NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|297798436|ref|XP_002867102|]
View 

pentatricopeptide repeat-containing protein MRL1, chloroplastic [Arabidopsis lyrata subsp. lyrata]

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

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 1-1094 0e+00

maturation of RBCL 1; Provisional


:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 1858.39  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436    1 MEVTSTTFISTTRSSKYLTLTSYSPVILPASTLRRDFLGCCHSLRRPSPHLRTRAGKRNSRRSSIRSPRLVVRASLDSGL 80
Cdd:PLN03218    1 MMASASSPLSLSRHSRLLTLPSTIPPILPASTLRRDFLGCSHNLRPPNSASRLRGGKSKSIRSRIRSPRLVVNASLGSGL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436   81 ILVIVAVTAFSAIAFaYCQNTFRKRKTSDVVAastgTIRGGKISTENRRESQHLDGDVYEGNPVEINGGFrKMEEQSVTL 160
Cdd:PLN03218   81 VLVVVAVTAFSAISF-AYLQHTRRRKSSPLVA----TPSGGGISTLNREDVQSLDGDVHKGTSTEINVGF-RDLVEEVEH 154

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  161 LEEEETHQIQEIAVIEYDSFSAEESQFAVANVSTVAKEHTLIDESLSSSIVNGSVALESATFGVKT---QVENSEDHKCL 237
Cdd:PLN03218  155 TEEEKTHQAQERALMEEESVVVEGSESSRESVRVVADEHTLSDESASSRVVHGSVALLSLSFGVENpelQNGNSPDQTKL 234

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  238 EHDFSQAVVGIHSIASP----PVVDDTHALEYEYNGLLQKPLEYS---VFAESKREEIHTFYGSNHSSAKSSRLPSLKAV 310
Cdd:PLN03218  235 ELDLSQLVVGRHSIAESlftqTVLDSLDYDSYEYNGLLQEAAISSgkgIFAESKREELYTFYEEKQSRAKSSRLPNVKGL 314

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  311 SPTVTSATNSLLLDHKNNGVIDTQFPGHSSGQATADVQEEKLVAYGNGGVPHIRKdvkedwkfpndgthvghqtdesmpq 390
Cdd:PLN03218  315 RKGVSSATNSLSLDKKNNGVKDAELPGQSSGQAASDVEEENSLAAYNGGVSGKRK------------------------- 369

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  391 fharnfelhnsngrSPESNDAYNRLLRDGRIKDCISLLEDLDQRDLLDMDKIYHASFFKTCKKQRAVKEAFRFTKLILNP 470
Cdd:PLN03218  370 --------------SPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNP 435

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  471 TMSTFNMLMSVCASSQDIEGARGVLRLVQESGMTADCKLYTTLISSCAKSGKVDAMFEVFHQMSNSGVEANLHTFGALID 550
Cdd:PLN03218  436 TLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALID 515

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  551 GCARAGQVAKAFGAYGILRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITIGALMKACCNAGQV 630
Cdd:PLN03218  516 GCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQV 595

                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  631 ERAKEVYQMIHKYGIRGTPEVYTIAVNSCSKSGDWDFACSIYKDMKEKDVTPDEVFFSALIDVAGHAKMLDEAFGILQDA 710
Cdd:PLN03218  596 DRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDA 675

                         730       740       750       760       770       780       790       800
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  711 KSQGIRLGTVSYSSLMGACCNAKDWKKALELYEKIKLIKLRPTISTMNALITALCEGNQLPKAMEYLDEIKTLGLKPNTI 790
Cdd:PLN03218  676 RKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTI 755

                         810       820       830       840       850       860       870       880
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  791 TYSMLMLASERKDDFEVSFKLLSQAKEDGISPNFIMCRCITSLCKRRFEKACAGGEPVVSFKSGRPQIENKWTSMALMVY 870
Cdd:PLN03218  756 TYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVY 835

                         890       900       910       920       930       940       950       960
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  871 RETISGGTVPTTEVVSQVLGCLQLPHDAALRDRLISNLSINISSQKQHNIFPLVDGFGEYDPRAFSLLEEATSLGVLPSV 950
Cdd:PLN03218  836 RETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEYDPRAFSLLEEAASLGVVPSV 915

                         970       980       990      1000      1010      1020      1030      1040
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  951 SFNKIPLFFDTTELPKNVAEVYLLTIFKGLKHRLAAGAKIPHINLIISMEEKEIRTPEGEKTIDLTGRVGQEIGALLRRL 1030
Cdd:PLN03218  916 SFKKSPIVIDAEELPVFAAEVYLLTILKGLKHRLAAGAKLPNVTILLPTEKKEIYTPKGEKTINLAGRVGQAVAALLRRL 995

                        1050      1060      1070      1080      1090      1100
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 297798436 1031 DIPYHRKDS--RLRINGVSLKNWFQPKLDSPFSgGKPGDLRSSQVPLGNQISRQQRSIRLGNLSLE 1094
Cdd:PLN03218  996 GLPYQGSEShgKLRINGLSLRRWFQPKLKSPFS-GKPEDLSSSQSRLGKGIADQQRAIRLGNLSLE 1060
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 1-1094 0e+00

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 1858.39  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436    1 MEVTSTTFISTTRSSKYLTLTSYSPVILPASTLRRDFLGCCHSLRRPSPHLRTRAGKRNSRRSSIRSPRLVVRASLDSGL 80
Cdd:PLN03218    1 MMASASSPLSLSRHSRLLTLPSTIPPILPASTLRRDFLGCSHNLRPPNSASRLRGGKSKSIRSRIRSPRLVVNASLGSGL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436   81 ILVIVAVTAFSAIAFaYCQNTFRKRKTSDVVAastgTIRGGKISTENRRESQHLDGDVYEGNPVEINGGFrKMEEQSVTL 160
Cdd:PLN03218   81 VLVVVAVTAFSAISF-AYLQHTRRRKSSPLVA----TPSGGGISTLNREDVQSLDGDVHKGTSTEINVGF-RDLVEEVEH 154

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  161 LEEEETHQIQEIAVIEYDSFSAEESQFAVANVSTVAKEHTLIDESLSSSIVNGSVALESATFGVKT---QVENSEDHKCL 237
Cdd:PLN03218  155 TEEEKTHQAQERALMEEESVVVEGSESSRESVRVVADEHTLSDESASSRVVHGSVALLSLSFGVENpelQNGNSPDQTKL 234

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  238 EHDFSQAVVGIHSIASP----PVVDDTHALEYEYNGLLQKPLEYS---VFAESKREEIHTFYGSNHSSAKSSRLPSLKAV 310
Cdd:PLN03218  235 ELDLSQLVVGRHSIAESlftqTVLDSLDYDSYEYNGLLQEAAISSgkgIFAESKREELYTFYEEKQSRAKSSRLPNVKGL 314

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  311 SPTVTSATNSLLLDHKNNGVIDTQFPGHSSGQATADVQEEKLVAYGNGGVPHIRKdvkedwkfpndgthvghqtdesmpq 390
Cdd:PLN03218  315 RKGVSSATNSLSLDKKNNGVKDAELPGQSSGQAASDVEEENSLAAYNGGVSGKRK------------------------- 369

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  391 fharnfelhnsngrSPESNDAYNRLLRDGRIKDCISLLEDLDQRDLLDMDKIYHASFFKTCKKQRAVKEAFRFTKLILNP 470
Cdd:PLN03218  370 --------------SPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNP 435

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  471 TMSTFNMLMSVCASSQDIEGARGVLRLVQESGMTADCKLYTTLISSCAKSGKVDAMFEVFHQMSNSGVEANLHTFGALID 550
Cdd:PLN03218  436 TLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALID 515

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  551 GCARAGQVAKAFGAYGILRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITIGALMKACCNAGQV 630
Cdd:PLN03218  516 GCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQV 595

                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  631 ERAKEVYQMIHKYGIRGTPEVYTIAVNSCSKSGDWDFACSIYKDMKEKDVTPDEVFFSALIDVAGHAKMLDEAFGILQDA 710
Cdd:PLN03218  596 DRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDA 675

                         730       740       750       760       770       780       790       800
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  711 KSQGIRLGTVSYSSLMGACCNAKDWKKALELYEKIKLIKLRPTISTMNALITALCEGNQLPKAMEYLDEIKTLGLKPNTI 790
Cdd:PLN03218  676 RKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTI 755

                         810       820       830       840       850       860       870       880
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  791 TYSMLMLASERKDDFEVSFKLLSQAKEDGISPNFIMCRCITSLCKRRFEKACAGGEPVVSFKSGRPQIENKWTSMALMVY 870
Cdd:PLN03218  756 TYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVY 835

                         890       900       910       920       930       940       950       960
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  871 RETISGGTVPTTEVVSQVLGCLQLPHDAALRDRLISNLSINISSQKQHNIFPLVDGFGEYDPRAFSLLEEATSLGVLPSV 950
Cdd:PLN03218  836 RETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEYDPRAFSLLEEAASLGVVPSV 915

                         970       980       990      1000      1010      1020      1030      1040
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  951 SFNKIPLFFDTTELPKNVAEVYLLTIFKGLKHRLAAGAKIPHINLIISMEEKEIRTPEGEKTIDLTGRVGQEIGALLRRL 1030
Cdd:PLN03218  916 SFKKSPIVIDAEELPVFAAEVYLLTILKGLKHRLAAGAKLPNVTILLPTEKKEIYTPKGEKTINLAGRVGQAVAALLRRL 995

                        1050      1060      1070      1080      1090      1100
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 297798436 1031 DIPYHRKDS--RLRINGVSLKNWFQPKLDSPFSgGKPGDLRSSQVPLGNQISRQQRSIRLGNLSLE 1094
Cdd:PLN03218  996 GLPYQGSEShgKLRINGLSLRRWFQPKLKSPFS-GKPEDLSSSQSRLGKGIADQQRAIRLGNLSLE 1060
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 469-643 3.66e-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: 69.73  E-value: 3.66e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436   469 NPTmSTFNMLMSVCASSQDIEGARGVLRLVQESGMTADCKLYTTLISSCAKSG---------KVDAMFEVFHQMSNSGVE 539
Cdd:pfam17177    9 TPE-SELRFQLDKCSKHADATGALALYDAAKAEGVRLAQYHYNVLLYLCSKAAdatdlkpqlAADRGFEVFEAMKAQGVS 87

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436   540 ANLHTFGALIDGCARAGQVAKAFGAYGILRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAetHPIDPDHITIGA 619
Cdd:pfam17177   88 PNEATYTAVARLAAAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLA--HGVELEEPELAA 165

                          170       180
                   ....*....|....*....|....
gi 297798436   620 LMKACCNAGqveRAKEVYQMIHKY 643
Cdd:pfam17177  166 LLKVSAKAG---RADKVYAYLHRL 186
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 510-541 5.50e-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: 5.50e-06
                           10        20        30
                   ....*....|....*....|....*....|..
gi 297798436   510 YTTLISSCAKSGKVDAMFEVFHQMSNSGVEAN 541
Cdd:TIGR00756    3 YNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 627-825 6.66e-03

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: 39.71  E-value: 6.66e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  627 AGQVERAKEVYQMIHKYGiRGTPEVYTIAVNSCSKSGDWDFACSIYKDMKEKDVTPDEVFFsALIDVAGHAKMLDEAFGI 706
Cdd:COG2956    21 NGQPDKAIDLLEEALELD-PETVEAHLALGNLYRRRGEYDRAIRIHQKLLERDPDRAEALL-ELAQDYLKAGLLDRAEEL 98

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  707 LQDAksQGIRLGTVSYSSLMGACCNA-KDWKKALELYEkiKLIKLRPT-ISTMNALITALCEGNQLPKAMEYLDEIktLG 784
Cdd:COG2956    99 LEKL--LELDPDDAEALRLLAEIYEQeGDWEKAIEVLE--RLLKLGPEnAHAYCELAELYLEQGDYDEAIEALEKA--LK 172

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 297798436  785 LKPNTITYSMLM-LASERKDDFEVSFKLLSQAKEdgISPNFI 825
Cdd:COG2956   173 LDPDCARALLLLaELYLEQGDYEEAIAALERALE--QDPDYL 212
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 1-1094 0e+00

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 1858.39  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436    1 MEVTSTTFISTTRSSKYLTLTSYSPVILPASTLRRDFLGCCHSLRRPSPHLRTRAGKRNSRRSSIRSPRLVVRASLDSGL 80
Cdd:PLN03218    1 MMASASSPLSLSRHSRLLTLPSTIPPILPASTLRRDFLGCSHNLRPPNSASRLRGGKSKSIRSRIRSPRLVVNASLGSGL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436   81 ILVIVAVTAFSAIAFaYCQNTFRKRKTSDVVAastgTIRGGKISTENRRESQHLDGDVYEGNPVEINGGFrKMEEQSVTL 160
Cdd:PLN03218   81 VLVVVAVTAFSAISF-AYLQHTRRRKSSPLVA----TPSGGGISTLNREDVQSLDGDVHKGTSTEINVGF-RDLVEEVEH 154

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  161 LEEEETHQIQEIAVIEYDSFSAEESQFAVANVSTVAKEHTLIDESLSSSIVNGSVALESATFGVKT---QVENSEDHKCL 237
Cdd:PLN03218  155 TEEEKTHQAQERALMEEESVVVEGSESSRESVRVVADEHTLSDESASSRVVHGSVALLSLSFGVENpelQNGNSPDQTKL 234

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  238 EHDFSQAVVGIHSIASP----PVVDDTHALEYEYNGLLQKPLEYS---VFAESKREEIHTFYGSNHSSAKSSRLPSLKAV 310
Cdd:PLN03218  235 ELDLSQLVVGRHSIAESlftqTVLDSLDYDSYEYNGLLQEAAISSgkgIFAESKREELYTFYEEKQSRAKSSRLPNVKGL 314

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  311 SPTVTSATNSLLLDHKNNGVIDTQFPGHSSGQATADVQEEKLVAYGNGGVPHIRKdvkedwkfpndgthvghqtdesmpq 390
Cdd:PLN03218  315 RKGVSSATNSLSLDKKNNGVKDAELPGQSSGQAASDVEEENSLAAYNGGVSGKRK------------------------- 369

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  391 fharnfelhnsngrSPESNDAYNRLLRDGRIKDCISLLEDLDQRDLLDMDKIYHASFFKTCKKQRAVKEAFRFTKLILNP 470
Cdd:PLN03218  370 --------------SPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNP 435

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  471 TMSTFNMLMSVCASSQDIEGARGVLRLVQESGMTADCKLYTTLISSCAKSGKVDAMFEVFHQMSNSGVEANLHTFGALID 550
Cdd:PLN03218  436 TLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALID 515

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  551 GCARAGQVAKAFGAYGILRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITIGALMKACCNAGQV 630
Cdd:PLN03218  516 GCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQV 595

                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  631 ERAKEVYQMIHKYGIRGTPEVYTIAVNSCSKSGDWDFACSIYKDMKEKDVTPDEVFFSALIDVAGHAKMLDEAFGILQDA 710
Cdd:PLN03218  596 DRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDA 675

                         730       740       750       760       770       780       790       800
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  711 KSQGIRLGTVSYSSLMGACCNAKDWKKALELYEKIKLIKLRPTISTMNALITALCEGNQLPKAMEYLDEIKTLGLKPNTI 790
Cdd:PLN03218  676 RKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTI 755

                         810       820       830       840       850       860       870       880
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  791 TYSMLMLASERKDDFEVSFKLLSQAKEDGISPNFIMCRCITSLCKRRFEKACAGGEPVVSFKSGRPQIENKWTSMALMVY 870
Cdd:PLN03218  756 TYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVY 835

                         890       900       910       920       930       940       950       960
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  871 RETISGGTVPTTEVVSQVLGCLQLPHDAALRDRLISNLSINISSQKQHNIFPLVDGFGEYDPRAFSLLEEATSLGVLPSV 950
Cdd:PLN03218  836 RETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEYDPRAFSLLEEAASLGVVPSV 915

                         970       980       990      1000      1010      1020      1030      1040
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  951 SFNKIPLFFDTTELPKNVAEVYLLTIFKGLKHRLAAGAKIPHINLIISMEEKEIRTPEGEKTIDLTGRVGQEIGALLRRL 1030
Cdd:PLN03218  916 SFKKSPIVIDAEELPVFAAEVYLLTILKGLKHRLAAGAKLPNVTILLPTEKKEIYTPKGEKTINLAGRVGQAVAALLRRL 995

                        1050      1060      1070      1080      1090      1100
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 297798436 1031 DIPYHRKDS--RLRINGVSLKNWFQPKLDSPFSgGKPGDLRSSQVPLGNQISRQQRSIRLGNLSLE 1094
Cdd:PLN03218  996 GLPYQGSEShgKLRINGLSLRRWFQPKLKSPFS-GKPEDLSSSQSRLGKGIADQQRAIRLGNLSLE 1060
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 469-643 3.66e-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: 69.73  E-value: 3.66e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436   469 NPTmSTFNMLMSVCASSQDIEGARGVLRLVQESGMTADCKLYTTLISSCAKSG---------KVDAMFEVFHQMSNSGVE 539
Cdd:pfam17177    9 TPE-SELRFQLDKCSKHADATGALALYDAAKAEGVRLAQYHYNVLLYLCSKAAdatdlkpqlAADRGFEVFEAMKAQGVS 87

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436   540 ANLHTFGALIDGCARAGQVAKAFGAYGILRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAetHPIDPDHITIGA 619
Cdd:pfam17177   88 PNEATYTAVARLAAAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLA--HGVELEEPELAA 165

                          170       180
                   ....*....|....*....|....
gi 297798436   620 LMKACCNAGqveRAKEVYQMIHKY 643
Cdd:pfam17177  166 LLKVSAKAG---RADKVYAYLHRL 186
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 514-666 6.27e-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: 66.27  E-value: 6.27e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436   514 ISSCAKSGKVDAMFEVFHQMSNSGVEANLHTFGALIDGCARAGQ---------VAKAFGAYGILRSKNVKPDRVVFNALI 584
Cdd:pfam17177   18 LDKCSKHADATGALALYDAAKAEGVRLAQYHYNVLLYLCSKAADatdlkpqlaADRGFEVFEAMKAQGVSPNEATYTAVA 97

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436   585 SACGQSGAVDRAFDVLAEMkaETHPIDPDHITIGALMKACCNAGQVERAKEVYQMIHKYGIRGTPEVYTIAVNSCSKSGD 664
Cdd:pfam17177   98 RLAAAKGDGDLAFDLVKEM--EAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAGR 175


                   ..
gi 297798436   665 WD 666
Cdd:pfam17177  176 AD 177
PLN03077 PLN03077
Protein ECB2; Provisional
 398-801 2.16e-11

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 68.34  E-value: 2.16e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  398 LHNSNGRSPESNDAYNRLLRDGRIKDCISLLEDLdQRDLLDMDKIYHASFFKTCKKQRAVKEAFRFTKLILNpTMSTF-- 475
Cdd:PLN03077   44 AASSSSSTHDSNSQLRALCSHGQLEQALKLLESM-QELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALS-SHPSLgv 121

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  476 ---NMLMSVCASSQDIEGARGVLRLVQESGMTAdcklYTTLISSCAKSGKVDAMFEVFHQMSNSGVEANLHTFGALIDGC 552
Cdd:PLN03077  122 rlgNAMLSMFVRFGELVHAWYVFGKMPERDLFS----WNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTC 197

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  553 ------ARAGQVAKAFGAYGI--------------LRSKNVKPDRVVF-----------NALISACGQSGAVDRAFDVLA 601
Cdd:PLN03077  198 ggipdlARGREVHAHVVRFGFeldvdvvnalitmyVKCGDVVSARLVFdrmprrdciswNAMISGYFENGECLEGLELFF 277

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  602 EMKAEThpIDPDHITIGALMKACCNAGQVERAKEVY-------------------QMIHKYGIRGTPEV----------- 651
Cdd:PLN03077  278 TMRELS--VDPDLMTITSVISACELLGDERLGREMHgyvvktgfavdvsvcnsliQMYLSLGSWGEAEKvfsrmetkdav 355

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  652 -YTIAVNSCSKSGDWDFACSIYKDMKEKDVTPDEVFFSALIDVAGHAKMLDEAFGILQDAKSQGIRLGTVSYSSLMGACC 730
Cdd:PLN03077  356 sWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYS 435

                         410       420       430       440       450       460       470
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 297798436  731 NAKDWKKALELYEKIKliklRPTISTMNALITALCEGNQLPKAMEYLDEIKtLGLKPNTITYSMLMLASER 801
Cdd:PLN03077  436 KCKCIDKALEVFHNIP----EKDVISWTSIIAGLRLNNRCFEALIFFRQML-LTLKPNSVTLIAALSACAR 501
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 510-554 9.32e-11

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 57.76  E-value: 9.32e-11
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*
gi 297798436   510 YTTLISSCAKSGKVDAMFEVFHQMSNSGVEANLHTFGALIDGCAR 554
Cdd:pfam13041    6 YNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03077 PLN03077
Protein ECB2; Provisional
 506-704 1.24e-10

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 65.64  E-value: 1.24e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  506 DCKLYTTLISSCAKSGKVDAMFEVFHQMSNSGVEANLHTFGALIDGCARAGQVAKAFGAYGILRSK-NVKPDRVVFNALI 584
Cdd:PLN03077  553 DVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKySITPNLKHYACVV 632

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  585 SACGQSGAVDRAFDVLAEMkaethPIDPDHITIGALMKACcnagQVERAKEVYQMIHKYGIRGTPE---VYTIAVNSCSK 661
Cdd:PLN03077  633 DLLGRAGKLTEAYNFINKM-----PITPDPAVWGALLNAC----RIHRHVELGELAAQHIFELDPNsvgYYILLCNLYAD 703

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*
gi 297798436  662 SGDWDFACSIYKDMKEKDVTPDEvfFSALIDVAG--HAKMLDEAF 704
Cdd:PLN03077  704 AGKWDEVARVRKTMRENGLTVDP--GCSWVEVKGkvHAFLTDDES 746
PLN03077 PLN03077
Protein ECB2; Provisional
 476-836 5.00e-10

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 63.72  E-value: 5.00e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  476 NMLMSVCASSQDIEGARgvlrLVQESGMTADCKLYTTLISSCAKSGKVDAMFEVFHQMSNSGVEANLHTFGALIDGCARA 555
Cdd:PLN03077  226 NALITMYVKCGDVVSAR----LVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELL 301

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  556 GQV--AKAFGAYGILRSKNVkpDRVVFNAL-------------------------------ISACGQSGAVDRAFDVLAE 602
Cdd:PLN03077  302 GDErlGREMHGYVVKTGFAV--DVSVCNSLiqmylslgswgeaekvfsrmetkdavswtamISGYEKNGLPDKALETYAL 379

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  603 MkaETHPIDPDHITIGALMKACCNAGQVerakEVYQMIHKYGIRGTPEVYTIAVNSC----SKSGDWDFACSIYKDMKEK 678
Cdd:PLN03077  380 M--EQDNVSPDEITIASVLSACACLGDL----DVGVKLHELAERKGLISYVVVANALiemySKCKCIDKALEVFHNIPEK 453

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  679 DVtpdeVFFSALIDVAGHAKMLDEAFGILQDAKSQgIRLGTVSYSSLMGAC-------CNAKDWKKAL------------ 739
Cdd:PLN03077  454 DV----ISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACarigalmCGKEIHAHVLrtgigfdgflpn 528

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  740 ---ELYekIKLIKLRPT----------ISTMNALITALCEGNQLPKAMEYLDEIKTLGLKPNTITYSMLMLASERKDDFE 806
Cdd:PLN03077  529 allDLY--VRCGRMNYAwnqfnshekdVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVT 606

                         410       420       430
                  ....*....|....*....|....*....|.
gi 297798436  807 VSFKLLSQAKED-GISPNFIMCRCITSLCKR 836
Cdd:PLN03077  607 QGLEYFHSMEEKySITPNLKHYACVVDLLGR 637
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 451-836 7.46e-10

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 62.97  E-value: 7.46e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  451 CKKQRAVKEAFRFTKLILNPTM--STFNMLMSVCASSQDIEGARGVLRLVQESGMTADCKLYTTLISSCAKSGKVDAMFE 528
Cdd:PLN03081  100 CGRHREALELFEILEAGCPFTLpaSTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARR 179

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  529 VFHQMSnsgvEANLHTFGALIDGCARAGQVAKAFGAYGILRSKNVKPDRVVFNALISACGQSGAVdRAFDVLAEMKAETH 608
Cdd:PLN03081  180 LFDEMP----ERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSA-RAGQQLHCCVLKTG 254

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  609 PIDPDHITIGAL-MKACCnaGQVERAKEVYQmihkygirGTPEVYTIAVNSCSKS----GDWDFACSIYKDMKEKDVTPD 683
Cdd:PLN03081  255 VVGDTFVSCALIdMYSKC--GDIEDARCVFD--------GMPEKTTVAWNSMLAGyalhGYSEEALCLYYEMRDSGVSID 324

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  684 EVFFSALIDVAGHAKMLDEA----FGILQdaksQGIRLGTVSYSSLMGACCNAKDWKKALELYEKIKliklRPTISTMNA 759
Cdd:PLN03081  325 QFTFSIMIRIFSRLALLEHAkqahAGLIR----TGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----RKNLISWNA 396

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  760 LITALCEGNQLPKAMEYLDEIKTLGLKPNTITYSMLMLA---SERKDDFEVSFKLLSQAKedGISPNFIMCRCITSLCKR 836
Cdd:PLN03081  397 LIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSAcrySGLSEQGWEIFQSMSENH--RIKPRAMHYACMIELLGR 474
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 474-746 8.93e-10

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 62.97  E-value: 8.93e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  474 TFNMLMSVCASSQDIEGARGVLRLVQESGMTADCKLYTTLISSCAKSGKVDAMFEVFHQMSNSgveaNLHTFGALIDGCA 553
Cdd:PLN03081  327 TFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRK----NLISWNALIAGYG 402

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  554 RAGQVAKAFGAYGILRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMkAETHPIDPDhitigALMKACCNA--GQVE 631
Cdd:PLN03081  403 NHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSM-SENHRIKPR-----AMHYACMIEllGREG 476

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  632 RAKEVYQMIHKYGIRGTPEVYTIAVNscsksgdwdfACSIYKDMKEKDVTPDEVF---------FSALIDVAGHAKMLDE 702
Cdd:PLN03081  477 LLDEAYAMIRRAPFKPTVNMWAALLT----------ACRIHKNLELGRLAAEKLYgmgpeklnnYVVLLNLYNSSGRQAE 546

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 297798436  703 AFGILQDAKSQGIRL---------GTVSYSSLMGACC---NAKDWKKALELYEKIK 746
Cdd:PLN03081  547 AAKVVETLKRKGLSMhpactwievKKQDHSFFSGDRLhpqSREIYQKLDELMKEIS 602
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 706-768 3.96e-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: 53.90  E-value: 3.96e-09
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 297798436   706 ILQDAKSQGIRLGTVSYSSLMGACCNAKDWKKALELYEKIKLIKLRPTISTMNALITAlCEGN 768
Cdd:pfam13812    2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGV-IGGR 63
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 487-710 6.26e-09

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 60.27  E-value: 6.26e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  487 DIEGARGVLRLVQESGMTAdcklYTTLISSCAKSGKVDAMFEVFHQMSNSGVEANLHTFGALIDGCARAGQVAKAFGAYG 566
Cdd:PLN03081  274 DIEDARCVFDGMPEKTTVA----WNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHA 349

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  567 ILRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMkaethPIDpDHITIGALMKACCNAGQVERAKEVYQ-MIHKyGI 645
Cdd:PLN03081  350 GLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRM-----PRK-NLISWNALIAGYGNHGRGTKAVEMFErMIAE-GV 422

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 297798436  646 RGTPEVYTIAVNSCSKSGDWDFACSIYKDMKE-KDVTPDEVFFSALIDVAGHAKMLDEAFGILQDA 710
Cdd:PLN03081  423 APNHVTFLAVLSACRYSGLSEQGWEIFQSMSEnHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA 488
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 752-796 1.50e-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: 51.60  E-value: 1.50e-08
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*
gi 297798436   752 PTISTMNALITALCEGNQLPKAMEYLDEIKTLGLKPNTITYSMLM 796
Cdd:pfam13041    1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILI 45
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 575-626 2.39e-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: 51.21  E-value: 2.39e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 297798436   575 PDRVVFNALISACGQSGAVDRAFDVLAEMKAetHPIDPDHITIGALMKACCN 626
Cdd:pfam13041    1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKK--RGVKPNVYTYTILINGLCK 50
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 648-814 3.61e-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: 55.10  E-value: 3.61e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436   648 TPEV-YTIAVNSCSKSGDWDFACSIYKDMKEKDVTPDEVFFSALIDVAGHA---------KMLDEAFGILQDAKSQGIRL 717
Cdd:pfam17177    9 TPESeLRFQLDKCSKHADATGALALYDAAKAEGVRLAQYHYNVLLYLCSKAadatdlkpqLAADRGFEVFEAMKAQGVSP 88

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436   718 GTVSYSSLMGACCNAKDWKKALELYEKIKLIKLRPTISTMNALITALCEGNQLPKAMEYLDEIKTLGLKPNTITYSMLML 797
Cdd:pfam17177   89 NEATYTAVARLAAAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLK 168

                          170
                   ....*....|....*..
gi 297798436   798 ASERKDDFEVSFKLLSQ 814
Cdd:pfam17177  169 VSAKAGRADKVYAYLHR 185
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 718-765 1.02e-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: 49.28  E-value: 1.02e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 297798436   718 GTVSYSSLMGACCNAKDWKKALELYEKIKLIKLRPTISTMNALITALC 765
Cdd:pfam13041    2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 529-588 1.22e-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: 1.22e-07
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436   529 VFHQMSNSGVEANLHTFGALIDGCARAGQVAKAFGAYGILRSKNVKPDRVVFNALISACG 588
Cdd:pfam13812    2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIG 61
PLN03077 PLN03077
Protein ECB2; Provisional
 500-707 2.30e-07

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 55.24  E-value: 2.30e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  500 ESGMTADCKLYTTLISSCAKSGKVDAMFEVFHQMS-NSGVEANLHTFGALIDGCARAGQVAKafgAYGILRSKNVKPDRV 578
Cdd:PLN03077  582 ESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEeKYSITPNLKHYACVVDLLGRAGKLTE---AYNFINKMPITPDPA 658

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  579 VFNALISACGQSGAVDrafdvLAEMKAEtHPIDPDHITIGALMKAC---CNAGQVERAKEVYQMIHKYG----------- 644
Cdd:PLN03077  659 VWGALLNACRIHRHVE-----LGELAAQ-HIFELDPNSVGYYILLCnlyADAGKWDEVARVRKTMRENGltvdpgcswve 732

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 297798436  645 IRG--------------TPEVYTIAVNSCSKSGDWDFACSIYKDMKEKDVTPDEVFfsalidvAGHAKMLDEAFGIL 707
Cdd:PLN03077  733 VKGkvhafltddeshpqIKEINTVLEGFYEKMKASGLAGSESSSMDEIEVSKDDIF-------CGHSERLAIAFGLI 802
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 549-756 3.09e-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: 3.09e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436   549 IDGCARAGQVAKAFGAYGILRSKNVKPDRVVFNALISACGQSG---------AVDRAFDVLAEMKAEThpIDPDHITIGA 619
Cdd:pfam17177   18 LDKCSKHADATGALALYDAAKAEGVRLAQYHYNVLLYLCSKAAdatdlkpqlAADRGFEVFEAMKAQG--VSPNEATYTA 95

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436   620 LMKACcnagqverakevyqmihkygirgtpevytiavnscSKSGDWDFACSIYKDMKEKDVTPDEVFFSALIDVAGHAKM 699
Cdd:pfam17177   96 VARLA-----------------------------------AAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGD 140

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 297798436   700 LDEAFGILQDAKSQGIRLGTVSYSSLMGACCNAKDWKKALELYEKIKLIKLRPTIST 756
Cdd:pfam17177  141 ADKAYEVEEHMLAHGVELEEPELAALLKVSAKAGRADKVYAYLHRLRDAVRQVSEST 197
PLN03077 PLN03077
Protein ECB2; Provisional
 470-692 6.73e-07

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 53.70  E-value: 6.73e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  470 PTMSTFNMLMSVCASSQDIEGARGVLRLVQESGMTADCKLYTTLISSCAKSGKVDAMFEVFHQMSNSGV----------- 538
Cdd:PLN03077  387 PDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDViswtsiiaglr 466

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  539 ------EA-------------NLHTFGALIDGCARAGQV--AKAFGAYgILRSkNVKPDRVVFNALIS---ACGQ----- 589
Cdd:PLN03077  467 lnnrcfEAliffrqmlltlkpNSVTLIAALSACARIGALmcGKEIHAH-VLRT-GIGFDGFLPNALLDlyvRCGRmnyaw 544

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  590 -----------------SGAVDRA--------FDVLAEMKaethpIDPDHITIGALMKACCNAGQVERAKEVYQ-MIHKY 643
Cdd:PLN03077  545 nqfnshekdvvswnillTGYVAHGkgsmavelFNRMVESG-----VNPDEVTFISLLCACSRSGMVTQGLEYFHsMEEKY 619

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....*....
gi 297798436  644 GIRGTPEVYTIAVNSCSKSGDWDFAcsiYKDMKEKDVTPDEVFFSALID 692
Cdd:PLN03077  620 SITPNLKHYACVVDLLGRAGKLTEA---YNFINKMPITPDPAVWGALLN 665
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 510-541 5.50e-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: 5.50e-06
                           10        20        30
                   ....*....|....*....|....*....|..
gi 297798436   510 YTTLISSCAKSGKVDAMFEVFHQMSNSGVEAN 541
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 ...
 541-587 7.06e-06

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 43.89  E-value: 7.06e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 297798436   541 NLHTFGALIDGCARAGQVAKAFGAYGILRSKNVKPDRVVFNALISAC 587
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 ...
 682-731 1.16e-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: 43.51  E-value: 1.16e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 297798436   682 PDEVFFSALIDVAGHAKMLDEAFGILQDAKSQGIRLGTVSYSSLMGACCN 731
Cdd:pfam13041    1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 571-626 1.35e-05

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 43.89  E-value: 1.35e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 297798436   571 KNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITIGALMKACCN 626
Cdd:pfam13812    9 DGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKG--IKPTLDTYNAILGVIGG 62
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 571-604 2.04e-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: 2.04e-05
                           10        20        30
                   ....*....|....*....|....*....|....
gi 297798436   571 KNVKPDRVVFNALISACGQSGAVDRAFDVLAEMK 604
Cdd:pfam12854    1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 651-684 3.19e-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: 41.67  E-value: 3.19e-05
                           10        20        30
                   ....*....|....*....|....*....|....
gi 297798436   651 VYTIAVNSCSKSGDWDFACSIYKDMKEKDVTPDE 684
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 ...
 652-698 3.90e-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: 41.97  E-value: 3.90e-05
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 297798436   652 YTIAVNSCSKSGDWDFACSIYKDMKEKDVTPDEVFFSALIDvaGHAK 698
Cdd:pfam13041    6 YNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILIN--GLCK 50
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 510-538 9.17e-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: 9.17e-05
                           10        20
                   ....*....|....*....|....*....
gi 297798436   510 YTTLISSCAKSGKVDAMFEVFHQMSNSGV 538
Cdd:pfam01535    3 YNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 777-837 9.35e-05

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 41.19  E-value: 9.35e-05
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 297798436   777 LDEIKTLGLKPNTITYSMLMLASERKDDFEVSFKLLSQAKEDGISPNFIMCRCITSLCKRR 837
Cdd:pfam13812    3 LREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGGR 63
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 670-731 1.05e-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: 41.19  E-value: 1.05e-04
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 297798436   670 SIYKDMKEKDVTPDEVFFSALIDVAGHAKMLDEAFGILQDAKSQGIRLGTVSYSSLMGACCN 731
Cdd:pfam13812    1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGG 62
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 494-552 1.92e-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: 1.92e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 297798436   494 VLRLVQESGMTADCKLYTTLISSCAKSGKVDAMFEVFHQMSNSGVEANLHTFGALIDGC 552
Cdd:pfam13812    2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 729-822 7.39e-04

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


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 42.00  E-value: 7.39e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436   729 CCNAKDWKKALELYEKIKLIKLRPTISTMNALITALCEGNQLPKAMEYL---------DEIKTLGLKPNTITY-SMLMLA 798
Cdd:pfam17177   21 CSKHADATGALALYDAAKAEGVRLAQYHYNVLLYLCSKAADATDLKPQLaadrgfevfEAMKAQGVSPNEATYtAVARLA 100

                           90       100
                   ....*....|....*....|....
gi 297798436   799 SeRKDDFEVSFKLLSQAKEDGISP 822
Cdd:pfam17177  101 A-AKGDGDLAFDLVKEMEAAGVSP 123
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 720-746 7.96e-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: 7.96e-04
                           10        20
                   ....*....|....*....|....*..
gi 297798436   720 VSYSSLMGACCNAKDWKKALELYEKIK 746
Cdd:pfam01535    1 VTYNSLISGYCKNGKLEEALELFKEMK 27
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 578-604 8.44e-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: 8.44e-04
                           10        20
                   ....*....|....*....|....*..
gi 297798436   578 VVFNALISACGQSGAVDRAFDVLAEMK 604
Cdd:pfam01535    1 VTYNSLISGYCKNGKLEEALELFKEMK 27
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 720-746 8.49e-04

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 37.82  E-value: 8.49e-04
                           10        20
                   ....*....|....*....|....*..
gi 297798436   720 VSYSSLMGACCNAKDWKKALELYEKIK 746
Cdd:TIGR00756    1 VTYNTLIDGLCKAGRVEEALELFKEMK 27
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 543-576 1.19e-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: 1.19e-03
                           10        20        30
                   ....*....|....*....|....*....|....
gi 297798436   543 HTFGALIDGCARAGQVAKAFGAYGILRSKNVKPD 576
Cdd:TIGR00756    1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 615-646 2.79e-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: 2.79e-03
                           10        20        30
                   ....*....|....*....|....*....|..
gi 297798436   615 ITIGALMKACCNAGQVERAKEVYQMIHKYGIR 646
Cdd:TIGR00756    1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIE 32
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 750-796 3.10e-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: 36.95  E-value: 3.10e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 297798436   750 LRPTISTMNALITALCEGNQLPKAMEYLDEIKTLGLKPNTITYSMLM 796
Cdd:pfam13812   11 IQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAIL 57
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 502-534 3.77e-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: 3.77e-03
                           10        20        30
                   ....*....|....*....|....*....|...
gi 297798436   502 GMTADCKLYTTLISSCAKSGKVDAMFEVFHQMS 534
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 ...
 651-680 4.49e-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: 35.52  E-value: 4.49e-03
                           10        20        30
                   ....*....|....*....|....*....|
gi 297798436   651 VYTIAVNSCSKSGDWDFACSIYKDMKEKDV 680
Cdd:pfam01535    2 TYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 612-661 5.24e-03

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: 35.80  E-value: 5.24e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 297798436   612 PDHITIGALMKACCNAGQVERAKEVYQMIHKYGIRGTPEVYTIAVNSCSK 661
Cdd:pfam13041    1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 627-825 6.66e-03

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: 39.71  E-value: 6.66e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  627 AGQVERAKEVYQMIHKYGiRGTPEVYTIAVNSCSKSGDWDFACSIYKDMKEKDVTPDEVFFsALIDVAGHAKMLDEAFGI 706
Cdd:COG2956    21 NGQPDKAIDLLEEALELD-PETVEAHLALGNLYRRRGEYDRAIRIHQKLLERDPDRAEALL-ELAQDYLKAGLLDRAEEL 98

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 297798436  707 LQDAksQGIRLGTVSYSSLMGACCNA-KDWKKALELYEkiKLIKLRPT-ISTMNALITALCEGNQLPKAMEYLDEIktLG 784
Cdd:COG2956    99 LEKL--LELDPDDAEALRLLAEIYEQeGDWEKAIEVLE--RLLKLGPEnAHAYCELAELYLEQGDYDEAIEALEKA--LK 172

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 297798436  785 LKPNTITYSMLM-LASERKDDFEVSFKLLSQAKEdgISPNFI 825
Cdd:COG2956   173 LDPDCARALLLLaELYLEQGDYEEAIAALERALE--QDPDYL 212
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH