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Conserved domains on  [gi|240255936|ref|NP_193372|]
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pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN03218 super family cl33664
maturation of RBCL 1; Provisional
 27-497 1.45e-32

maturation of RBCL 1; Provisional


The actual alignment was detected with superfamily member PLN03218:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 135.00  E-value: 1.45e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936   27 YPKSTPRSFLSSYNPNSSHFHSRNLLQATHVSVQEA--IPQSEKSKLVDVDlpiPEPTASKSYVWVNPKSPRASQLRRKS 104
Cdd:PLN03218  302 RAKSSRLPNVKGLRKGVSSATNSLSLDKKNNGVKDAelPGQSSGQAASDVE---EENSLAAYNGGVSGKRKSPEYIDAYN 378

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  105 ---YDSRYSSLIKLAESLDackpnEADVCDVITGFGGKLFE----QDAVvtlnnmtnPET---APLVLNNLLETmkpsre 174
Cdd:PLN03218  379 rllRDGRIKDCIDLLEDME-----KRGLLDMDKIYHAKFFKackkQRAV--------KEAfrfAKLIRNPTLST------ 439

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  175 vilYNVTMKVFRKSKDLEKSEKLFDEMLERGIKPDNATFTTIIS-CARQNGVpKRAVEWFEKMSSFGCEPDNVTMAAMID 253
Cdd:PLN03218  440 ---FNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLIStCAKSGKV-DAMFEVFHEMVNAGVEANVHTFGALID 515

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  254 AYGRAGNVDMALSLYDRARTEKWRIDAVTFSTLIRIYGVSGNYDGCLNIYEEMKALG--VKPNLVIYNRLIDS------M 325
Cdd:PLN03218  516 GCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKAcanagqV 595

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  326 GRAKRPWQ-----------------------------AKIIYKDLITNGFTPNWSTYAALVRAYGRARYGDDALAIYREM 376
Cdd:PLN03218  596 DRAKEVYQmiheynikgtpevytiavnscsqkgdwdfALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDA 675

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  377 KEKGLSLTVILYNTLLSMCADNRYVDEAFEIFQDMKNCETcDPDSWTFSSLITVYaCSG-RVSEAEAALLQMREAGFEPT 455
Cdd:PLN03218  676 RKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKL-RPTVSTMNALITAL-CEGnQLPKALEVLSEMKRLGLCPN 753

                         490       500       510       520
                  ....*....|....*....|....*....|....*....|..
gi 240255936  456 LFVLTSVIQCYGKAKQVDDVVRTFDQVLELGITPDDRFCGCL 497
Cdd:PLN03218  754 TITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCI 795
SMR smart00463
Small MutS-related domain;
600-672 3.27e-13

Small MutS-related domain;


:

Pssm-ID: 214676 [Multi-domain]  Cd Length: 80  Bit Score: 65.40  E-value: 3.27e-13
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 240255936   600 QWSLHLKSLSLGAALTALHVWMNDLSEAALEsgeefpPLLGINTGHGKHKY-SDKGLAAVFESHLKELNAPFHE 672
Cdd:smart00463   1 KWSLDLHGLTVEEALTALDKFLNNARLKGLE------QKLVIITGKGKHSLgGKSGVKPALKEHLRVESFRFAE 68
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 27-497 1.45e-32

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 135.00  E-value: 1.45e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936   27 YPKSTPRSFLSSYNPNSSHFHSRNLLQATHVSVQEA--IPQSEKSKLVDVDlpiPEPTASKSYVWVNPKSPRASQLRRKS 104
Cdd:PLN03218  302 RAKSSRLPNVKGLRKGVSSATNSLSLDKKNNGVKDAelPGQSSGQAASDVE---EENSLAAYNGGVSGKRKSPEYIDAYN 378

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  105 ---YDSRYSSLIKLAESLDackpnEADVCDVITGFGGKLFE----QDAVvtlnnmtnPET---APLVLNNLLETmkpsre 174
Cdd:PLN03218  379 rllRDGRIKDCIDLLEDME-----KRGLLDMDKIYHAKFFKackkQRAV--------KEAfrfAKLIRNPTLST------ 439

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  175 vilYNVTMKVFRKSKDLEKSEKLFDEMLERGIKPDNATFTTIIS-CARQNGVpKRAVEWFEKMSSFGCEPDNVTMAAMID 253
Cdd:PLN03218  440 ---FNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLIStCAKSGKV-DAMFEVFHEMVNAGVEANVHTFGALID 515

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  254 AYGRAGNVDMALSLYDRARTEKWRIDAVTFSTLIRIYGVSGNYDGCLNIYEEMKALG--VKPNLVIYNRLIDS------M 325
Cdd:PLN03218  516 GCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKAcanagqV 595

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  326 GRAKRPWQ-----------------------------AKIIYKDLITNGFTPNWSTYAALVRAYGRARYGDDALAIYREM 376
Cdd:PLN03218  596 DRAKEVYQmiheynikgtpevytiavnscsqkgdwdfALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDA 675

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  377 KEKGLSLTVILYNTLLSMCADNRYVDEAFEIFQDMKNCETcDPDSWTFSSLITVYaCSG-RVSEAEAALLQMREAGFEPT 455
Cdd:PLN03218  676 RKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKL-RPTVSTMNALITAL-CEGnQLPKALEVLSEMKRLGLCPN 753

                         490       500       510       520
                  ....*....|....*....|....*....|....*....|..
gi 240255936  456 LFVLTSVIQCYGKAKQVDDVVRTFDQVLELGITPDDRFCGCL 497
Cdd:PLN03218  754 TITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCI 795
SMR smart00463
Small MutS-related domain;
600-672 3.27e-13

Small MutS-related domain;


Pssm-ID: 214676 [Multi-domain]  Cd Length: 80  Bit Score: 65.40  E-value: 3.27e-13
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 240255936   600 QWSLHLKSLSLGAALTALHVWMNDLSEAALEsgeefpPLLGINTGHGKHKY-SDKGLAAVFESHLKELNAPFHE 672
Cdd:smart00463   1 KWSLDLHGLTVEEALTALDKFLNNARLKGLE------QKLVIITGKGKHSLgGKSGVKPALKEHLRVESFRFAE 68
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 363-508 5.56e-10

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: 59.72  E-value: 5.56e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  363 ARYGD--DALAIYREMKEKGLSLTVILYNTLLSMCAD---------NRYVDEAFEIFQDMKnCETCDPDSWTFSSLITVY 431
Cdd:pfam17177  22 SKHADatGALALYDAAKAEGVRLAQYHYNVLLYLCSKaadatdlkpQLAADRGFEVFEAMK-AQGVSPNEATYTAVARLA 100

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 240255936  432 ACSGRVSEAEAALLQMREAGFEPTLFVLTSVIQCYGKAKQVDDVVRTFDQVLELGITPDDRFCGCLLNVMTQTPSEE 508
Cdd:pfam17177 101 AAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAGRAD 177
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 183-388 8.65e-08

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: 53.96  E-value: 8.65e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 183 KVFRKSKDLEKSEKLFDEMLERgiKPDNATFT-TIISCARQNGVPKRAVEWFEKMSSFgcEPDNVT-MAAMIDAYGRAGN 260
Cdd:COG2956   50 NLYRRRGEYDRAIRIHQKLLER--DPDRAEALlELAQDYLKAGLLDRAEELLEKLLEL--DPDDAEaLRLLAEIYEQEGD 125

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 261 VDMALSLYDRARTEKwRIDAVTFSTLIRIYGVSGNYDGCLNIYEemKALGVKPNLV-IYNRLIDSMGRAKRPWQAKIIYK 339
Cdd:COG2956  126 WEKAIEVLERLLKLG-PENAHAYCELAELYLEQGDYDEAIEALE--KALKLDPDCArALLLLAELYLEQGDYEEAIAALE 202

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|
gi 240255936 340 DLITNgfTPNW-STYAALVRAYGRARYGDDALAIYREMKEKGLSLTVILY 388
Cdd:COG2956  203 RALEQ--DPDYlPALPRLAELYEKLGDPEEALELLRKALELDPSDDLLLA 250
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 281-314 3.39e-05

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 41.29  E-value: 3.39e-05
                          10        20        30
                  ....*....|....*....|....*....|....
gi 240255936  281 VTFSTLIRIYGVSGNYDGCLNIYEEMKALGVKPN 314
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 27-497 1.45e-32

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 135.00  E-value: 1.45e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936   27 YPKSTPRSFLSSYNPNSSHFHSRNLLQATHVSVQEA--IPQSEKSKLVDVDlpiPEPTASKSYVWVNPKSPRASQLRRKS 104
Cdd:PLN03218  302 RAKSSRLPNVKGLRKGVSSATNSLSLDKKNNGVKDAelPGQSSGQAASDVE---EENSLAAYNGGVSGKRKSPEYIDAYN 378

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  105 ---YDSRYSSLIKLAESLDackpnEADVCDVITGFGGKLFE----QDAVvtlnnmtnPET---APLVLNNLLETmkpsre 174
Cdd:PLN03218  379 rllRDGRIKDCIDLLEDME-----KRGLLDMDKIYHAKFFKackkQRAV--------KEAfrfAKLIRNPTLST------ 439

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  175 vilYNVTMKVFRKSKDLEKSEKLFDEMLERGIKPDNATFTTIIS-CARQNGVpKRAVEWFEKMSSFGCEPDNVTMAAMID 253
Cdd:PLN03218  440 ---FNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLIStCAKSGKV-DAMFEVFHEMVNAGVEANVHTFGALID 515

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  254 AYGRAGNVDMALSLYDRARTEKWRIDAVTFSTLIRIYGVSGNYDGCLNIYEEMKALG--VKPNLVIYNRLIDS------M 325
Cdd:PLN03218  516 GCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAEThpIDPDHITVGALMKAcanagqV 595

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  326 GRAKRPWQ-----------------------------AKIIYKDLITNGFTPNWSTYAALVRAYGRARYGDDALAIYREM 376
Cdd:PLN03218  596 DRAKEVYQmiheynikgtpevytiavnscsqkgdwdfALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDA 675

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  377 KEKGLSLTVILYNTLLSMCADNRYVDEAFEIFQDMKNCETcDPDSWTFSSLITVYaCSG-RVSEAEAALLQMREAGFEPT 455
Cdd:PLN03218  676 RKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKL-RPTVSTMNALITAL-CEGnQLPKALEVLSEMKRLGLCPN 753

                         490       500       510       520
                  ....*....|....*....|....*....|....*....|..
gi 240255936  456 LFVLTSVIQCYGKAKQVDDVVRTFDQVLELGITPDDRFCGCL 497
Cdd:PLN03218  754 TITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCI 795
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 176-490 2.36e-26

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 115.74  E-value: 2.36e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  176 ILYNVTMKVFRKSKDLEKSEKLFDEMLERGIKPDNATFTTIISCARQNGVPKRAVEWFEKMSSFGCEPDNVTMAAMIDAY 255
Cdd:PLN03218  580 ITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVA 659

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  256 GRAGNVDMALSLYDRARTEKWRIDAVTFSTLIRIYGVSGNYDGCLNIYEEMKALGVKPNLVIYNRLIDSMGRAKRPWQAK 335
Cdd:PLN03218  660 GHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKAL 739

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  336 IIYKDLITNGFTPNWSTYAALVRAYGRARYGDDALAIYREMKEKGLSLTVILYNTLLSMCAdnRYVDEAF---EIFQDMK 412
Cdd:PLN03218  740 EVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCL--RRFEKACalgEPVVSFD 817

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 240255936  413 NCETCDPDSWTfSSLITVYAcsgrvseaeaallQMREAGFEPTLFVLTSVIQCYGKAKQVDDVVRTFDqvlELGITPD 490
Cdd:PLN03218  818 SGRPQIENKWT-SWALMVYR-------------ETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIE---NLGISAD 878
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 282-582 3.94e-18

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 89.17  E-value: 3.94e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  282 TFSTLIRIYGVSGNYDGCLNIYEEMKALGVKPNLVIYNRLIDSMGRAKRPWQAKIIYKDLITNGFTPNWSTYAALVRAYG 361
Cdd:PLN03218  439 TFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCA 518

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  362 RARYGDDALAIYREMKEKGLSLTVILYNTLLSMCADNRYVDEAFEIFQDMKnCET--CDPDSWTFSSLITVYACSGRVSE 439
Cdd:PLN03218  519 RAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMK-AEThpIDPDHITVGALMKACANAGQVDR 597

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  440 AEAALLQMREAGFEPTLFVLTSVIQCYGKAKQVDDVVRTFDQVLELGITPDDRFCGCLLNVMTQtpSEEIGKLIGCVEKA 519
Cdd:PLN03218  598 AKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGH--AGDLDKAFEILQDA 675

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 240255936  520 KP---KLGQVVKMLVEEQNCEEGVFKK--EASELIDSIGSDVKKAYLNCLIDLCVNLNKLERACEILQ 582
Cdd:PLN03218  676 RKqgiKLGTVSYSSLMGACSNAKNWKKalELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLS 743
PLN03077 PLN03077
Protein ECB2; Provisional
 171-484 6.48e-18

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 88.37  E-value: 6.48e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 171 PSREVILYNVTMKVFRKSKDLEKSEKLFDEMLERGIKPDNATFTTII-SCArqnGVP--KRAVEWFEKMSSFGCEPDNVT 247
Cdd:PLN03077 148 PERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLrTCG---GIPdlARGREVHAHVVRFGFELDVDV 224

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 248 MAAMIDAYGRAGNVDMALSLYDRARtekwRIDAVTFSTLIRIYGVSGNYDGCLNIYEEMKALGVKPNLVIYNRLIDSMGR 327
Cdd:PLN03077 225 VNALITMYVKCGDVVSARLVFDRMP----RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACEL 300

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 328 AKRPWQAKIIYKDLITNGFTPNWSTYAALVRAYGRARYGDDALAIYREMKEKglslTVILYNTLLSMCADNRYVDEAFEI 407
Cdd:PLN03077 301 LGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK----DAVSWTAMISGYEKNGLPDKALET 376

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 240255936 408 FQDMKNcETCDPDSWTFSSLITVYACSGRVSEAEAALLQMREAGFEPTLFVLTSVIQCYGKAKQVDDVVRTFDQVLE 484
Cdd:PLN03077 377 YALMEQ-DNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE 452
PLN03077 PLN03077
Protein ECB2; Provisional
 174-499 3.15e-14

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 76.43  E-value: 3.15e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 174 EVILYNVTMKVFRKSKDLEKSEKLFDEMLERgikpDNATFTTIISCARQNGVPKRAVEWFEKMSSFGCEPDNVTMAAMID 253
Cdd:PLN03077 322 DVSVCNSLIQMYLSLGSWGEAEKVFSRMETK----DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLS 397

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 254 AYGRAGNVDMALSLYDRARTEKWRIDAVTFSTLIRIYGVSGNYDGCLNIYEEMKalgvKPNLVIYNRLIDSMGRAKRPWQ 333
Cdd:PLN03077 398 ACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIP----EKDVISWTSIIAGLRLNNRCFE 473

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 334 AKIIYKDLITNgFTPNWSTYAALVRAYgrARYGddALAIYREMK----EKGLSLTVILYNTLLSM---CADNRYV----- 401
Cdd:PLN03077 474 ALIFFRQMLLT-LKPNSVTLIAALSAC--ARIG--ALMCGKEIHahvlRTGIGFDGFLPNALLDLyvrCGRMNYAwnqfn 548

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 402 ----------------------DEAFEIFQDMKNCETCdPDSWTFSSLITVYACSGRVSEAEAALLQMREA-GFEPTLFV 458
Cdd:PLN03077 549 shekdvvswnilltgyvahgkgSMAVELFNRMVESGVN-PDEVTFISLLCACSRSGMVTQGLEYFHSMEEKySITPNLKH 627

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|.
gi 240255936 459 LTSVIQCYGKAKQVDDvvrTFDQVLELGITPDDRFCGCLLN 499
Cdd:PLN03077 628 YACVVDLLGRAGKLTE---AYNFINKMPITPDPAVWGALLN 665
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 171-455 1.67e-13

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 74.14  E-value: 1.67e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 171 PSREVILYNVTMKVFRKSKDLEKSEKLFDEMLERGIKPDNATFTTII----------------SCARQNGVPKRA----- 229
Cdd:PLN03081 185 PERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLrasaglgsaragqqlhCCVLKTGVVGDTfvsca 264

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 230 -VEWFEKMSS-------FGCEPDNVTMA--AMIDAYGRAGNVDMALSLYDRARTEKWRIDAVTFSTLIRIYGVSGNYDGC 299
Cdd:PLN03081 265 lIDMYSKCGDiedarcvFDGMPEKTTVAwnSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHA 344

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 300 LNIYEEMKALGVKPNLVIYNRLIDSMGRAKRPWQAKIIY-----KDLITngftpnWStyaALVRAYGRARYGDDALAIYR 374
Cdd:PLN03081 345 KQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFdrmprKNLIS------WN---ALIAGYGNHGRGTKAVEMFE 415

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 375 EMKEKGLSLTVILYNTLLSMCADNRYVDEAFEIFQDMKNCETCDPDSWTFSSLITVYACSGRVSEAEAALlqmREAGFEP 454
Cdd:PLN03081 416 RMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMI---RRAPFKP 492


                 .
gi 240255936 455 T 455
Cdd:PLN03081 493 T 493
PLN03077 PLN03077
Protein ECB2; Provisional
 174-463 2.02e-13

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 73.73  E-value: 2.02e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 174 EVILYNVTMKVFRKSKDLEKSEKLFDEMLERGIKPDNAtfttIISCARQNGVPKRAVEWFEKMSSFGCEPDNVTMAAMID 253
Cdd:PLN03077 221 DVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNA----MISGYFENGECLEGLELFFTMRELSVDPDLMTITSVIS 296

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 254 AYGRAGNVDMALSLYDRARTEKWRIDAVTFSTLIRIYGVSGNYDGCLNIYEEMKAlgvkPNLVIYNRLIDSMGRAKRPWQ 333
Cdd:PLN03077 297 ACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET----KDAVSWTAMISGYEKNGLPDK 372

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 334 AKIIYKDLITNGFTPNWSTYAALVRAYGRARYGDDALAIYREMKEKGLSLTVILYNTLLSMCADNRYVDEAFEIFQDMKN 413
Cdd:PLN03077 373 ALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE 452

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|
gi 240255936 414 cetCDPDSWTfsSLITVYACSGRVSEAEAALLQMReAGFEPTLFVLTSVI 463
Cdd:PLN03077 453 ---KDVISWT--SIIAGLRLNNRCFEALIFFRQML-LTLKPNSVTLIAAL 496
SMR smart00463
Small MutS-related domain;
600-672 3.27e-13

Small MutS-related domain;


Pssm-ID: 214676 [Multi-domain]  Cd Length: 80  Bit Score: 65.40  E-value: 3.27e-13
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 240255936   600 QWSLHLKSLSLGAALTALHVWMNDLSEAALEsgeefpPLLGINTGHGKHKY-SDKGLAAVFESHLKELNAPFHE 672
Cdd:smart00463   1 KWSLDLHGLTVEEALTALDKFLNNARLKGLE------QKLVIITGKGKHSLgGKSGVKPALKEHLRVESFRFAE 68
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 363-508 5.56e-10

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: 59.72  E-value: 5.56e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  363 ARYGD--DALAIYREMKEKGLSLTVILYNTLLSMCAD---------NRYVDEAFEIFQDMKnCETCDPDSWTFSSLITVY 431
Cdd:pfam17177  22 SKHADatGALALYDAAKAEGVRLAQYHYNVLLYLCSKaadatdlkpQLAADRGFEVFEAMK-AQGVSPNEATYTAVARLA 100

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 240255936  432 ACSGRVSEAEAALLQMREAGFEPTLFVLTSVIQCYGKAKQVDDVVRTFDQVLELGITPDDRFCGCLLNVMTQTPSEE 508
Cdd:pfam17177 101 AAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKAGRAD 177
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 129-451 1.74e-09

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 61.04  E-value: 1.74e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 129 VCDVITGFGGKLFEQDAVVTL-NNMTNPETAPLVLNNLletmkPSREVILYNVTMKVFRKSKDLEKSEKLFDEMLERGIK 207
Cdd:PLN03081 248 CCVLKTGVVGDTFVSCALIDMySKCGDIEDARCVFDGM-----PEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVS 322

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 208 PDNATFTTIISCARQNGVPKRAVEWFEKMSSFGCEPDNVTMAAMIDAYGRAGNVDMALSLYDRARtekwRIDAVTFSTLI 287
Cdd:PLN03081 323 IDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----RKNLISWNALI 398

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 288 RIYGVSGNYDGCLNIYEEMKALGVKPNLVIYNRLIDSMGRAKRPWQAKIIYKDLITN-GFTPNWSTYAALVRAYGRARYG 366
Cdd:PLN03081 399 AGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENhRIKPRAMHYACMIELLGREGLL 478

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 367 DDALAIYREMKekgLSLTVILYNTLLSMCADNRYVDEAFEIFQDMKNCEtcdPDSW-TFSSLITVYACSGRVSEAEAALL 445
Cdd:PLN03081 479 DEAYAMIRRAP---FKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMG---PEKLnNYVVLLNLYNSSGRQAEAAKVVE 552


                 ....*.
gi 240255936 446 QMREAG 451
Cdd:PLN03081 553 TLKRKG 558
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 337-398 2.95e-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: 53.52  E-value: 2.95e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 240255936  337 IYKDLITNGFTPNWSTYAALVRAYGRARYGDDALAIYREMKEKGLSLTVILYNTLLSMCADN 398
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGGR 63
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 384-432 1.19e-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: 1.19e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 240255936  384 TVILYNTLLSMCADNRYVDEAFEIFQDMKNCEtCDPDSWTFSSLITVYA 432
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRG-VKPNVYTYTILINGLC 49
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 175-219 1.20e-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: 1.20e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 240255936  175 VILYNVTMKVFRKSKDLEKSEKLFDEMLERGIKPDNATFTTIISC 219
Cdd:pfam13041   3 VVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILING 47
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 196-256 2.22e-08

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 51.20  E-value: 2.22e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 240255936  196 KLFDEMLERGIKPDNATFTTIISCARQNGVPKRAVEWFEKMSSFGCEPDNVTMAAMIDAYG 256
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIG 61
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 228-482 4.91e-08

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 56.42  E-value: 4.91e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 228 RAVEWFekMSSFGCEPDNVTMAAMIDAYGRAGNVDMALSLYDR--ARTEkwridaVTFSTLIRIYGVSGNYDGCLNIYEE 305
Cdd:PLN03081 143 KAVYWH--VESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEmpERNL------ASWGTIIGGLVDAGNYREAFALFRE 214

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 306 MKALGVKP---NLVIYNRLIDSMGRAKRPWQakiIYKDLITNGFTPNWSTYAALVRAYGRARYGDDALAIYREMKEKgls 382
Cdd:PLN03081 215 MWEDGSDAeprTFVVMLRASAGLGSARAGQQ---LHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEK--- 288

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 383 lTVILYNTLLSMCADNRYVDEAFEIFQDMknCET-CDPDSWTFSSLITVYACSGRVSEAEAALLQMREAGFEPTLFVLTS 461
Cdd:PLN03081 289 -TTVAWNSMLAGYALHGYSEEALCLYYEM--RDSgVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTA 365

                        250       260
                 ....*....|....*....|.
gi 240255936 462 VIQCYGKAKQVDDVVRTFDQV 482
Cdd:PLN03081 366 LVDLYSKWGRMEDARNVFDRM 386
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 298-456 4.98e-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: 53.94  E-value: 4.98e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  298 GCLNIYEEMKALGVKPNLVIYNRLIDSMGRAKRPWQAKI---------IYKDLITNGFTPNWSTYAALVRAYGRARYGDD 368
Cdd:pfam17177  29 GALALYDAAKAEGVRLAQYHYNVLLYLCSKAADATDLKPqlaadrgfeVFEAMKAQGVSPNEATYTAVARLAAAKGDGDL 108

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  369 ALAIYREMKEKGLSLTVILYNTLLSMCADNRYVDEAFEIFQDMKNCETcDPDSWTFSSLITVYACSGRVSEAEAALLQMR 448
Cdd:pfam17177 109 AFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGV-ELEEPELAALLKVSAKAGRADKVYAYLHRLR 187


                  ....*...
gi 240255936  449 EAGFEPTL 456
Cdd:pfam17177 188 DAVRQVSE 195
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 183-388 8.65e-08

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: 53.96  E-value: 8.65e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 183 KVFRKSKDLEKSEKLFDEMLERgiKPDNATFT-TIISCARQNGVPKRAVEWFEKMSSFgcEPDNVT-MAAMIDAYGRAGN 260
Cdd:COG2956   50 NLYRRRGEYDRAIRIHQKLLER--DPDRAEALlELAQDYLKAGLLDRAEELLEKLLEL--DPDDAEaLRLLAEIYEQEGD 125

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 261 VDMALSLYDRARTEKwRIDAVTFSTLIRIYGVSGNYDGCLNIYEemKALGVKPNLV-IYNRLIDSMGRAKRPWQAKIIYK 339
Cdd:COG2956  126 WEKAIEVLERLLKLG-PENAHAYCELAELYLEQGDYDEAIEALE--KALKLDPDCArALLLLAELYLEQGDYEEAIAALE 202

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|
gi 240255936 340 DLITNgfTPNW-STYAALVRAYGRARYGDDALAIYREMKEKGLSLTVILY 388
Cdd:COG2956  203 RALEQ--DPDYlPALPRLAELYEKLGDPEEALELLRKALELDPSDDLLLA 250
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 372-431 3.00e-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: 47.74  E-value: 3.00e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  372 IYREMKEKGLSLTVILYNTLLSMCADNRYVDEAFEIFQDMKNcETCDPDSWTFSSLITVY 431
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKK-KGIKPTLDTYNAILGVI 60
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 279-327 7.57e-07

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 46.20  E-value: 7.57e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 240255936  279 DAVTFSTLIRIYGVSGNYDGCLNIYEEMKALGVKPNLVIYNRLIDSMGR 327
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 208-257 8.69e-07

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 46.20  E-value: 8.69e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 240255936  208 PDNATFTTIISCARQNGVPKRAVEWFEKMSSFGCEPDNVTMAAMIDAYGR 257
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 277-326 1.44e-06

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 45.81  E-value: 1.44e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 240255936  277 RIDAVTFSTLIRIYGVSGNYDGCLNIYEEMKALGVKPNLVIYNRLIDSMG 326
Cdd:pfam13812  12 QLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIG 61
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 243-288 1.78e-06

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 45.05  E-value: 1.78e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 240255936  243 PDNVTMAAMIDAYGRAGNVDMALSLYDRARTEKWRIDAVTFSTLIR 288
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILIN 46
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 270-484 1.79e-06

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 51.41  E-value: 1.79e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 270 RARTEKWRIDAVTFSTLIRIYGVSGNYDGCLNIYEEMKALG-VKPNLVIYNRLIDSMGRAKRPWQAKIIYKDLITNGFTP 348
Cdd:PLN03081  77 RLDDTQIRKSGVSLCSQIEKLVACGRHREALELFEILEAGCpFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEP 156

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 349 NWSTYAALVRAYGRARYGDDALAIYREMKEKGLsltvILYNTLLSMCADNRYVDEAFEIFQDMKNcETCDPDSWTFSSLI 428
Cdd:PLN03081 157 DQYMMNRVLLMHVKCGMLIDARRLFDEMPERNL----ASWGTIIGGLVDAGNYREAFALFREMWE-DGSDAEPRTFVVML 231

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 240255936 429 TVYACSGRVSEAEAALLQMREAGFEPTLFVLTSVIQCYGKAKQVDDVVRTFDQVLE 484
Cdd:PLN03081 232 RASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE 287
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 348-397 2.18e-06

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 45.05  E-value: 2.18e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 240255936  348 PNWSTYAALVRAYGRARYGDDALAIYREMKEKGLSLTVILYNTLLSMCAD 397
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03077 PLN03077
Protein ECB2; Provisional
 173-270 6.96e-06

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 49.46  E-value: 6.96e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 173 REVILYNVTMKVFRKSKDLEKSEKLFDEMLERGIKPDNATFTTIISCARQNGVPKRAVEWFEKMS-SFGCEPDNVTMAAM 251
Cdd:PLN03077 552 KDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEeKYSITPNLKHYACV 631

                         90
                 ....*....|....*....
gi 240255936 252 IDAYGRAGNVDMALSLYDR 270
Cdd:PLN03077 632 VDLLGRAGKLTEAYNFINK 650
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 222-485 1.11e-05

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: 47.80  E-value: 1.11e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 222 QNGVPKRAVEWFEKMSSfgCEPDNV-TMAAMIDAYGRAGNVDMALSLYDRARTEKWRIDAVTFsTLIRIYGVSGNYDGCL 300
Cdd:COG2956   20 LNGQPDKAIDLLEEALE--LDPETVeAHLALGNLYRRRGEYDRAIRIHQKLLERDPDRAEALL-ELAQDYLKAGLLDRAE 96

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 301 NIYEemKALGVKPNLViynrlidsmgrakrpwqakiiykdlitngftpnwSTYAALVRAYGRARYGDDALAIYREMKEKG 380
Cdd:COG2956   97 ELLE--KLLELDPDDA----------------------------------EALRLLAEIYEQEGDWEKAIEVLERLLKLG 140

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 381 LSLTVILYNtlLSMCA-DNRYVDEAFEIFQDMkncETCDPDS-WTFSSLITVYACSGRVSEAEAALLQMREAgfEP-TLF 457
Cdd:COG2956  141 PENAHAYCE--LAELYlEQGDYDEAIEALEKA---LKLDPDCaRALLLLAELYLEQGDYEEAIAALERALEQ--DPdYLP 213

                        250       260
                 ....*....|....*....|....*...
gi 240255936 458 VLTSVIQCYGKAKQVDDVVRTFDQVLEL 485
Cdd:COG2956  214 ALPRLAELYEKLGDPEEALELLRKALEL 241
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
169-375 3.31e-05

Tetratricopeptide (TPR) repeat [General function prediction only];


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 46.15  E-value: 3.31e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 169 MKPSREVILYNVTMkVFRKSKDLEKSEKLFDEMLErgIKPDNA-TFTTIISCARQNGVPKRAVEWFEKMSSFgcEPDNVT 247
Cdd:COG0457    3 LDPDDAEAYNNLGL-AYRRLGRYEEAIEDYEKALE--LDPDDAeALYNLGLAYLRLGRYEEALADYEQALEL--DPDDAE 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 248 MAAMI-DAYGRAGNVDMALSLYDRArTEKWRIDAVTFSTLIRIYGVSGNYDGCLNIYEemKALGVKPNLV-IYNRLIDSM 325
Cdd:COG0457   78 ALNNLgLALQALGRYEEALEDYDKA-LELDPDDAEALYNLGLALLELGRYDEAIEAYE--RALELDPDDAdALYNLGIAL 154

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|
gi 240255936 326 GRAKRPWQAKIIYKDLITNGFTPNWSTYAALVRAYGRARYGDDALAIYRE 375
Cdd:COG0457  155 EKLGRYEEALELLEKLEAAALAALLAAALGEAALALAAAEVLLALLLALE 204
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 281-314 3.39e-05

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 41.29  E-value: 3.39e-05
                          10        20        30
                  ....*....|....*....|....*....|....
gi 240255936  281 VTFSTLIRIYGVSGNYDGCLNIYEEMKALGVKPN 314
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 313-362 4.32e-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: 41.19  E-value: 4.32e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 240255936  313 PNLVIYNRLIDSMGRAKRPWQAKIIYKDLITNGFTPNWSTYAALVRAYGR 362
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 352-385 5.11e-05

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 40.52  E-value: 5.11e-05
                          10        20        30
                  ....*....|....*....|....*....|....
gi 240255936  352 TYAALVRAYGRARYGDDALAIYREMKEKGLSLTV 385
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 379-412 6.71e-05

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


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 40.41  E-value: 6.71e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 240255936  379 KGLSLTVILYNTLLS-MCADNRyVDEAFEIFQDMK 412
Cdd:pfam12854   1 KGLKPDVVTYNTLINgLCRAGR-VDEAFELLDEME 34
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 176-209 8.35e-05

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 40.13  E-value: 8.35e-05
                          10        20        30
                  ....*....|....*....|....*....|....
gi 240255936  176 ILYNVTMKVFRKSKDLEKSEKLFDEMLERGIKPD 209
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 ...
 281-311 1.23e-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: 39.37  E-value: 1.23e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 240255936  281 VTFSTLIRIYGVSGNYDGCLNIYEEMKALGV 311
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 423-455 2.21e-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: 38.98  E-value: 2.21e-04
                          10        20        30
                  ....*....|....*....|....*....|...
gi 240255936  423 TFSSLITVYACSGRVSEAEAALLQMREAGFEPT 455
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 351-381 2.84e-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: 38.60  E-value: 2.84e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 240255936  351 STYAALVRAYGRARYGDDALAIYREMKEKGL 381
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 386-421 6.45e-04

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 37.43  E-value: 6.45e-04
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 240255936  386 ILYNTLLSMCADNRYVDEAFEIFQDMKNCEtCDPDS 421
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERG-IEPDV 35
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 212-244 7.12e-04

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 37.43  E-value: 7.12e-04
                          10        20        30
                  ....*....|....*....|....*....|...
gi 240255936  212 TFTTIISCARQNGVPKRAVEWFEKMSSFGCEPD 244
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 386-412 1.09e-03

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 36.67  E-value: 1.09e-03
                          10        20
                  ....*....|....*....|....*..
gi 240255936  386 ILYNTLLSMCADNRYVDEAFEIFQDMK 412
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMK 27
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 239-270 1.10e-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: 36.94  E-value: 1.10e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 240255936  239 FGCEPDNVTMAAMIDAYGRAGNVDMALSLYDR 270
Cdd:pfam12854   1 KGLKPDVVTYNTLINGLCRAGRVDEAFELLDE 32
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 176-206 2.07e-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: 2.07e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 240255936  176 ILYNVTMKVFRKSKDLEKSEKLFDEMLERGI 206
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 246-280 2.53e-03

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 35.89  E-value: 2.53e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 240255936  246 VTMAAMIDAYGRAGNVDMALSLYDRARTEKWRIDA 280
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
Coatomer_E pfam04733
Coatomer epsilon subunit; This family represents the epsilon subunit of the coatomer complex, ...
 387-468 4.44e-03

Coatomer epsilon subunit; This family represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex.


Pssm-ID: 398419 [Multi-domain]  Cd Length: 288  Bit Score: 39.77  E-value: 4.44e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936  387 LYNTLLSMCADNRYVDEAFEIFQDMknCETCDPDSWTFSSLITVYACSGRVSEAEAALLQM--REAGFEPTLFVLTSVIQ 464
Cdd:pfam04733 167 LANAWVKLAVGGEKIQDAYYIFQEF--SEKYDSTPLLLNGQAVCCMCLGRYEEAESLLKEAldKDAKDPETLINLVVCAL 244


                  ....
gi 240255936  465 CYGK 468
Cdd:pfam04733 245 HLGK 248
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 457-491 5.00e-03

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 35.12  E-value: 5.00e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 240255936  457 FVLTSVIQCYGKAKQVDDVVRTFDQVLELGITPDD 491
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 204-237 5.03e-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: 35.01  E-value: 5.03e-03
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 240255936  204 RGIKPDNATFTTIIS--CarQNGVPKRAVEWFEKMS 237
Cdd:pfam12854   1 KGLKPDVVTYNTLINglC--RAGRVDEAFELLDEME 34
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 417-448 5.60e-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: 35.01  E-value: 5.60e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 240255936  417 CDPDSWTFSSLITVYACSGRVSEAEAALLQMR 448
Cdd:pfam12854   3 LKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 422-452 6.11e-03

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 34.75  E-value: 6.11e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 240255936  422 WTFSSLITVYACSGRVSEAEAALLQMREAGF 452
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 248-379 6.40e-03

Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell wall/membrane/envelope biogenesis, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443813 [Multi-domain]  Cd Length: 139  Bit Score: 37.48  E-value: 6.40e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255936 248 MAAMIDAYGRAGNVDMALSLYDRARTEKwRIDAVTFSTLIRIYGVSGNYDGCLNIYEEmkALGVKP-NLVIYNRLIDSMG 326
Cdd:COG4783    7 LYALAQALLLAGDYDEAEALLEKALELD-PDNPEAFALLGEILLQLGDLDEAIVLLHE--ALELDPdEPEARLNLGLALL 83

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 240255936 327 RAKRPWQAKIIYKDLITNGftP-NWSTYAALVRAYGRARYGDDALAIYREMKEK 379
Cdd:COG4783   84 KAGDYDEALALLEKALKLD--PeHPEAYLRLARAYRALGRPDEAIAALEKALEL 135
 
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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