 -YTIAVNSCSKSGDWDFACSIYKDMKEKDVTPDEVFFSALIDVAGHAKMLDEAFGILQDAKSQGIRLGTISYSSLMGACC 725
Cdd:PLN03077  356 sWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYS 435

                         410       420       430       440       450       460       470
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 145353124  726 NAKDWKKALELYEKIKsiklRPTISTMNALITALCEGNQLPKAMEYLDEIKtLGLKPNTITYSMLMLASER 796
Cdd:PLN03077  436 KCKCIDKALEVFHNIP----EKDVISWTSIIAGLRLNNRCFEALIFFRQML-LTLKPNSVTLIAALSACAR 501
PLN03077 PLN03077
Protein ECB2; Provisional
 501-699 1.98e-10

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 65.26  E-value: 1.98e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  501 DCKLYTTLISSCAKSGKVDAMFEVFHQMSNSGVEANLHTFGALIDGCARAGQVAKAFGAYGILRSK-NVKPDRVVFNALI 579
Cdd:PLN03077  553 DVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKySITPNLKHYACVV 632

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  580 SACGQSGAVDRAFDVLAEMkaethPIDPDHISIGALMKACcnagQVERAKEVYQMIHKYGIRGTPE---VYTIAVNSCSK 656
Cdd:PLN03077  633 DLLGRAGKLTEAYNFINKM-----PITPDPAVWGALLNAC----RIHRHVELGELAAQHIFELDPNsvgYYILLCNLYAD 703

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*
gi 145353124  657 SGDWDFACSIYKDMKEKDVTPDEvfFSALIDVAG--HAKMLDEAF 699
Cdd:PLN03077  704 AGKWDEVARVRKTMRENGLTVDP--GCSWVEVKGkvHAFLTDDES 746
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 469-741 1.05e-09

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 62.58  E-value: 1.05e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  469 TFNMLMSVCASSQDIEGARGVLRLVQESGMTADCKLYTTLISSCAKSGKVDAMFEVFHQMSNSgveaNLHTFGALIDGCA 548
Cdd:PLN03081  327 TFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRK----NLISWNALIAGYG 402

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  549 RAGQVAKAFGAYGILRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMkAETHPIDPDhisigALMKACCNA--GQVE 626
Cdd:PLN03081  403 NHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSM-SENHRIKPR-----AMHYACMIEllGREG 476

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  627 RAKEVYQMIHKYGIRGTPEVYTIAVNscsksgdwdfACSIYKDMKEKDVTPDEVF---------FSALIDVAGHAKMLDE 697
Cdd:PLN03081  477 LLDEAYAMIRRAPFKPTVNMWAALLT----------ACRIHKNLELGRLAAEKLYgmgpeklnnYVVLLNLYNSSGRQAE 546

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 145353124  698 AFGILQDAKSQGIRL---------GTISYSSLMGACC---NAKDWKKALELYEKIK 741
Cdd:PLN03081  547 AAKVVETLKRKGLSMhpactwievKKQDHSFFSGDRLhpqSREIYQKLDELMKEIS 602
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 701-763 1.89e-09

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 54.67  E-value: 1.89e-09
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 145353124   701 ILQDAKSQGIRLGTISYSSLMGACCNAKDWKKALELYEKIKSIKLRPTISTMNALITAlCEGN 763
Cdd:pfam13812    2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGV-IGGR 63
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 747-791 1.21e-08

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 51.98  E-value: 1.21e-08
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*
gi 145353124   747 PTISTMNALITALCEGNQLPKAMEYLDEIKTLGLKPNTITYSMLM 791
Cdd:pfam13041    1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILI 45
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 643-809 1.52e-08

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


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 56.25  E-value: 1.52e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124   643 TPEV-YTIAVNSCSKSGDWDFACSIYKDMKEKDVTPDEVFFSALIDVAGHA---------KMLDEAFGILQDAKSQGIRL 712
Cdd:pfam17177    9 TPESeLRFQLDKCSKHADATGALALYDAAKAEGVRLAQYHYNVLLYLCSKAadatdlkpqLAADRGFEVFEAMKAQGVSP 88

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124   713 GTISYSSLMGACCNAKDWKKALELYEKIKSIKLRPTISTMNALITALCEGNQLPKAMEYLDEIKTLGLKPNTITYSMLML 792
Cdd:pfam17177   89 NEATYTAVARLAAAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLK 168

                          170
                   ....*....|....*..
gi 145353124   793 ASERKDDFEVSFKLLSQ 809
Cdd:pfam17177  169 VSAKAGRADKVYAYLHR 185
PLN03077 PLN03077
Protein ECB2; Provisional
 456-831 2.35e-08

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 58.32  E-value: 2.35e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  456 FRFTKLILNPTMSTFNMLMSVCASSQDIEGARGVLRLVQESGMTADCKLYTTLISSCAKSGKVDAMFEVFHQMSNSgvea 535
Cdd:PLN03077  277 FTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK---- 352

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  536 NLHTFGALIDGCARAGQVAKAFGAYGILRSKNVKPDRVVFNALISACGQSGAVDRAFDV--LAEMKAETHPIdpdhISIG 613
Cdd:PLN03077  353 DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLheLAERKGLISYV----VVAN 428

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  614 ALMKACCNAGQVERAKEVY-QMIHKYGIRGTPEVYTIAVNSCSksgdwdFACSIYKDMKEKDVTPDEV-FFSALIDVAG- 690
Cdd:PLN03077  429 ALIEMYSKCKCIDKALEVFhNIPEKDVISWTSIIAGLRLNNRC------FEALIFFRQMLLTLKPNSVtLIAALSACARi 502

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  691 ---------HAKMLDEAFGI---LQDA-KSQGIRLGTISYsSLMGACCNAKDwkkalelyekiksiklrptISTMNALIT 757
Cdd:PLN03077  503 galmcgkeiHAHVLRTGIGFdgfLPNAlLDLYVRCGRMNY-AWNQFNSHEKD-------------------VVSWNILLT 562

                         330       340       350       360       370       380       390
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 145353124  758 ALCEGNQLPKAMEYLDEIKTLGLKPNTITYSMLMLASERKDDFEVSFKLLSQAKGD-GVSPNLIMCRCITSLCKR 831
Cdd:PLN03077  563 GYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKySITPNLKHYACVVDLLGR 637
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 713-760 7.42e-08

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 49.67  E-value: 7.42e-08
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 145353124   713 GTISYSSLMGACCNAKDWKKALELYEKIKSIKLRPTISTMNALITALC 760
Cdd:pfam13041    2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
PLN03077 PLN03077
Protein ECB2; Provisional
 495-702 7.72e-08

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 56.78  E-value: 7.72e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  495 ESGMTADCKLYTTLISSCAKSGKVDAMFEVFHQMS-NSGVEANLHTFGALIDGCARAGQVAKafgAYGILRSKNVKPDRV 573
Cdd:PLN03077  582 ESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEeKYSITPNLKHYACVVDLLGRAGKLTE---AYNFINKMPITPDPA 658

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124  574 VFNALISACGQSGAVDrafdvLAEMKAEtHPIDPDHISIGALMKAC---CNAGQVERAKEVYQMIHKYG----------- 639
Cdd:PLN03077  659 VWGALLNACRIHRHVE-----LGELAAQ-HIFELDPNSVGYYILLCnlyADAGKWDEVARVRKTMRENGltvdpgcswve 732

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 145353124  640 IRG--------------TPEVYTIAVNSCSKSGDWDFACSIYKDMKEKDVTPDEVFfsalidvAGHAKMLDEAFGIL 702
Cdd:PLN03077  733 VKGkvhafltddeshpqIKEINTVLEGFYEKMKASGLAGSESSSMDEIEVSKDDIF-------CGHSERLAIAFGLI 802
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 524-583 1.09e-07

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 49.66  E-value: 1.09e-07
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124   524 VFHQMSNSGVEANLHTFGALIDGCARAGQVAKAFGAYGILRSKNVKPDRVVFNALISACG 583
Cdd:pfam13812    2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIG 61
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 570-621 1.52e-07

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 48.90  E-value: 1.52e-07
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 145353124   570 PDRVVFNALISACGQSGAVDRAFDVLAEMKAetHPIDPDHISIGALMKACCN 621
Cdd:pfam13041    1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKK--RGVKPNVYTYTILINGLCK 50
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 544-751 2.65e-07

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: 52.40  E-value: 2.65e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124   544 IDGCARAGQVAKAFGAYGILRSKNVKPDRVVFNALISACGQSG---------AVDRAFDVLAEMKAEThpIDPDHISIGA 614
Cdd:pfam17177   18 LDKCSKHADATGALALYDAAKAEGVRLAQYHYNVLLYLCSKAAdatdlkpqlAADRGFEVFEAMKAQG--VSPNEATYTA 95

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124   615 LMKACcnagqverakevyqmihkygirgtpevytiavnscSKSGDWDFACSIYKDMKEKDVTPDEVFFSALIDVAGHAKM 694
Cdd:pfam17177   96 VARLA-----------------------------------AAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGD 140

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 145353124   695 LDEAFGILQDAKSQGIRLGTISYSSLMGACCNAKDWKKALELYEKIKSIKLRPTIST 751
Cdd:pfam17177  141 ADKAYEVEEHMLAHGVELEEPELAALLKVSAKAGRADKVYAYLHRLRDAVRQVSEST 197
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 505-536 4.82e-06

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 43.98  E-value: 4.82e-06
                           10        20        30
                   ....*....|....*....|....*....|..
gi 145353124   505 YTTLISSCAKSGKVDAMFEVFHQMSNSGVEAN 536
Cdd:TIGR00756    3 YNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 536-582 5.77e-06

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 44.28  E-value: 5.77e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 145353124   536 NLHTFGALIDGCARAGQVAKAFGAYGILRSKNVKPDRVVFNALISAC 582
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 ...
 677-726 1.82e-05

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 42.74  E-value: 1.82e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 145353124   677 PDEVFFSALIDVAGHAKMLDEAFGILQDAKSQGIRLGTISYSSLMGACCN 726
Cdd:pfam13041    1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 566-599 1.94e-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: 42.33  E-value: 1.94e-05
                           10        20        30
                   ....*....|....*....|....*....|....
gi 145353124   566 KNVKPDRVVFNALISACGQSGAVDRAFDVLAEMK 599
Cdd:pfam12854    1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 646-679 2.85e-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: 42.06  E-value: 2.85e-05
                           10        20        30
                   ....*....|....*....|....*....|....
gi 145353124   646 VYTIAVNSCSKSGDWDFACSIYKDMKEKDVTPDE 679
Cdd:TIGR00756    2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 647-693 3.13e-05

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 42.35  E-value: 3.13e-05
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 145353124   647 YTIAVNSCSKSGDWDFACSIYKDMKEKDVTPDEVFFSALIDvaGHAK 693
Cdd:pfam13041    6 YNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILIN--GLCK 50
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 566-621 3.45e-05

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 42.73  E-value: 3.45e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 145353124   566 KNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHISIGALMKACCN 621
Cdd:pfam13812    9 DGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKG--IKPTLDTYNAILGVIGG 62
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 724-819 7.66e-05

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


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 45.08  E-value: 7.66e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 145353124   724 CCNAKDWKKALELYEKIKSIKLRPTISTMNALITALCEGNQLPKAMEYL---------DEIKTLGLKPNTITY-SMLMLA 793
Cdd:pfam17177   21 CSKHADATGALALYDAAKAEGVRLAQYHYNVLLYLCSKAADATDLKPQLaadrgfevfEAMKAQGVSPNEATYtAVARLA 100

                           90       100
                   ....*....|....*....|....*.
gi 145353124   794 SeRKDDFEVSFKLLSQAKGDGVSPNL 819
Cdd:pfam17177  101 A-AKGDGDLAFDLVKEMEAAGVSPRL 125
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 665-726 8.27e-05

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 41.57  E-value: 8.27e-05
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 145353124   665 SIYKDMKEKDVTPDEVFFSALIDVAGHAKMLDEAFGILQDAKSQGIRLGTISYSSLMGACCN 726
Cdd:pfam13812    1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGG 62
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 505-533 8.69e-05

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 40.53  E-value: 8.69e-05
                           10        20
                   ....*....|....*....|....*....
gi 145353124   505 YTTLISSCAKSGKVDAMFEVFHQMSNSGV 533
Cdd:pfam01535    3 YNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 489-547 1.74e-04

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 40.42  E-value: 1.74e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 145353124   489 VLRLVQESGMTADCKLYTTLISSCAKSGKVDAMFEVFHQMSNSGVEANLHTFGALIDGC 547
Cdd:pfam13812    2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 772-832 5.00e-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: 5.00e-04
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 145353124   772 LDEIKTLGLKPNTITYSMLMLASERKDDFEVSFKLLSQAKGDGVSPNLIMCRCITSLCKRR 832
Cdd:pfam13812    3 LREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGGR 63
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 715-749 6.94e-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: 38.21  E-value: 6.94e-04
                           10        20        30
                   ....*....|....*....|....*....|....*
gi 145353124   715 ISYSSLMGACCNAKDWKKALELYEKIKSIKLRPTI 749
Cdd:TIGR00756    1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 573-599 7.77e-04

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 37.83  E-value: 7.77e-04
                           10        20
                   ....*....|....*....|....*..
gi 145353124   573 VVFNALISACGQSGAVDRAFDVLAEMK 599
Cdd:pfam01535    1 VTYNSLISGYCKNGKLEEALELFKEMK 27
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 538-571 1.09e-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: 37.43  E-value: 1.09e-03
                           10        20        30
                   ....*....|....*....|....*....|....
gi 145353124   538 HTFGALIDGCARAGQVAKAFGAYGILRSKNVKPD 571
Cdd:TIGR00756    1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 715-742 1.20e-03

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 37.44  E-value: 1.20e-03
                           10        20
                   ....*....|....*....|....*...
gi 145353124   715 ISYSSLMGACCNAKDWKKALELYEKIKS 742
Cdd:pfam01535    1 VTYNSLISGYCKNGKLEEALELFKEMKE 28
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 736-791 1.92e-03

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 37.72  E-value: 1.92e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 145353124   736 LYEKIKSIKLRPTISTMNALITALCEGNQLPKAMEYLDEIKTLGLKPNTITYSMLM 791
Cdd:pfam13812    2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAIL 57
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 614-641 3.42e-03

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 36.28  E-value: 3.42e-03
                           10        20
                   ....*....|....*....|....*...
gi 145353124   614 ALMKACCNAGQVERAKEVYQMIHKYGIR 641
Cdd:TIGR00756    5 TLIDGLCKAGRVEEALELFKEMKERGIE 32
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 497-529 3.44e-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: 36.17  E-value: 3.44e-03
                           10        20        30
                   ....*....|....*....|....*....|...
gi 145353124   497 GMTADCKLYTTLISSCAKSGKVDAMFEVFHQMS 529
Cdd:pfam12854    2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 646-675 4.26e-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: 35.90  E-value: 4.26e-03
                           10        20        30
                   ....*....|....*....|....*....|
gi 145353124   646 VYTIAVNSCSKSGDWDFACSIYKDMKEKDV 675
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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