NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|15228265|ref|NP_190368|]
View 

Tetratricopeptide repeat (TPR)-like superfamily protein [Arabidopsis thaliana]

Protein Classification

pentatricopeptide repeat-containing protein( domain architecture ID 1000585)

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

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
PLN03077 super family cl33629
Protein ECB2; Provisional
 44-681 8.28e-142

Protein ECB2; Provisional


The actual alignment was detected with superfamily member PLN03077:

Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 436.20  E-value: 8.28e-142
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265   44 NSHLRSLINAGNLRAARQVFDKMPHGDIVSWTSIIKRYVTANNSDEALILFSAMRVVdhAVSPDTSVLSVVLKACGQSSN 123
Cdd:PLN03077 125 NAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWA--GVRPDVYTFPCVLRTCGGIPD 202

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265  124 IAYGESLHAYAVKTSLLSSVYVGSSLLDMYKRVGKIDKSCRVFSEMPFRNAVTWTAIITGLVHAGRYKEGLTYFSEMSRS 203
Cdd:PLN03077 203 LARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMREL 282

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265  204 EELSDTYTFAIALKACAGLRQVKYGKAIHTHVIVRGFVTTLCVANSLATMYTECGEMQDGLCLFENMSERDVVSWTSLIV 283
Cdd:PLN03077 283 SVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMIS 362

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265  284 AYKRIGQEVKAVETFIKMRNSQVPPNEQTFASMFSACASLSRLVWGEQLHCNVLSLGLNDSLSVSNSMMKMYSTCGNLVS 363
Cdd:PLN03077 363 GYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDK 442

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265  364 ASVLFQGMRCRDIISWSTIIGGYCQAGFGEEGFKYFSWMRQSgTKPTDFALASLLSVSGNMAVIEGGRQVHALALCFGLE 443
Cdd:PLN03077 443 ALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIG 521

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265  444 QNSTVRSSLINMYSKCGSIKEASMIFGETDRDdIVSLTAMINGYAEHGKSKEAIDLFEKSLKVGFRPDSVTFISVLTACT 523
Cdd:PLN03077 522 FDGFLPNALLDLYVRCGRMNYAWNQFNSHEKD-VVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACS 600

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265  524 HSGQLDLGFHYFNMMQETYNMRPAKEHYGCMVDLLCRAGRLSDAEKMINEMSWKKDDVVWTTLLIACKAKGDIERGRRAA 603
Cdd:PLN03077 601 RSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAA 680

                        570       580       590       600       610       620       630
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 15228265  604 ERILELDPTCATALVTLANIYSSTGNLEEAANVRKNMKAKGVIKEPGWSSIKIKDCVSAFVSGDRFHPQSEDIYNILE 681
Cdd:PLN03077 681 QHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLE 758
 
Name Accession Description Interval E-value
PLN03077 PLN03077
Protein ECB2; Provisional
 44-681 8.28e-142

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 436.20  E-value: 8.28e-142
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265   44 NSHLRSLINAGNLRAARQVFDKMPHGDIVSWTSIIKRYVTANNSDEALILFSAMRVVdhAVSPDTSVLSVVLKACGQSSN 123
Cdd:PLN03077 125 NAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWA--GVRPDVYTFPCVLRTCGGIPD 202

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265  124 IAYGESLHAYAVKTSLLSSVYVGSSLLDMYKRVGKIDKSCRVFSEMPFRNAVTWTAIITGLVHAGRYKEGLTYFSEMSRS 203
Cdd:PLN03077 203 LARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMREL 282

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265  204 EELSDTYTFAIALKACAGLRQVKYGKAIHTHVIVRGFVTTLCVANSLATMYTECGEMQDGLCLFENMSERDVVSWTSLIV 283
Cdd:PLN03077 283 SVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMIS 362

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265  284 AYKRIGQEVKAVETFIKMRNSQVPPNEQTFASMFSACASLSRLVWGEQLHCNVLSLGLNDSLSVSNSMMKMYSTCGNLVS 363
Cdd:PLN03077 363 GYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDK 442

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265  364 ASVLFQGMRCRDIISWSTIIGGYCQAGFGEEGFKYFSWMRQSgTKPTDFALASLLSVSGNMAVIEGGRQVHALALCFGLE 443
Cdd:PLN03077 443 ALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIG 521

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265  444 QNSTVRSSLINMYSKCGSIKEASMIFGETDRDdIVSLTAMINGYAEHGKSKEAIDLFEKSLKVGFRPDSVTFISVLTACT 523
Cdd:PLN03077 522 FDGFLPNALLDLYVRCGRMNYAWNQFNSHEKD-VVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACS 600

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265  524 HSGQLDLGFHYFNMMQETYNMRPAKEHYGCMVDLLCRAGRLSDAEKMINEMSWKKDDVVWTTLLIACKAKGDIERGRRAA 603
Cdd:PLN03077 601 RSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAA 680

                        570       580       590       600       610       620       630
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 15228265  604 ERILELDPTCATALVTLANIYSSTGNLEEAANVRKNMKAKGVIKEPGWSSIKIKDCVSAFVSGDRFHPQSEDIYNILE 681
Cdd:PLN03077 681 QHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLE 758
E_motif pfam20431
E motif; This entry represents the E motif found in plant pentatricopeptide repeat (PPR) ...
 595-655 1.44e-11

E motif; This entry represents the E motif found in plant pentatricopeptide repeat (PPR) proteins which contain a DYW deaminase domain. The DYW domain is required for RNA editing, a process that deaminates specific cytidines to uridines. This motif, together with the E+ motif, precedes the DYW domain and, although their role is not clear, they are essential in the RNA editing reaction. The E/E+ motifs may contain two degenerate PPR motifs that could be involved in RNA or protein binding.


Pssm-ID: 466580 [Multi-domain]  Cd Length: 63  Bit Score: 60.25  E-value: 1.44e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 15228265   595 DIERGRRAAERILELDPTCATALVTLANIYSSTGNLEEAANVRKNMKAKGVIKEPGWSSIK 655
Cdd:pfam20431   3 NVELAEKAANILLELEKTNDGNYTLLSNIYAYAGRWKDVERIRKLMKSSGIKKRPGCSWIE 63
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
471-633 1.65e-08

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


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 56.17  E-value: 1.65e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265 471 ETDRDDIVSLTAMINGYAEHGKSKEAIDLFEKSLKVgfRPDSVTFISVL-TACTHSGQLDLGFHYFnmmQETYNMRPAK- 548
Cdd:COG0457   2 ELDPDDAEAYNNLGLAYRRLGRYEEAIEDYEKALEL--DPDDAEALYNLgLAYLRLGRYEEALADY---EQALELDPDDa 76

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265 549 EHYGCMVDLLCRAGRLSDAEKMINE-MSWKKDDV-VWTTLLIACKAKGDIERGRRAAERILELDPTCATALVTLANIYSS 626
Cdd:COG0457  77 EALNNLGLALQALGRYEEALEDYDKaLELDPDDAeALYNLGLALLELGRYDEAIEAYERALELDPDDADALYNLGIALEK 156


                ....*..
gi 15228265 627 TGNLEEA 633
Cdd:COG0457 157 LGRYEEA 163
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 478-512 7.02e-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: 7.02e-04
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 15228265   478 VSLTAMINGYAEHGKSKEAIDLFEKSLKVGFRPDS 512
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
ACL4-like cd24142
Assembly chaperone of ribosomal protein L4 and similar proteins; Assembly chaperone of RPL4 ...
 589-633 4.48e-03

Assembly chaperone of ribosomal protein L4 and similar proteins; Assembly chaperone of RPL4 (ACL4) acts as a chaperone for the L4 ribosomal subunit, encoded by RPL4A and RPL4B, and is required for hierarchical ribosome assembly. It is required for the soluble expression of newly synthesized RPL4 and for the protection of RPL4 from the Tom1-dependent cellular degradation machinery. ACL4 shields ribosomal protein L4 until timely release and insertion into the pre-ribosome is possible, once ribosomal protein L18 is present.


Pssm-ID: 467942 [Multi-domain]  Cd Length: 306  Bit Score: 39.92  E-value: 4.48e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 15228265 589 ACKAKGDIERGRRAAERILELDPTCATALVTLANIYSSTGNLEEA 633
Cdd:cd24142   9 ELLDQGNFELALKFLQRALELEPNNVEALELLGEILLELGDVEEA 53
 
Name Accession Description Interval E-value
PLN03077 PLN03077
Protein ECB2; Provisional
 44-681 8.28e-142

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 436.20  E-value: 8.28e-142
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265   44 NSHLRSLINAGNLRAARQVFDKMPHGDIVSWTSIIKRYVTANNSDEALILFSAMRVVdhAVSPDTSVLSVVLKACGQSSN 123
Cdd:PLN03077 125 NAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWA--GVRPDVYTFPCVLRTCGGIPD 202

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265  124 IAYGESLHAYAVKTSLLSSVYVGSSLLDMYKRVGKIDKSCRVFSEMPFRNAVTWTAIITGLVHAGRYKEGLTYFSEMSRS 203
Cdd:PLN03077 203 LARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMREL 282

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265  204 EELSDTYTFAIALKACAGLRQVKYGKAIHTHVIVRGFVTTLCVANSLATMYTECGEMQDGLCLFENMSERDVVSWTSLIV 283
Cdd:PLN03077 283 SVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMIS 362

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265  284 AYKRIGQEVKAVETFIKMRNSQVPPNEQTFASMFSACASLSRLVWGEQLHCNVLSLGLNDSLSVSNSMMKMYSTCGNLVS 363
Cdd:PLN03077 363 GYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDK 442

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265  364 ASVLFQGMRCRDIISWSTIIGGYCQAGFGEEGFKYFSWMRQSgTKPTDFALASLLSVSGNMAVIEGGRQVHALALCFGLE 443
Cdd:PLN03077 443 ALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIG 521

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265  444 QNSTVRSSLINMYSKCGSIKEASMIFGETDRDdIVSLTAMINGYAEHGKSKEAIDLFEKSLKVGFRPDSVTFISVLTACT 523
Cdd:PLN03077 522 FDGFLPNALLDLYVRCGRMNYAWNQFNSHEKD-VVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACS 600

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265  524 HSGQLDLGFHYFNMMQETYNMRPAKEHYGCMVDLLCRAGRLSDAEKMINEMSWKKDDVVWTTLLIACKAKGDIERGRRAA 603
Cdd:PLN03077 601 RSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAA 680

                        570       580       590       600       610       620       630
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 15228265  604 ERILELDPTCATALVTLANIYSSTGNLEEAANVRKNMKAKGVIKEPGWSSIKIKDCVSAFVSGDRFHPQSEDIYNILE 681
Cdd:PLN03077 681 QHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLE 758
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 181-681 4.15e-103

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 330.29  E-value: 4.15e-103
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265  181 ITGLVHAGRYKEGLTYF--SEMSRSEELsDTYTFAIALKACAGLRQVKYGKAIHTHVIVRGFVTTLCVANSLATMYTECG 258
Cdd:PLN03081  94 IEKLVACGRHREALELFeiLEAGCPFTL-PASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCG 172

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265  259 EMQDGLCLFENMSERDVVSWTSLIVAYKRIGQEVKAVETFIKMRNSQVPPNEQTFASMFSACASLSRLVWGEQLHCNVLS 338
Cdd:PLN03081 173 MLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLK 252

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265  339 LGLNDSLSVSNSMMKMYSTCGNLVSASVLFQGMRCRDIISWSTIIGGYCQAGFGEEGFKYFSWMRQSGTKPTDFALASLL 418
Cdd:PLN03081 253 TGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMI 332

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265  419 SVSGNMAVIEGGRQVHALALCFGLEQNSTVRSSLINMYSKCGSIKEASMIFGETDRDDIVSLTAMINGYAEHGKSKEAID 498
Cdd:PLN03081 333 RIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVE 412

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265  499 LFEKSLKVGFRPDSVTFISVLTACTHSGQLDLGFHYFNMMQETYNMRPAKEHYGCMVDLLCRAGRLSDAEKMINEMSWKK 578
Cdd:PLN03081 413 MFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKP 492

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265  579 DDVVWTTLLIACKAKGDIERGRRAAERILELDPTCATALVTLANIYSSTGNLEEAANVRKNMKAKGVIKEPGWSSIKIKD 658
Cdd:PLN03081 493 TVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKK 572

                        490       500
                 ....*....|....*....|...
gi 15228265  659 CVSAFVSGDRFHPQSEDIYNILE 681
Cdd:PLN03081 573 QDHSFFSGDRLHPQSREIYQKLD 595
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 393-645 8.55e-15

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 78.38  E-value: 8.55e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265   393 EEGFKYFSWMRQsgtkPTDFALASLLSVSGNMAVIEGGRQVHALALCFGLEQNSTVRSSLINMYSKCGSIKEASMIFGET 472
Cdd:PLN03218  423 KEAFRFAKLIRN----PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEM 498

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265   473 DRDDIV----SLTAMINGYAEHGKSKEAIDLFE--KSLKVgfRPDSVTFISVLTACTHSGQLDLGFHYF-NMMQETYNMR 545
Cdd:PLN03218  499 VNAGVEanvhTFGALIDGCARAGQVAKAFGAYGimRSKNV--KPDRVVFNALISACGQSGAVDRAFDVLaEMKAETHPID 576

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265   546 PAKEHYGCMVDLLCRAGRLSDAE---KMINEMSWKKDDVVWTTLLIACKAKGDIERGRRAAERILEL----DPTCATALV 618
Cdd:PLN03218  577 PDHITVGALMKACANAGQVDRAKevyQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKgvkpDEVFFSALV 656

                         250       260
                  ....*....|....*....|....*..
gi 15228265   619 TLAniySSTGNLEEAANVRKNMKAKGV 645
Cdd:PLN03218  657 DVA---GHAGDLDKAFEILQDARKQGI 680
E_motif pfam20431
E motif; This entry represents the E motif found in plant pentatricopeptide repeat (PPR) ...
 595-655 1.44e-11

E motif; This entry represents the E motif found in plant pentatricopeptide repeat (PPR) proteins which contain a DYW deaminase domain. The DYW domain is required for RNA editing, a process that deaminates specific cytidines to uridines. This motif, together with the E+ motif, precedes the DYW domain and, although their role is not clear, they are essential in the RNA editing reaction. The E/E+ motifs may contain two degenerate PPR motifs that could be involved in RNA or protein binding.


Pssm-ID: 466580 [Multi-domain]  Cd Length: 63  Bit Score: 60.25  E-value: 1.44e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 15228265   595 DIERGRRAAERILELDPTCATALVTLANIYSSTGNLEEAANVRKNMKAKGVIKEPGWSSIK 655
Cdd:pfam20431   3 NVELAEKAANILLELEKTNDGNYTLLSNIYAYAGRWKDVERIRKLMKSSGIKKRPGCSWIE 63
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 184-599 1.28e-09

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 61.82  E-value: 1.28e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265   184 LVHAGRYKEGLTYFSEMSRSEELS-DTYTFAIALKACAGLRQVKygKAIHTHVIVRgfVTTLCVANSLATMyteCGEMQD 262
Cdd:PLN03218  380 LLRDGRIKDCIDLLEDMEKRGLLDmDKIYHAKFFKACKKQRAVK--EAFRFAKLIR--NPTLSTFNMLMSV---CASSQD 452

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265   263 GLCLFENMS---ER----DVVSWTSLIVAYKRIGQEVKAVETFIKMRNSQVPPNEQTFASMFSACASlsrlvwgeqlhcn 335
Cdd:PLN03218  453 IDGALRVLRlvqEAglkaDCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCAR------------- 519

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265   336 vlslglndslsvSNSMMKMYSTCGNLVSASVLfqgmrcRDIISWSTIIGGYCQAGFGEEGFKYFSWMRQSGT--KPTDFA 413
Cdd:PLN03218  520 ------------AGQVAKAFGAYGIMRSKNVK------PDRVVFNALISACGQSGAVDRAFDVLAEMKAETHpiDPDHIT 581

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265   414 LASLLSVSGNMAVIEGGRQVHALALCFGLEQNSTVRSSLINMYSKCGSIKEASMIFGETDRDDI----VSLTAMINGYAE 489
Cdd:PLN03218  582 VGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVkpdeVFFSALVDVAGH 661

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265   490 HGKSKEAIDLFEKSLKVGFRPDSVTFISVLTACTHSGQLDLGFHYFNMMQETyNMRPAKEHYGCMVDLLCRAGRLSDAEK 569
Cdd:PLN03218  662 AGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSI-KLRPTVSTMNALITALCEGNQLPKALE 740

                         410       420       430
                  ....*....|....*....|....*....|...
gi 15228265   570 MINEMS---WKKDDVVWTTLLIACKAKGDIERG 599
Cdd:PLN03218  741 VLSEMKrlgLCPNTITYSILLVASERKDDADVG 773
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 476-522 1.36e-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: 1.36e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 15228265   476 DIVSLTAMINGYAEHGKSKEAIDLFEKSLKVGFRPDSVTFISVLTAC 522
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
471-633 1.65e-08

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


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 56.17  E-value: 1.65e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265 471 ETDRDDIVSLTAMINGYAEHGKSKEAIDLFEKSLKVgfRPDSVTFISVL-TACTHSGQLDLGFHYFnmmQETYNMRPAK- 548
Cdd:COG0457   2 ELDPDDAEAYNNLGLAYRRLGRYEEAIEDYEKALEL--DPDDAEALYNLgLAYLRLGRYEEALADY---EQALELDPDDa 76

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265 549 EHYGCMVDLLCRAGRLSDAEKMINE-MSWKKDDV-VWTTLLIACKAKGDIERGRRAAERILELDPTCATALVTLANIYSS 626
Cdd:COG0457  77 EALNNLGLALQALGRYEEALEDYDKaLELDPDDAeALYNLGLALLELGRYDEAIEAYERALELDPDDADALYNLGIALEK 156


                ....*..
gi 15228265 627 TGNLEEA 633
Cdd:COG0457 157 LGRYEEA 163
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 273-321 9.62e-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: 48.90  E-value: 9.62e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 15228265   273 RDVVSWTSLIVAYKRIGQEVKAVETFIKMRNSQVPPNEQTFASMFSACA 321
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 412-636 2.68e-07

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: 52.81  E-value: 2.68e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265 412 FALASLLSVSGNmavIEGGRQVH--ALALCfglEQNSTVRSSLINMYSKCGSIKEASMIFG---ETDRDDIVSLTAMING 486
Cdd:COG2956  46 LALGNLYRRRGE---YDRAIRIHqkLLERD---PDRAEALLELAQDYLKAGLLDRAEELLEkllELDPDDAEALRLLAEI 119

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265 487 YAEHGKSKEAIDLFEKSLKVGfrPDSVTFisvltacthsgQLDLGFHYFnmmqetynmrpakehygcmvdllcRAGRLSD 566
Cdd:COG2956 120 YEQEGDWEKAIEVLERLLKLG--PENAHA-----------YCELAELYL------------------------EQGDYDE 162

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 15228265 567 AEKMINEMSWKKDDVVWTTLLIA--CKAKGDIERGRRAAERILELDPTCATALVTLANIYSSTGNLEEAANV 636
Cdd:COG2956 163 AIEALEKALKLDPDCARALLLLAelYLEQGDYEEAIAALERALEQDPDYLPALPRLAELYEKLGDPEEALEL 234
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 172-220 4.82e-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: 4.82e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 15228265   172 RNAVTWTAIITGLVHAGRYKEGLTYFSEMSRSEELSDTYTFAIALKACA 220
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLC 49
TadD COG5010
Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, ...
 557-636 9.03e-06

Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, and vesicular transport, Extracellular structures];


Pssm-ID: 444034 [Multi-domain]  Cd Length: 155  Bit Score: 46.49  E-value: 9.03e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265 557 LLCRAGRLSDAEKMINE--MSWKKDDVVWTTLLIACKAKGDIERGRRAAERILELDPTCATALVTLANIYSSTGNLEEAA 634
Cdd:COG5010  63 LYNKLGDFEESLALLEQalQLDPNNPELYYNLALLYSRSGDKDEAKEYYEKALALSPDNPNAYSNLAALLLSLGQDDEAK 142


                ..
gi 15228265 635 NV 636
Cdd:COG5010 143 AA 144
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 487-633 1.16e-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: 1.16e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265 487 YAEHGKSKEAIDLFEKSLKVgfRPDSVTFISVLtACTH--SGQLDLGFHYFNMMQETYNMRP------AKEHYgcmvdll 558
Cdd:COG2956  18 YLLNGQPDKAIDLLEEALEL--DPETVEAHLAL-GNLYrrRGEYDRAIRIHQKLLERDPDRAeallelAQDYL------- 87

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 15228265 559 cRAGRLSDAEKMINEM--SWKKDDVVWTTLLIACKAKGDIERGRRAAERILELDPTCATALVTLANIYSSTGNLEEA 633
Cdd:COG2956  88 -KAGLLDRAEELLEKLleLDPDDAEALRLLAEIYEQEGDWEKAIEVLERLLKLGPENAHAYCELAELYLEQGDYDEA 163
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 374-412 1.26e-05

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


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 42.74  E-value: 1.26e-05
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 15228265   374 RDIISWSTIIGGYCQAGFGEEGFKYFSWMRQSGTKPTDF 412
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVY 39
NrfG COG4235
Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, ...
 556-634 3.97e-05

Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443378 [Multi-domain]  Cd Length: 131  Bit Score: 43.84  E-value: 3.97e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265 556 DLLCRAGRLSDAEKMInEMSWK---KDDVVWTTLLIACKAKGDIERGRRAAERILELDPTCATALVTLANIYSSTGNLEE 632
Cdd:COG4235  25 RAYLRLGRYDEALAAY-EKALRldpDNADALLDLAEALLAAGDTEEAEELLERALALDPDNPEALYLLGLAAFQQGDYAE 103


                ..
gi 15228265 633 AA 634
Cdd:COG4235 104 AI 105
PilF COG3063
Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];
592-638 4.77e-05

Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];


Pssm-ID: 442297 [Multi-domain]  Cd Length: 94  Bit Score: 42.46  E-value: 4.77e-05
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*..
gi 15228265 592 AKGDIERGRRAAERILELDPTCATALVTLANIYSSTGNLEEAANVRK 638
Cdd:COG3063   4 KLGDLEEAEEYYEKALELDPDNADALNNLGLLLLEQGRYDEAIALEK 50
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 551-634 4.92e-05

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: 43.64  E-value: 4.92e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265 551 YGCMVDLLCRAGRLSDAEKMINE-MSWKKDDV-VWTTLLIACKAKGDIERGRRAAERILELDPTCATALVTLANIYSSTG 628
Cdd:COG4783  41 FALLGEILLQLGDLDEAIVLLHEaLELDPDEPeARLNLGLALLKAGDYDEALALLEKALKLDPEHPEAYLRLARAYRALG 120


                ....*.
gi 15228265 629 NLEEAA 634
Cdd:COG4783 121 RPDEAI 126
TadD COG5010
Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, ...
 586-633 1.33e-04

Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, and vesicular transport, Extracellular structures];


Pssm-ID: 444034 [Multi-domain]  Cd Length: 155  Bit Score: 43.03  E-value: 1.33e-04
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*...
gi 15228265 586 LLIACKAKGDIERGRRAAERILELDPTCATALVTLANIYSSTGNLEEA 633
Cdd:COG5010  60 SDNLYNKLGDFEESLALLEQALQLDPNNPELYYNLALLYSRSGDKDEA 107
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 588-634 1.41e-04

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: 42.49  E-value: 1.41e-04
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*..
gi 15228265 588 IACKAKGDIERGRRAAERILELDPTCATALVTLANIYSSTGNLEEAA 634
Cdd:COG4783  12 QALLLAGDYDEAEALLEKALELDPDNPEAFALLGEILLQLGDLDEAI 58
Spy COG3914
Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational ...
 556-634 1.63e-04

Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443119 [Multi-domain]  Cd Length: 658  Bit Score: 44.98  E-value: 1.63e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265 556 DLLCRAGRLSDAEKMINE-MSWKKDDV-VWTTLLIACKAKGDIERGRRAAERILELDPTCATALVTLANIYSSTGNLEEA 633
Cdd:COG3914 120 NLLLALGRLEEALAALRRaLALNPDFAeAYLNLGEALRRLGRLEEAIAALRRALELDPDNAEALNNLGNALQDLGRLEEA 199


                .
gi 15228265 634 A 634
Cdd:COG3914 200 I 200
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 70-118 2.79e-04

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: 38.88  E-value: 2.79e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 15228265    70 DIVSWTSIIKRYVTANNSDEALILFSAMRvvDHAVSPDTSVLSVVLKAC 118
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMK--KRGVKPNVYTYTILINGL 48
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 551-575 3.92e-04

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


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 38.10  E-value: 3.92e-04
                          10        20
                  ....*....|....*....|....*
gi 15228265   551 YGCMVDLLCRAGRLSDAEKMINEMS 575
Cdd:pfam12854  10 YNTLINGLCRAGRVDEAFELLDEME 34
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 377-406 4.49e-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: 4.49e-04
                          10        20        30
                  ....*....|....*....|....*....|
gi 15228265   377 ISWSTIIGGYCQAGFGEEGFKYFSWMRQSG 406
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKG 30
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 557-642 4.67e-04

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: 40.95  E-value: 4.67e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265 557 LLCRAGRLSDAEKMINE-MSWKKDDV-VWTTLLIACKAKGDIERGRRAAERILELDPTCATALVTLANIYSSTGNLEEAA 634
Cdd:COG4783  13 ALLLAGDYDEAEALLEKaLELDPDNPeAFALLGEILLQLGDLDEAIVLLHEALELDPDEPEARLNLGLALLKAGDYDEAL 92


                ....*....
gi 15228265 635 NV-RKNMKA 642
Cdd:COG4783  93 ALlEKALKL 101
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 478-512 7.02e-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: 7.02e-04
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 15228265   478 VSLTAMINGYAEHGKSKEAIDLFEKSLKVGFRPDS 512
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
TPR_19 pfam14559
Tetratricopeptide repeat;
594-636 1.11e-03

Tetratricopeptide repeat;


Pssm-ID: 434038 [Multi-domain]  Cd Length: 65  Bit Score: 37.95  E-value: 1.11e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 15228265   594 GDIERGRRAAERILELDPTCATALVTLANIYSSTGNLEEAANV 636
Cdd:pfam14559   2 GDYAEALELLEQALAEDPDNAEARLGLAEALLALGRLDEAEAL 44
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 266-320 1.42e-03

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 37.34  E-value: 1.42e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 15228265   266 LFENMSER----DVVSWTSLIVAYKRIGQEVKAVETFIKMRNSQVPPNEQTFASMFSAC 320
Cdd:pfam13812   2 ILREMVRDgiqlNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
Spy COG3914
Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational ...
 557-634 1.45e-03

Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443119 [Multi-domain]  Cd Length: 658  Bit Score: 41.90  E-value: 1.45e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265 557 LLCRAGRLSDAEKMINEMSWKKDD--VVWTTLLIACKAKGDIERGRRAAERILELDPTCATALVTLANIYSSTGNLEEAA 634
Cdd:COG3914  87 LLQALGRYEEALALYRRALALNPDnaEALFNLGNLLLALGRLEEALAALRRALALNPDFAEAYLNLGEALRRLGRLEEAI 166
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 478-508 1.85e-03

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


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 36.29  E-value: 1.85e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 15228265   478 VSLTAMINGYAEHGKSKEAIDLFEKSLKVGF 508
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 148-186 2.51e-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: 36.19  E-value: 2.51e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 15228265   148 SLLDMYKRVGKIDKSCRVFSEMPFR----NAVTWTAIITGLVH 186
Cdd:pfam13041   8 TLINGYCKKGKVEEAFKLFNEMKKRgvkpNVYTYTILINGLCK 50
PilF COG3063
Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];
560-633 3.97e-03

Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];


Pssm-ID: 442297 [Multi-domain]  Cd Length: 94  Bit Score: 37.07  E-value: 3.97e-03
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 15228265 560 RAGRLSDAEKMINE-MSWKKDDV-VWTTLLIACKAKGDIERGRrAAERILELDPTCATALVTLANIYSSTGNLEEA 633
Cdd:COG3063   4 KLGDLEEAEEYYEKaLELDPDNAdALNNLGLLLLEQGRYDEAI-ALEKALKLDPNNAEALLNLAELLLELGDYDEA 78
ACL4-like cd24142
Assembly chaperone of ribosomal protein L4 and similar proteins; Assembly chaperone of RPL4 ...
 589-633 4.48e-03

Assembly chaperone of ribosomal protein L4 and similar proteins; Assembly chaperone of RPL4 (ACL4) acts as a chaperone for the L4 ribosomal subunit, encoded by RPL4A and RPL4B, and is required for hierarchical ribosome assembly. It is required for the soluble expression of newly synthesized RPL4 and for the protection of RPL4 from the Tom1-dependent cellular degradation machinery. ACL4 shields ribosomal protein L4 until timely release and insertion into the pre-ribosome is possible, once ribosomal protein L18 is present.


Pssm-ID: 467942 [Multi-domain]  Cd Length: 306  Bit Score: 39.92  E-value: 4.48e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 15228265 589 ACKAKGDIERGRRAAERILELDPTCATALVTLANIYSSTGNLEEA 633
Cdd:cd24142   9 ELLDQGNFELALKFLQRALELEPNNVEALELLGEILLELGDVEEA 53
Spy COG3914
Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational ...
 585-636 4.61e-03

Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443119 [Multi-domain]  Cd Length: 658  Bit Score: 40.36  E-value: 4.61e-03
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|..
gi 15228265 585 TLLIACKAKGDIERGRRAAERILELDPTCATALVTLANIYSSTGNLEEAANV 636
Cdd:COG3914  83 LAALLLQALGRYEEALALYRRALALNPDNAEALFNLGNLLLALGRLEEALAA 134
PEP_TPR_lipo TIGR02917
putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly ...
 562-644 4.67e-03

putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.


Pssm-ID: 274350 [Multi-domain]  Cd Length: 899  Bit Score: 40.45  E-value: 4.67e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228265   562 GRLSDAEKMINEMS-WKKDDV-VWTTLLIACKAKGDIERGRRAAERILELDPTCATALVTLANIYSSTGNLEEAANV-RK 638
Cdd:TIGR02917 581 GQLKKALAILNEAAdAAPDSPeAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSlKR 660


                  ....*.
gi 15228265   639 NMKAKG 644
Cdd:TIGR02917 661 ALELKP 666
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 175-203 6.45e-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: 6.45e-03
                          10        20
                  ....*....|....*....|....*....
gi 15228265   175 VTWTAIITGLVHAGRYKEGLTYFSEMSRS 203
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEK 29
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 592-639 6.68e-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: 38.94  E-value: 6.68e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*...
gi 15228265 592 AKGDIERGRRAAERILELDPTCATALVTLANIYSSTGNLEEAANVRKN 639
Cdd:COG2956  20 LNGQPDKAIDLLEEALELDPETVEAHLALGNLYRRRGEYDRAIRIHQK 67
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 551-574 6.96e-03

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


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 34.74  E-value: 6.96e-03
                          10        20
                  ....*....|....*....|....
gi 15228265   551 YGCMVDLLCRAGRLSDAEKMINEM 574
Cdd:TIGR00756   3 YNTLIDGLCKAGRVEEALELFKEM 26
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 468-522 7.71e-03

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


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 35.41  E-value: 7.71e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 15228265   468 IFGETDRD----DIVSLTAMINGYAEHGKSKEAIDLFEKSLKVGFRPDSVTFISVLTAC 522
Cdd:pfam13812   2 ILREMVRDgiqlNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVI 60
 
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