Citrus Sinensis ID: 016296

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390--
MVLEATMICIDNSEWMRNGDYSPSRLRAQADAVSLICGAKTQSNPENTVGILTMGGKGVRVLTTPTTDLGKILACMHELDIGGEMNIAAGIQVAQLALKHRQNKNQRQRIIVFAGSPVKYDRKVMEMIGKKLKKNSVAIDIVNFGEDDDGKPEKLEALLAAVNNNDSSHLVHVPTGPNALSDVLISSPVFTADGEGGSGFAAAAAAAAAGGVSDFDFGVDPNIDPELALALRVSMEEERARQEAAAKRAADEASRQGKEEEPLSNSQDATMTDNTNNTAAETTEKTADPMDEEKSLLERAFAMSMGTSVSDTSMADADTSKATDEDKELALALQMSMQDDTKDPSNQSDMSKVLGDQSFVSSILTSLPGVDPNDPSVKDLIASLQGQPEVCP
cccEEEEEEEEcccccccccccccHHHHHHHHHHHHHHHHHcccccccEEEEEEcccccEEEEcccccHHHHHHHHccccccccccHHHHHHHHHHHHHHcccccccEEEEEEEcccccccHHHHHHHHHHHHHcccEEEEEEEcccccccHHHHHHHHHHHccccccEEEEEcccccccccccccccEEcccccccccHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccHHHHHHHHHHHccccccccccccccccccccccHHHHHHHHHHcccccccccccccccHHHHcccHHHHHHHHccccccccccHHHHHHHHHHHccccccc
ccEEEEEEEEEccHHcccccccccHHHHHHHHHHHHHHHHHcccccccEEEEEEcccccEEEEcccccHHHHHHHHccccccccccHHHHHHHHHHHHHHHccccccEEEEEEEcccccccHHHHHHHHHHHHHcccEEEEEEccccccccHHHHHHHHHHHccccccEEEEccccccHHHHHHHcccEEccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccHHHccccccccccccccccccccccHHHHHHHHHHHHHHcccccccccccccccHccccHHHHHHHHHcccccccccccccccHHHHHccHHHHHHHHHcccccccccHHHHHHHHHHHccccccc
MVLEATMicidnsewmrngdyspsrlRAQADAVSLICgaktqsnpentvgiltmggkgvrvlttpttdLGKILACMHEldiggemnIAAGIQVAQLALKHRQNKNQRQRIIVfagspvkydRKVMEMIGKKLKKNSVAIDIVnfgedddgkpEKLEALLAAVNnndsshlvhvptgpnalsdvlisspvftadgeggsGFAAAAAAAAAggvsdfdfgvdpnidPELALALRVSMEEERARQEAAAKRAADEasrqgkeeeplsnsqdatmtdntnntaaettektadpmDEEKSLLERAFAMSMgtsvsdtsmadadtskatDEDKELALALQMSMqddtkdpsnqsdmskvlgdqSFVSSILtslpgvdpndpsVKDLIASlqgqpevcp
MVLEATMicidnsewmrnGDYSPSRLRAQADAVSLICGaktqsnpentvgiltmggkgvRVLTTPTTDLGKILACMHELDIGGEMNIAAGIQVAQLALKHRqnknqrqriivfagspvkydrKVMEMIgkklkknsvAIDIVNFGEDDDGKPEKLEALLAAVNNNDSSHLVHVPTGPNALSDVLISSPVFTADGEGGSGFAAAAAAAAAGGVSDFDFGVDPNIDPELALALRVSMEEERARQEAAAKRaadeasrqgkeeeplsnsqdatmtdntnntaaettektadpmdEEKSLLERAFAMSMGTSVSDTSMADADTSKATDEDKELALALQMSMQDDTKDPSNQSDMSKVLGDQSFVSSILTSLPGVDPNDPSVKDLIAslqgqpevcp
MVLEATMICIDNSEWMRNGDYSPSRLRAQADAVSLICGAKTQSNPENTVGILTMGGKGVRVLTTPTTDLGKILACMHELDIGGEMNIAAGIQVAQLALKHRQNKNQRQRIIVFAGSPVKYDRKVMEMIGKKLKKNSVAIDIVNFGEDDDGKPEKLEALLAAVNNNDSSHLVHVPTGPNALSDVLISSPVFTadgeggsgfaaaaaaaaaggvsdfdfgVDPNIDPELALALRVSMeeerarqeaaakraadeasrQGKEEEPLSNSQdatmtdntnntaaettektadPMDEEKSLLERAFAMSMGTSVSDTSMADADTSKATDEDKELALALQMSMQDDTKDPSNQSDMSKVLGDQSFVSSILTSLPGVDPNDPSVKDLIASLQGQPEVCP
****ATMICIDNSEWMRNGDY*****RAQADAVSLICGAKTQ**PENTVGILTMGGKGVRVLTTPTTDLGKILACMHELDIGGEMNIAAGIQVAQLALKHRQNKNQRQRIIVFAGSPVKYDRKVMEMIGKKLKKNSVAIDIVNFG***********ALLAAV******HLVHVPTGPNALSDVLISSPVFTADGEGGSGFAAAAAAAAAGGVSDFDFGVDPNIDPELALAL*****************************************************************************************************************************************************************
*VLEATMICIDNSEWMRNGDYSPSRLRAQADAVSLICGAKTQSNPENTVGILTMGGKGVRVLTTPTTDLGKILACMHELDIGGEMNIAAGIQVAQLALK*****NQRQRIIVFAGSPVKYDRKVMEMIGKKLKKNSVAIDIVNFGEDDDGKPEKLEALLAAVNNNDSSHLVHVPTGPNALSDVLISSPVF***********************DFDFGVDPNIDPELALAL******************************************************************************************************************************SFVSSILTSLPGVDPNDP*****************
MVLEATMICIDNSEWMRNGDYSPSRLRAQADAVSLICGAKTQSNPENTVGILTMGGKGVRVLTTPTTDLGKILACMHELDIGGEMNIAAGIQVAQLALKHRQNKNQRQRIIVFAGSPVKYDRKVMEMIGKKLKKNSVAIDIVNFGEDDDGKPEKLEALLAAVNNNDSSHLVHVPTGPNALSDVLISSPVFTADGEGGSGFAAAAAAAAAGGVSDFDFGVDPNIDPELALALRVS***********************************TMTDNTNNTAAETTEKTADPMDEEKSLLERAFAMSMG*******************DKELALALQMSM************MSKVLGDQSFVSSILTSLPGVDPNDPSVKDLIASL********
MVLEATMICIDNSEWMRNGDYSPSRLRAQADAVSLICGAKTQSNPENTVGILTMGGKGVRVLTTPTTDLGKILACMHELDIGGEMNIAAGIQVAQLALKHRQNKNQRQRIIVFAGSPVKYDRKVMEMIGKKLKKNSVAIDIVNFGEDDDGKPEKLEALLAAVNNNDSSHLVHVPTGPNALSDVLISSPVFTADGEGGSGFAAAAAAAAAGGVSDFDFGVDPNIDPELALALRVSMEEERAR*EA*************************************************KSLLERAF***********************************************DMSKVLGDQSFVSSILTSLPGVDPNDPSVKDLIASLQG******
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MVLEATMICIDNSEWMRNGDYSPSRLRAQADAVSLICGAKTQSNPENTVGILTMGGKGVRVLTTPTTDLGKILACMHELDIGGEMNIAAGIQVAQLALKHRQNKNQRQRIIVFAGSPVKYDRKVMEMIGKKLKKNSVAIDIVNFGEDDDGKPEKLEALLAAVNNNDSSHLVHVPTGPNALSDVLISSPVFTADGEGGSGFAAAAAAAAAGGVSDFDFGVDPNIDPELALALxxxxxxxxxxxxxxxxxxxxxASRQGKEEEPLSNSQDATMTDNTNNTAAETTEKTADPMDEEKSLLERAFAMSMGTSVSDTSMADADTSKATDEDKELALALQMSMQDDTKDPSNQSDMSKVLGDQSFVSSILTSLPGVDPNDPSVKDLIASLQGQPEVCP
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query392 2.2.26 [Sep-21-2011]
P55034386 26S proteasome non-ATPase yes no 0.926 0.940 0.698 1e-142
P55035396 26S proteasome non-ATPase yes no 0.920 0.911 0.409 1e-72
O35226376 26S proteasome non-ATPase yes no 0.903 0.941 0.446 3e-71
Q58DA0382 26S proteasome non-ATPase yes no 0.905 0.929 0.428 3e-70
P55036377 26S proteasome non-ATPase yes no 0.897 0.933 0.428 3e-70
Q553E0349 26S proteasome non-ATPase yes no 0.808 0.908 0.397 5e-66
O94444243 26S proteasome regulatory yes no 0.619 1.0 0.480 6e-64
A2A3N6862 Putative PIP5K1A and PSMD no no 0.905 0.411 0.4 7e-59
P38886268 26S proteasome regulatory yes no 0.596 0.873 0.481 3e-55
O17453420 26S proteasome non-ATPase N/A no 0.928 0.866 0.354 5e-55
>sp|P55034|PSMD4_ARATH 26S proteasome non-ATPase regulatory subunit 4 OS=Arabidopsis thaliana GN=MBP1 PE=1 SV=1 Back     alignment and function desciption
 Score =  506 bits (1303), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 269/385 (69%), Positives = 324/385 (84%), Gaps = 22/385 (5%)

Query: 1   MVLEATMICIDNSEWMRNGDYSPSRLRAQADAVSLICGAKTQSNPENTVGILTMGGKGVR 60
           MVLEATMICIDNSEWMRNGDYSPSRL+AQ +AV+L+CGAKTQSNPENTVGILTM GKGVR
Sbjct: 1   MVLEATMICIDNSEWMRNGDYSPSRLQAQTEAVNLLCGAKTQSNPENTVGILTMAGKGVR 60

Query: 61  VLTTPTTDLGKILACMHELDIGGEMNIAAGIQVAQLALKHRQNKNQRQRIIVFAGSPVKY 120
           VLTTPT+DLGKILACMH LD+GGE+N+ A IQ+AQLALKHRQNKNQRQRIIVFAGSP+KY
Sbjct: 61  VLTTPTSDLGKILACMHGLDVGGEINLTAAIQIAQLALKHRQNKNQRQRIIVFAGSPIKY 120

Query: 121 DRKVMEMIGKKLKKNSVAIDIVNFGEDDD-GKPEKLEALLAAVNNNDSSHLVHVPTGPNA 179
           ++K +E++GK+LKKNSV++DIVNFGEDDD  KP+KLEALL AVNNND SH+VHVP+G NA
Sbjct: 121 EKKALEIVGKRLKKNSVSLDIVNFGEDDDEEKPQKLEALLTAVNNNDGSHIVHVPSGANA 180

Query: 180 LSDVLISSPVFTADGEGGSGFAAAAAAAAAGGVSDFDFGVDPNIDPELALALRVSMEEER 239
           LSDVL+S+PVFT D EG SG+ +AAAAAAA G  DFDFGVDPNIDPELALALRVSMEEER
Sbjct: 181 LSDVLLSTPVFTGD-EGASGYVSAAAAAAAAG-GDFDFGVDPNIDPELALALRVSMEEER 238

Query: 240 ARQEAAAKRAADEASRQGKEEEPLSNSQDATMTDNTNNTAAETTEKTADPMDEEKSLLER 299
           ARQEAAAK+AADEA ++ K+ +  S SQ+         T A TT+K A+PMDE+ +LL++
Sbjct: 239 ARQEAAAKKAADEAGQKDKDGDTASASQE---------TVARTTDKNAEPMDEDSALLDQ 289

Query: 300 AFAMSMGTSVSDTSMADADTSKATDEDKELALALQMSMQDDTKDPSNQSDMSKVLGDQSF 359
           A AMS+G         D + S+A DED++LALALQMSM  +    +  +  + +LG+Q+F
Sbjct: 290 AIAMSVG---------DVNMSEAADEDQDLALALQMSMSGEESSEATGAG-NNLLGNQAF 339

Query: 360 VSSILTSLPGVDPNDPSVKDLIASL 384
           +SS+L+SLPGVDPNDP+VK+L+ASL
Sbjct: 340 ISSVLSSLPGVDPNDPAVKELLASL 364
Binds and presumably selects ubiquitin-conjugates for destruction. Prefers multiubiquitin chains rather than single ubiquitins. Plays a role in the growth and development via the proteasome-dependent degradation of the ABA-signaling protein ABI5/DPBF1.
Arabidopsis thaliana (taxid: 3702)
>sp|P55035|PSMD4_DROME 26S proteasome non-ATPase regulatory subunit 4 OS=Drosophila melanogaster GN=Pros54 PE=1 SV=2 Back     alignment and function description
>sp|O35226|PSMD4_MOUSE 26S proteasome non-ATPase regulatory subunit 4 OS=Mus musculus GN=Psmd4 PE=1 SV=1 Back     alignment and function description
>sp|Q58DA0|PSMD4_BOVIN 26S proteasome non-ATPase regulatory subunit 4 OS=Bos taurus GN=PSMD4 PE=2 SV=1 Back     alignment and function description
>sp|P55036|PSMD4_HUMAN 26S proteasome non-ATPase regulatory subunit 4 OS=Homo sapiens GN=PSMD4 PE=1 SV=1 Back     alignment and function description
>sp|Q553E0|PSMD4_DICDI 26S proteasome non-ATPase regulatory subunit 4 OS=Dictyostelium discoideum GN=psmD4 PE=2 SV=1 Back     alignment and function description
>sp|O94444|RPN10_SCHPO 26S proteasome regulatory subunit rpn10 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rpn10 PE=1 SV=1 Back     alignment and function description
>sp|A2A3N6|PIPSL_HUMAN Putative PIP5K1A and PSMD4-like protein OS=Homo sapiens GN=PIPSL PE=5 SV=1 Back     alignment and function description
>sp|P38886|RPN10_YEAST 26S proteasome regulatory subunit RPN10 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RPN10 PE=1 SV=3 Back     alignment and function description
>sp|O17453|PSMD4_SCHMA 26S proteasome non-ATPase regulatory subunit 4 OS=Schistosoma mansoni PE=2 SV=2 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query392
225431100404 PREDICTED: 26S proteasome non-ATPase reg 0.989 0.960 0.776 1e-157
356559272398 PREDICTED: 26S proteasome non-ATPase reg 0.974 0.959 0.719 1e-155
356502793405 PREDICTED: 26S proteasome non-ATPase reg 0.992 0.960 0.742 1e-155
356559274390 PREDICTED: 26S proteasome non-ATPase reg 0.954 0.958 0.717 1e-154
356502795397 PREDICTED: 26S proteasome non-ATPase reg 0.971 0.959 0.737 1e-154
255586426402 26S proteasome non-atpase regulatory sub 0.987 0.962 0.750 1e-153
356496629405 PREDICTED: 26S proteasome non-ATPase reg 0.992 0.960 0.760 1e-153
363807696405 uncharacterized protein LOC100803975 [Gl 0.992 0.960 0.753 1e-152
449434144403 PREDICTED: 26S proteasome non-ATPase reg 0.992 0.965 0.742 1e-151
224105183387 predicted protein [Populus trichocarpa] 0.984 0.997 0.749 1e-149
>gi|225431100|ref|XP_002264558.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 4 [Vitis vinifera] gi|297734994|emb|CBI17356.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  561 bits (1446), Expect = e-157,   Method: Compositional matrix adjust.
 Identities = 302/389 (77%), Positives = 348/389 (89%), Gaps = 1/389 (0%)

Query: 1   MVLEATMICIDNSEWMRNGDYSPSRLRAQADAVSLICGAKTQSNPENTVGILTMGGKGVR 60
           MVLEATMICIDNSEWMRNGDYSP+R +AQADAV+LICGAKTQSNPENTVG+LTM GKGVR
Sbjct: 1   MVLEATMICIDNSEWMRNGDYSPTRFQAQADAVNLICGAKTQSNPENTVGVLTMAGKGVR 60

Query: 61  VLTTPTTDLGKILACMHELDIGGEMNIAAGIQVAQLALKHRQNKNQRQRIIVFAGSPVKY 120
           VL TPT+DLGKILACMH L++GGEMN+AAGIQVAQLALKHRQNK Q+QRIIVFAGSPVKY
Sbjct: 61  VLVTPTSDLGKILACMHGLEVGGEMNLAAGIQVAQLALKHRQNKKQQQRIIVFAGSPVKY 120

Query: 121 DRKVMEMIGKKLKKNSVAIDIVNFGEDDDGKPEKLEALLAAVNNNDSSHLVHVPTGPNAL 180
           D+KV+EMIG+KLKKNSVAIDIV+FGEDDDGKPEKLEALL +VNNNDSSH+VHVP GPNAL
Sbjct: 121 DKKVLEMIGRKLKKNSVAIDIVDFGEDDDGKPEKLEALLGSVNNNDSSHIVHVPAGPNAL 180

Query: 181 SDVLISSPVFTADGEGGSGFAAAAAAAAAGGVSDFDFGVDPNIDPELALALRVSMEEERA 240
           SDVLIS+P+FT DGEGGSGFAAAAAAAAAGGV+ FDFGVDPN+DPELALALRVSMEEERA
Sbjct: 181 SDVLISTPIFTGDGEGGSGFAAAAAAAAAGGVAGFDFGVDPNLDPELALALRVSMEEERA 240

Query: 241 RQEAAAKRAADEASRQGKEEEPLSNSQDATMTDNTNNTAAETTEKTADPMDEEKSLLERA 300
           RQEAAAK+AA+EASRQ KE E  S+SQDATMT++  N AA   +K +D MD+E +LL++A
Sbjct: 241 RQEAAAKKAAEEASRQEKEGEQQSSSQDATMTEHA-NVAASDADKKSDLMDDENALLQQA 299

Query: 301 FAMSMGTSVSDTSMADADTSKATDEDKELALALQMSMQDDTKDPSNQSDMSKVLGDQSFV 360
            AMSM    +  +M D D S+A  +D++LALALQ+S+QD  KD ++Q+DMSK+L DQ+FV
Sbjct: 300 LAMSMDDPATSLAMRDTDMSEAAADDQDLALALQLSVQDTGKDSTSQTDMSKLLTDQTFV 359

Query: 361 SSILTSLPGVDPNDPSVKDLIASLQGQPE 389
           SSIL SLPGVDPNDPSVKDL+AS+Q + E
Sbjct: 360 SSILASLPGVDPNDPSVKDLLASMQNESE 388

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|356559272|ref|XP_003547924.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 4-like isoform 1 [Glycine max] Back     alignment and taxonomy information
>gi|356502793|ref|XP_003520200.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 4-like isoform 1 [Glycine max] Back     alignment and taxonomy information
>gi|356559274|ref|XP_003547925.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 4-like isoform 2 [Glycine max] Back     alignment and taxonomy information
>gi|356502795|ref|XP_003520201.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 4-like isoform 2 [Glycine max] Back     alignment and taxonomy information
>gi|255586426|ref|XP_002533858.1| 26S proteasome non-atpase regulatory subunit, putative [Ricinus communis] gi|223526195|gb|EEF28522.1| 26S proteasome non-atpase regulatory subunit, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|356496629|ref|XP_003517168.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 4-like [Glycine max] Back     alignment and taxonomy information
>gi|363807696|ref|NP_001242422.1| uncharacterized protein LOC100803975 [Glycine max] gi|255641336|gb|ACU20945.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|449434144|ref|XP_004134856.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 4-like [Cucumis sativus] gi|449491330|ref|XP_004158863.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 4-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|224105183|ref|XP_002313718.1| predicted protein [Populus trichocarpa] gi|222850126|gb|EEE87673.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query392
TAIR|locus:2121269386 RPN10 "regulatory particle non 0.959 0.974 0.526 1.6e-95
DICTYBASE|DDB_G0275775349 psmD4 "ubiquitin interacting m 0.479 0.538 0.550 1.5e-64
UNIPROTKB|Q58DA0382 PSMD4 "26S proteasome non-ATPa 0.566 0.581 0.485 1.3e-61
MGI|MGI:1201670376 Psmd4 "proteasome (prosome, ma 0.566 0.590 0.485 1.6e-61
UNIPROTKB|Q5VWC4380 PSMD4 "26S proteasome non-ATPa 0.566 0.584 0.485 2e-61
UNIPROTKB|F1PRW0377 PSMD4 "Uncharacterized protein 0.566 0.588 0.485 2e-61
UNIPROTKB|P55036377 PSMD4 "26S proteasome non-ATPa 0.566 0.588 0.485 2e-61
UNIPROTKB|Q32YV9377 PSMD4 "Uncharacterized protein 0.566 0.588 0.485 4.2e-61
UNIPROTKB|O88321380 Psmd4 "Proteasome (Prosome, ma 0.566 0.584 0.485 5.4e-61
RGD|621109377 Psmd4 "proteasome (prosome, ma 0.566 0.588 0.485 5.4e-61
TAIR|locus:2121269 RPN10 "regulatory particle non-ATPase 10" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 950 (339.5 bits), Expect = 1.6e-95, P = 1.6e-95
 Identities = 209/397 (52%), Positives = 258/397 (64%)

Query:     1 MVLEATMICIDNSEWMRNGDYSPSRLRAQADAVSLICGAKTQSNPENTVGILTMGGKGVR 60
             MVLEATMICIDNSEWMRNGDYSPSRL+AQ +AV+L+CGAKTQSNPENTVGILTM GKGVR
Sbjct:     1 MVLEATMICIDNSEWMRNGDYSPSRLQAQTEAVNLLCGAKTQSNPENTVGILTMAGKGVR 60

Query:    61 VLTTPTTDLGKILACMHELDIGGEMNIAAGIQVAQLALKHRQNKNQRQRIIVFAGSPVKY 120
             VLTTPT+DLGKILACMH LD+GGE+N+ A IQ+AQLALKHRQNKNQRQRIIVFAGSP+KY
Sbjct:    61 VLTTPTSDLGKILACMHGLDVGGEINLTAAIQIAQLALKHRQNKNQRQRIIVFAGSPIKY 120

Query:   121 DRKVMEMIGKKLKKNSVAIDIVNFGEDDDG-KPEKLEALLAAVNNNDSSHLVHVPTGPNA 179
             ++K +E++GK+LKKNSV++DIVNFGEDDD  KP+KLEALL AVNNND SH+VHVP+G NA
Sbjct:   121 EKKALEIVGKRLKKNSVSLDIVNFGEDDDEEKPQKLEALLTAVNNNDGSHIVHVPSGANA 180

Query:   180 LSDVLISSPVFTXXXXXXXXXXXXXXXXXXXXXXXXXXXVDPNIDPELALALRVSMXXXX 239
             LSDVL+S+PVFT                           VDPNIDPELALALRVSM    
Sbjct:   181 LSDVLLSTPVFTGDEGASGYVSAAAAAAAAGGDFDFG--VDPNIDPELALALRVSMEEER 238

Query:   240 XXXXXXXXXXXXXXXXQGKEEEPLSNSQXXXXXXXXXXXXXXXXXXXXXPMDEEKSLLER 299
                             + K+ +  S SQ                     PMDE+ +LL++
Sbjct:   239 ARQEAAAKKAADEAGQKDKDGDTASASQETVARTTDKNAE---------PMDEDSALLDQ 289

Query:   300 AFAMSMG-TSVSDTSMADADTSKAT------DEDKELALALQMSMQDDTKDPSNQSDMSK 352
             A AMS+G  ++S+ +  D D + A       +E  E   A    + +     S  S +  
Sbjct:   290 AIAMSVGDVNMSEAADEDQDLALALQMSMSGEESSEATGAGNNLLGNQAFISSVLSSLPG 349

Query:   353 VLGDQSFVSSILTSLPGVDPNDPSVKDLIASLQGQPE 389
             V  +   V  +L SLP  D +  + ++  +S +G+ E
Sbjct:   350 VDPNDPAVKELLASLP--DESKRTEEEESSSKKGEDE 384
GO:0005737 "cytoplasm" evidence=ISM
GO:0006281 "DNA repair" evidence=IEA
GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA
GO:0008270 "zinc ion binding" evidence=IEA
GO:0008540 "proteasome regulatory particle, base subcomplex" evidence=ISS;IDA
GO:0000502 "proteasome complex" evidence=IDA;TAS
GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=RCA;TAS
GO:0005634 "nucleus" evidence=TAS
GO:0030163 "protein catabolic process" evidence=TAS
GO:0006974 "response to DNA damage stimulus" evidence=IMP
GO:0009555 "pollen development" evidence=IMP
GO:0009651 "response to salt stress" evidence=RCA;IMP
GO:0009733 "response to auxin stimulus" evidence=IMP
GO:0009735 "response to cytokinin stimulus" evidence=IEP;RCA;IMP
GO:0009737 "response to abscisic acid stimulus" evidence=IMP
GO:0009744 "response to sucrose stimulus" evidence=IMP
GO:0010029 "regulation of seed germination" evidence=IMP
GO:0010150 "leaf senescence" evidence=IMP
GO:0048366 "leaf development" evidence=IMP
GO:0048455 "stamen formation" evidence=IMP
GO:0048528 "post-embryonic root development" evidence=IMP
GO:0048767 "root hair elongation" evidence=RCA;IMP
GO:0016020 "membrane" evidence=IDA
GO:0009408 "response to heat" evidence=IMP
GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=RCA;IMP
GO:0043248 "proteasome assembly" evidence=RCA;IMP
GO:0051788 "response to misfolded protein" evidence=RCA;IMP
GO:0080129 "proteasome core complex assembly" evidence=RCA;IMP
GO:0005829 "cytosol" evidence=IDA
GO:0006094 "gluconeogenesis" evidence=RCA
GO:0006096 "glycolysis" evidence=RCA
GO:0006623 "protein targeting to vacuole" evidence=RCA
GO:0006635 "fatty acid beta-oxidation" evidence=RCA
GO:0006833 "water transport" evidence=RCA
GO:0006972 "hyperosmotic response" evidence=RCA
GO:0007010 "cytoskeleton organization" evidence=RCA
GO:0007030 "Golgi organization" evidence=RCA
GO:0009266 "response to temperature stimulus" evidence=RCA
GO:0009407 "toxin catabolic process" evidence=RCA
GO:0009853 "photorespiration" evidence=RCA
GO:0010498 "proteasomal protein catabolic process" evidence=RCA
GO:0046686 "response to cadmium ion" evidence=RCA
GO:0001653 "peptide receptor activity" evidence=IDA
DICTYBASE|DDB_G0275775 psmD4 "ubiquitin interacting motif (UIM) domain-containing protein" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
UNIPROTKB|Q58DA0 PSMD4 "26S proteasome non-ATPase regulatory subunit 4" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
MGI|MGI:1201670 Psmd4 "proteasome (prosome, macropain) 26S subunit, non-ATPase, 4" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|Q5VWC4 PSMD4 "26S proteasome non-ATPase regulatory subunit 4" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|F1PRW0 PSMD4 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|P55036 PSMD4 "26S proteasome non-ATPase regulatory subunit 4" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|Q32YV9 PSMD4 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|O88321 Psmd4 "Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 4, isoform CRA_a" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
RGD|621109 Psmd4 "proteasome (prosome, macropain) 26S subunit, non-ATPase, 4" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
P55035PSMD4_DROMENo assigned EC number0.40940.92090.9116yesno
P55034PSMD4_ARATHNo assigned EC number0.69870.92600.9404yesno
P55036PSMD4_HUMANNo assigned EC number0.42820.89790.9336yesno
Q553E0PSMD4_DICDINo assigned EC number0.39790.80860.9083yesno
Q58DA0PSMD4_BOVINNo assigned EC number0.42890.90560.9293yesno
O35226PSMD4_MOUSENo assigned EC number0.44670.90300.9414yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
GSVIVG00036762001
SubName- Full=Chromosome chr4 scaffold_83, whole genome shotgun sequence; (440 aa)
(Vitis vinifera)
Predicted Functional Partners:
GSVIVG00015420001
SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (191 aa)
   •••• 0.987
GSVIVG00024499001
RecName- Full=Proteasome subunit beta type; EC=3.4.25.1;; The proteasome is a multicatalytic pr [...] (245 aa)
   •••• 0.983
GSVIVG00014791001
SubName- Full=Putative uncharacterized protein (Chromosome chr18 scaffold_1, whole genome shotg [...] (309 aa)
   •••• 0.982
GSVIVG00010470001
SubName- Full=Chromosome chr17 scaffold_263, whole genome shotgun sequence; (386 aa)
   •••• 0.978
GSVIVG00006696001
SubName- Full=Chromosome chr2 scaffold_176, whole genome shotgun sequence; (267 aa)
   •••• 0.975
GSVIVG00035048001
RecName- Full=Proteasome subunit beta type; EC=3.4.25.1;; The proteasome is a multicatalytic pr [...] (272 aa)
   •••• 0.966
GSVIVG00030725001
RecName- Full=Proteasome subunit beta type; EC=3.4.25.1;; The proteasome is a multicatalytic pr [...] (250 aa)
   •••• 0.956
GSVIVG00015634001
SubName- Full=Chromosome chr2 scaffold_11, whole genome shotgun sequence; (365 aa)
   •••• 0.952
GSVIVG00023752001
SubName- Full=Putative uncharacterized protein (Chromosome chr7 scaffold_31, whole genome shotg [...] (205 aa)
   •••• 0.944
GSVIVG00018640001
SubName- Full=Chromosome chr12 scaffold_18, whole genome shotgun sequence; (629 aa)
   •••• 0.933

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query392
cd01452187 cd01452, VWA_26S_proteasome_subunit, 26S proteasom 1e-106
COG5148243 COG5148, RPN10, 26S proteasome regulatory complex, 3e-78
smart00327175 smart00327, VWA, von Willebrand factor (vWF) type 2e-12
cd00198161 cd00198, vWFA, Von Willebrand factor type A (vWA) 1e-06
pfam13519172 pfam13519, VWA_2, von Willebrand factor type A dom 8e-06
cd01465170 cd01465, vWA_subgroup, VWA subgroup: Von Willebran 2e-05
cd01453183 cd01453, vWA_transcription_factor_IIH_type, Transc 0.002
>gnl|CDD|238729 cd01452, VWA_26S_proteasome_subunit, 26S proteasome plays a major role in eukaryotic protein breakdown, especially for ubiquitin-tagged proteins Back     alignment and domain information 
 Score =  310 bits (797), Expect = e-106
 Identities = 118/188 (62%), Positives = 144/188 (76%), Gaps = 1/188 (0%)

Query: 1   MVLEATMICIDNSEWMRNGDYSPSRLRAQADAVSLICGAKTQSNPENTVGILTMGGKGVR 60
           MVLEATMICIDNSE+MRNGDY P+R +AQADAV+LIC AKT+SNPEN VG++TM G    
Sbjct: 1   MVLEATMICIDNSEYMRNGDYPPTRFQAQADAVNLICQAKTRSNPENNVGLMTMAGNSPE 60

Query: 61  VLTTPTTDLGKILACMHELDIGGEMNIAAGIQVAQLALKHRQNKNQRQRIIVFAGSPVKY 120
           VL T T D GKIL+ +H++   G+ N   GIQ+AQLALKHRQNKNQ+QRI+ F GSP++ 
Sbjct: 61  VLVTLTNDQGKILSKLHDVQPKGKANFITGIQIAQLALKHRQNKNQKQRIVAFVGSPIEE 120

Query: 121 DRKVMEMIGKKLKKNSVAIDIVNFGEDDDGKPEKLEALLAAVNNNDSSHLVHVPTGPNAL 180
           D K +  + K+LKKN+V++DI+NFGE DD   EKL A + AVN  D SHLV VP G N L
Sbjct: 121 DEKDLVKLAKRLKKNNVSVDIINFGEIDDN-TEKLTAFIDAVNGKDGSHLVSVPPGENLL 179

Query: 181 SDVLISSP 188
           SD L+SSP
Sbjct: 180 SDALLSSP 187

It is an ATP-dependent protease responsible for the bulk of non-lysosomal proteolysis in eukaryotes, often using covalent modification of proteins by ubiquitylation. It consists of a 20S proteolytic core particle (CP) and a 19S regulatory particle (RP). The CP is an ATP independent peptidase consisting of hydrolyzing activities. One or both ends of CP carry the RP that confers both ubiquitin and ATP dependence to the 26S proteosome. The RP's proposed functions include recognition of substrates and translocation of these to CP for proteolysis. The RP can dissociate into a stable lid and base subcomplexes. The base is composed of three non-ATPase subunits (Rpn 1, 2 and 10). A single residue in the vWA domain of Rpn10 has been implicated to be responsible for stabilizing the lid-base association. Length = 187
>gnl|CDD|227477 COG5148, RPN10, 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>gnl|CDD|214621 smart00327, VWA, von Willebrand factor (vWF) type A domain Back     alignment and domain information
>gnl|CDD|238119 cd00198, vWFA, Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF) Back     alignment and domain information
>gnl|CDD|222192 pfam13519, VWA_2, von Willebrand factor type A domain Back     alignment and domain information
>gnl|CDD|238742 cd01465, vWA_subgroup, VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF) Back     alignment and domain information
>gnl|CDD|238730 cd01453, vWA_transcription_factor_IIH_type, Transcription factors IIH type: TFIIH is a multiprotein complex that is one of the five general transcription factors that binds RNA polymerase II holoenzyme Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 392
KOG2884259 consensus 26S proteasome regulatory complex, subun 100.0
COG5148243 RPN10 26S proteasome regulatory complex, subunit R 100.0
cd01452187 VWA_26S_proteasome_subunit 26S proteasome plays a 100.0
PF04056193 Ssl1: Ssl1-like; InterPro: IPR007198 Ssl1-like pro 100.0
KOG2807378 consensus RNA polymerase II transcription initiati 99.97
cd01453183 vWA_transcription_factor_IIH_type Transcription fa 99.97
COG5151421 SSL1 RNA polymerase II transcription initiation/nu 99.93
PRK13685326 hypothetical protein; Provisional 99.81
PF13519172 VWA_2: von Willebrand factor type A domain; PDB: 3 99.77
cd01467180 vWA_BatA_type VWA BatA type: Von Willebrand factor 99.72
cd01465170 vWA_subgroup VWA subgroup: Von Willebrand factor t 99.7
cd01451178 vWA_Magnesium_chelatase Magnesium chelatase: Mg-ch 99.67
cd01458218 vWA_ku Ku70/Ku80 N-terminal domain. The Ku78 heter 99.65
cd01472164 vWA_collagen von Willebrand factor (vWF) type A do 99.64
cd01480186 vWA_collagen_alpha_1-VI-type VWA_collagen alpha(VI 99.61
cd01456206 vWA_ywmD_type VWA ywmD type:Von Willebrand factor 99.61
cd01466155 vWA_C3HC4_type VWA C3HC4-type: Von Willebrand fact 99.6
cd00198161 vWFA Von Willebrand factor type A (vWA) domain was 99.59
TIGR03436296 acidobact_VWFA VWFA-related Acidobacterial domain. 99.58
cd01471186 vWA_micronemal_protein Micronemal proteins: The To 99.56
smart00327177 VWA von Willebrand factor (vWF) type A domain. VWA 99.55
cd01469177 vWA_integrins_alpha_subunit Integrins are a class 99.54
cd01460266 vWA_midasin VWA_Midasin: Midasin is a member of th 99.54
cd01470198 vWA_complement_factors Complement factors B and C2 99.54
cd01482164 vWA_collagen_alphaI-XII-like Collagen: The extrace 99.54
cd01461171 vWA_interalpha_trypsin_inhibitor vWA_interalpha tr 99.54
cd01450161 vWFA_subfamily_ECM Von Willebrand factor type A (v 99.53
cd01463190 vWA_VGCC_like VWA Voltage gated Calcium channel li 99.53
cd01477193 vWA_F09G8-8_type VWA F09G8.8 type: Von Willebrand 99.53
PRK13406584 bchD magnesium chelatase subunit D; Provisional 99.51
cd01474185 vWA_ATR ATR (Anthrax Toxin Receptor): Anthrax toxi 99.5
cd01473192 vWA_CTRP CTRP for CS protein-TRAP-related protein: 99.45
cd01476163 VWA_integrin_invertebrates VWA_integrin (invertebr 99.43
cd01454174 vWA_norD_type norD type: Denitrifying bacteria con 99.42
TIGR00868 863 hCaCC calcium-activated chloride channel protein 1 99.42
cd01475224 vWA_Matrilin VWA_Matrilin: In cartilaginous plate, 99.42
cd01464176 vWA_subfamily VWA subfamily: Von Willebrand factor 99.4
cd01462152 VWA_YIEM_type VWA YIEM type: Von Willebrand factor 99.39
PF00092178 VWA: von Willebrand factor type A domain; InterPro 99.37
TIGR02031589 BchD-ChlD magnesium chelatase ATPase subunit D. Th 99.36
TIGR02442633 Cob-chelat-sub cobaltochelatase subunit. A number 99.32
cd01455191 vWA_F11C1-5a_type Von Willebrand factor type A (vW 99.32
PTZ00441 576 sporozoite surface protein 2 (SSP2); Provisional 99.29
cd01481165 vWA_collagen_alpha3-VI-like VWA_collagen alpha 3(V 99.25
PF13768155 VWA_3: von Willebrand factor type A domain 99.22
cd01457199 vWA_ORF176_type VWA ORF176 type: Von Willebrand fa 99.19
COG1240261 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolis 99.17
TIGR03788596 marine_srt_targ marine proteobacterial sortase tar 99.06
TIGR00627279 tfb4 transcription factor tfb4. This family is bas 98.86
PF03731224 Ku_N: Ku70/Ku80 N-terminal alpha/beta domain; Inte 98.67
TIGR00578 584 ku70 ATP-dependent DNA helicase ii, 70 kDa subunit 98.49
PRK10997487 yieM hypothetical protein; Provisional 98.42
PF10138200 vWA-TerF-like: vWA found in TerF C terminus ; Inte 98.37
cd01479244 Sec24-like Sec24-like: Protein and membrane traffi 98.31
cd01468239 trunk_domain trunk domain. COPII-coated vesicles c 98.26
cd01478267 Sec23-like Sec23-like: Protein and membrane traffi 98.18
PF04811243 Sec23_trunk: Sec23/Sec24 trunk domain; InterPro: I 98.12
PF03850276 Tfb4: Transcription factor Tfb4; InterPro: IPR0046 98.08
COG4245207 TerY Uncharacterized protein encoded in toxicity p 98.04
PLN00162 761 transport protein sec23; Provisional 97.72
PF05762222 VWA_CoxE: VWA domain containing CoxE-like protein; 97.64
COG2425437 Uncharacterized protein containing a von Willebran 97.53
KOG2487314 consensus RNA polymerase II transcription initiati 97.24
smart00187423 INB Integrin beta subunits (N-terminal portion of 97.2
PF11265226 Med25_VWA: Mediator complex subunit 25 von Willebr 96.86
PTZ00395 1560 Sec24-related protein; Provisional 96.83
COG2304399 Uncharacterized protein containing a von Willebran 96.6
COG5242296 TFB4 RNA polymerase II transcription initiation/nu 96.27
COG4867652 Uncharacterized protein with a von Willebrand fact 96.27
cd01459254 vWA_copine_like VWA Copine: Copines are phospholip 96.14
PF06707205 DUF1194: Protein of unknown function (DUF1194); In 95.86
KOG1984 1007 consensus Vesicle coat complex COPII, subunit SFB3 95.51
PF0280918 UIM: Ubiquitin interaction motif; InterPro: IPR003 95.19
KOG2326 669 consensus DNA-binding subunit of a DNA-dependent p 95.05
PF0280918 UIM: Ubiquitin interaction motif; InterPro: IPR003 94.71
smart0072626 UIM Ubiquitin-interacting motif. Present in protea 94.56
COG1721416 Uncharacterized conserved protein (some members co 93.88
KOG1986 745 consensus Vesicle coat complex COPII, subunit SEC2 93.55
PF00362426 Integrin_beta: Integrin, beta chain; InterPro: IPR 93.32
PF07002146 Copine: Copine; InterPro: IPR010734 This represent 92.39
KOG2353 1104 consensus L-type voltage-dependent Ca2+ channel, a 92.31
smart0072626 UIM Ubiquitin-interacting motif. Present in protea 92.18
PF11775219 CobT_C: Cobalamin biosynthesis protein CobT VWA do 90.1
COG5028 861 Vesicle coat complex COPII, subunit SEC24/subunit 89.69
TIGR01651600 CobT cobaltochelatase, CobT subunit. This model de 88.99
PF11443534 DUF2828: Domain of unknown function (DUF2828); Int 88.14
KOG1327529 consensus Copine [Signal transduction mechanisms] 83.76
PF09967126 DUF2201: VWA-like domain (DUF2201); InterPro: IPR0 82.67
cd03819355 GT1_WavL_like This family is most closely related 82.07
PF03853169 YjeF_N: YjeF-related protein N-terminus; InterPro: 81.36
PF10221 695 DUF2151: Cell cycle and development regulator; Int 81.27
>KOG2884 consensus 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information 
Probab=100.00  E-value=1.1e-85  Score=612.05  Aligned_cols=240  Identities=61%  Similarity=0.926  Sum_probs=227.7

Q ss_pred             CCcceEEEEEeCCccccCCCCCCcHHHHHHHHHHHHHHhhhcCCCCCcEEEEEecCCCceEEECCCCCHHHHHHhhcccc
Q 016296            1 MVLEATMICIDNSEWMRNGDYSPSRLRAQADAVSLICGAKTQSNPENTVGILTMGGKGVRVLTTPTTDLGKILACMHELD   80 (392)
Q Consensus         1 m~lEa~~IvIDnSesMrngD~~PtRl~aq~dav~~fv~~k~~~NPes~VGLvtmag~~~~vlvtlT~D~~kil~~L~~i~   80 (392)
                      ||||+||||||||+|||||||.||||++|+++|+.+|..|+++||||+||||+|++..++||+|||.|+++|+++||.+.
T Consensus         1 MvlEatmi~iDNse~mrNgDy~PtRf~aQ~daVn~v~~~K~~snpEntvGiitla~a~~~vLsT~T~d~gkils~lh~i~   80 (259)
T KOG2884|consen    1 MVLEATMICIDNSEYMRNGDYLPTRFQAQKDAVNLVCQAKLRSNPENTVGIITLANASVQVLSTLTSDRGKILSKLHGIQ   80 (259)
T ss_pred             CCcceEEEEEeChHHhhcCCCChHHHHHHHHHHHHHHHhhhcCCcccceeeEeccCCCceeeeeccccchHHHHHhcCCC
Confidence            99999999999999999999999999999999999999999999999999999999889999999999999999999999


Q ss_pred             cCCcCcHHHHHHHHHHHhcccCCCCCCcEEEEEEcCCCCCChhhHHHHHHHHHhCCceEEEEEeCCCCCCcHHHHHHHHH
Q 016296           81 IGGEMNIAAGIQVAQLALKHRQNKNQRQRIIVFAGSPVKYDRKVMEMIGKKLKKNSVAIDIVNFGEDDDGKPEKLEALLA  160 (392)
Q Consensus        81 ~~G~~sL~~gL~vA~laLkhr~~k~~~~RIVvFvgSp~~~d~~~l~~~ak~LKknnI~VdiI~fG~e~~~n~~~l~~~~~  160 (392)
                      ++|+++|.+||++|+++||||++|+|++|||+|+|||+.+++++|+++||+|||++|.||||.||+.. +|+++|.+|++
T Consensus        81 ~~g~~~~~~~i~iA~lalkhRqnk~~~~riVvFvGSpi~e~ekeLv~~akrlkk~~Vaidii~FGE~~-~~~e~l~~fid  159 (259)
T KOG2884|consen   81 PHGKANFMTGIQIAQLALKHRQNKNQKQRIVVFVGSPIEESEKELVKLAKRLKKNKVAIDIINFGEAE-NNTEKLFEFID  159 (259)
T ss_pred             cCCcccHHHHHHHHHHHHHhhcCCCcceEEEEEecCcchhhHHHHHHHHHHHHhcCeeEEEEEecccc-ccHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999998 78999999999


Q ss_pred             HHcC-CCCceEEEecCCChhhhhhhhcCCcccCCCCCCCchhHHHHhhhcCCCCCCccCCCCCCCHHHHHHHHhcHHHHH
Q 016296          161 AVNN-NDSSHLVHVPTGPNALSDVLISSPVFTADGEGGSGFAAAAAAAAAGGVSDFDFGVDPNIDPELALALRVSMEEER  239 (392)
Q Consensus       161 ~vn~-~d~Sh~v~vp~g~~lLsD~l~sspi~~~~~~~~~~~~~~~~~~~~~~~~~~efgvDp~~DPELa~Alr~SlEEe~  239 (392)
                      ++|+ +++||+|+||||+ +|+|+|++|||+.||+  |++     +++.++.|.+|+|||||++|||||||||+||||||
T Consensus       160 a~N~~~~gshlv~Vppg~-~L~d~l~ssPii~ge~--g~a-----~~~~~a~g~~f~fgvdp~~DPELAlALRlSMEEer  231 (259)
T KOG2884|consen  160 ALNGKGDGSHLVSVPPGP-LLSDALLSSPIIQGED--GGA-----AAGLGANGMDFEFGVDPEDDPELALALRLSMEEER  231 (259)
T ss_pred             HhcCCCCCceEEEeCCCc-cHHHHhhcCceeccCc--ccc-----cccccccccccccCCCcccCHHHHHHHHhhHHHHH
Confidence            9999 7899999999999 8999999999999987  222     12344556789999999999999999999999999


Q ss_pred             HHHHHHHHHh
Q 016296          240 ARQEAAAKRA  249 (392)
Q Consensus       240 ~rq~~~~~~~  249 (392)
                      +|||++++++
T Consensus       232 ~rQe~aa~~~  241 (259)
T KOG2884|consen  232 ARQERAAQKA  241 (259)
T ss_pred             HHHHHHhhhc
Confidence            9999776553

>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>cd01452 VWA_26S_proteasome_subunit 26S proteasome plays a major role in eukaryotic protein breakdown, especially for ubiquitin-tagged proteins Back     alignment and domain information
>PF04056 Ssl1: Ssl1-like; InterPro: IPR007198 Ssl1-like proteins are 40 kDa subunits of the transcription factor II H complex Back     alignment and domain information
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair] Back     alignment and domain information
>cd01453 vWA_transcription_factor_IIH_type Transcription factors IIH type: TFIIH is a multiprotein complex that is one of the five general transcription factors that binds RNA polymerase II holoenzyme Back     alignment and domain information
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair] Back     alignment and domain information
>PRK13685 hypothetical protein; Provisional Back     alignment and domain information
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A Back     alignment and domain information
>cd01467 vWA_BatA_type VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF) Back     alignment and domain information
>cd01465 vWA_subgroup VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF) Back     alignment and domain information
>cd01451 vWA_Magnesium_chelatase Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto) Back     alignment and domain information
>cd01458 vWA_ku Ku70/Ku80 N-terminal domain Back     alignment and domain information
>cd01472 vWA_collagen von Willebrand factor (vWF) type A domain; equivalent to the I-domain of integrins Back     alignment and domain information
>cd01480 vWA_collagen_alpha_1-VI-type VWA_collagen alpha(VI) type: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions Back     alignment and domain information
>cd01456 vWA_ywmD_type VWA ywmD type:Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF) Back     alignment and domain information
>cd01466 vWA_C3HC4_type VWA C3HC4-type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF) Back     alignment and domain information
>cd00198 vWFA Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF) Back     alignment and domain information
>TIGR03436 acidobact_VWFA VWFA-related Acidobacterial domain Back     alignment and domain information
>cd01471 vWA_micronemal_protein Micronemal proteins: The Toxoplasma lytic cycle begins when the parasite actively invades a target cell Back     alignment and domain information
>smart00327 VWA von Willebrand factor (vWF) type A domain Back     alignment and domain information
>cd01469 vWA_integrins_alpha_subunit Integrins are a class of adhesion receptors that link the extracellular matrix to the cytoskeleton and cooperate with growth factor receptors to promote celll survival, cell cycle progression and cell migration Back     alignment and domain information
>cd01460 vWA_midasin VWA_Midasin: Midasin is a member of the AAA ATPase family Back     alignment and domain information
>cd01470 vWA_complement_factors Complement factors B and C2 are two critical proteases for complement activation Back     alignment and domain information
>cd01482 vWA_collagen_alphaI-XII-like Collagen: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions Back     alignment and domain information
>cd01461 vWA_interalpha_trypsin_inhibitor vWA_interalpha trypsin inhibitor (ITI): ITI is a glycoprotein composed of three polypeptides- two heavy chains and one light chain (bikunin) Back     alignment and domain information
>cd01450 vWFA_subfamily_ECM Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF) Back     alignment and domain information
>cd01463 vWA_VGCC_like VWA Voltage gated Calcium channel like: Voltage-gated calcium channels are a complex of five proteins: alpha 1, beta 1, gamma, alpha 2 and delta Back     alignment and domain information
>cd01477 vWA_F09G8-8_type VWA F09G8 Back     alignment and domain information
>PRK13406 bchD magnesium chelatase subunit D; Provisional Back     alignment and domain information
>cd01474 vWA_ATR ATR (Anthrax Toxin Receptor): Anthrax toxin is a key virulence factor for Bacillus anthracis, the causative agent of anthrax Back     alignment and domain information
>cd01473 vWA_CTRP CTRP for CS protein-TRAP-related protein: Adhesion of Plasmodium to host cells is an important phenomenon in parasite invasion and in malaria associated pathology Back     alignment and domain information
>cd01476 VWA_integrin_invertebrates VWA_integrin (invertebrates): Integrins are a family of cell surface receptors that have diverse functions in cell-cell and cell-extracellular matrix interactions Back     alignment and domain information
>cd01454 vWA_norD_type norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases Back     alignment and domain information
>TIGR00868 hCaCC calcium-activated chloride channel protein 1 Back     alignment and domain information
>cd01475 vWA_Matrilin VWA_Matrilin: In cartilaginous plate, extracellular matrix molecules mediate cell-matrix and matrix-matrix interactions thereby providing tissue integrity Back     alignment and domain information
>cd01464 vWA_subfamily VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF) Back     alignment and domain information
>cd01462 VWA_YIEM_type VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF) Back     alignment and domain information
>PF00092 VWA: von Willebrand factor type A domain; InterPro: IPR002035 The von Willebrand factor is a large multimeric glycoprotein found in blood plasma Back     alignment and domain information
>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D Back     alignment and domain information
>TIGR02442 Cob-chelat-sub cobaltochelatase subunit Back     alignment and domain information
>cd01455 vWA_F11C1-5a_type Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF) Back     alignment and domain information
>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional Back     alignment and domain information
>cd01481 vWA_collagen_alpha3-VI-like VWA_collagen alpha 3(VI) like: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions Back     alignment and domain information
>PF13768 VWA_3: von Willebrand factor type A domain Back     alignment and domain information
>cd01457 vWA_ORF176_type VWA ORF176 type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF) Back     alignment and domain information
>COG1240 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolism] Back     alignment and domain information
>TIGR03788 marine_srt_targ marine proteobacterial sortase target protein Back     alignment and domain information
>TIGR00627 tfb4 transcription factor tfb4 Back     alignment and domain information
>PF03731 Ku_N: Ku70/Ku80 N-terminal alpha/beta domain; InterPro: IPR005161 The Ku heterodimer (composed of Ku70 P12956 from SWISSPROT and Ku80 P13010 from SWISSPROT) contributes to genomic integrity through its ability to bind DNA double-strand breaks and facilitate repair by the non-homologous end-joining pathway Back     alignment and domain information
>TIGR00578 ku70 ATP-dependent DNA helicase ii, 70 kDa subunit (ku70) Back     alignment and domain information
>PRK10997 yieM hypothetical protein; Provisional Back     alignment and domain information
>PF10138 vWA-TerF-like: vWA found in TerF C terminus ; InterPro: IPR019303 This entry represents the N-terminal domain of a family of proteins that confer resistance to the metalloid element tellurium and its salts Back     alignment and domain information
>cd01479 Sec24-like Sec24-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles Back     alignment and domain information
>cd01468 trunk_domain trunk domain Back     alignment and domain information
>cd01478 Sec23-like Sec23-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles Back     alignment and domain information
>PF04811 Sec23_trunk: Sec23/Sec24 trunk domain; InterPro: IPR006896 COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex [] Back     alignment and domain information
>PF03850 Tfb4: Transcription factor Tfb4; InterPro: IPR004600 Members of this family are part of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair Back     alignment and domain information
>COG4245 TerY Uncharacterized protein encoded in toxicity protection region of plasmid R478, contains von Willebrand factor (vWF) domain [General function prediction only] Back     alignment and domain information
>PLN00162 transport protein sec23; Provisional Back     alignment and domain information
>PF05762 VWA_CoxE: VWA domain containing CoxE-like protein; InterPro: IPR008912 This group of proteins contains a VWA type domain and the function of this family is unknown Back     alignment and domain information
>COG2425 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only] Back     alignment and domain information
>KOG2487 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription; Replication, recombination and repair] Back     alignment and domain information
>smart00187 INB Integrin beta subunits (N-terminal portion of extracellular region) Back     alignment and domain information
>PF11265 Med25_VWA: Mediator complex subunit 25 von Willebrand factor type A; InterPro: IPR021419 The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells Back     alignment and domain information
>PTZ00395 Sec24-related protein; Provisional Back     alignment and domain information
>COG2304 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only] Back     alignment and domain information
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair] Back     alignment and domain information
>COG4867 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only] Back     alignment and domain information
>cd01459 vWA_copine_like VWA Copine: Copines are phospholipid-binding proteins originally identified in paramecium Back     alignment and domain information
>PF06707 DUF1194: Protein of unknown function (DUF1194); InterPro: IPR010607 This family consists of several hypothetical Rhizobiales specific proteins of around 270 residues in length Back     alignment and domain information
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PF02809 UIM: Ubiquitin interaction motif; InterPro: IPR003903 The Ubiquitin Interacting Motif (UIM), or 'LALAL-motif', is a stretch of about 20 amino acid residues, which was first described in the 26S proteasome subunit PSD4/RPN-10 that is known to recognise ubiquitin [,] Back     alignment and domain information
>KOG2326 consensus DNA-binding subunit of a DNA-dependent protein kinase (Ku80 autoantigen) [Replication, recombination and repair] Back     alignment and domain information
>PF02809 UIM: Ubiquitin interaction motif; InterPro: IPR003903 The Ubiquitin Interacting Motif (UIM), or 'LALAL-motif', is a stretch of about 20 amino acid residues, which was first described in the 26S proteasome subunit PSD4/RPN-10 that is known to recognise ubiquitin [,] Back     alignment and domain information
>smart00726 UIM Ubiquitin-interacting motif Back     alignment and domain information
>COG1721 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only] Back     alignment and domain information
>KOG1986 consensus Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PF00362 Integrin_beta: Integrin, beta chain; InterPro: IPR002369 Integrins are the major metazoan receptors for cell adhesion to extracellular matrix proteins and, in vertebrates, also play important roles in certain cell-cell adhesions, make transmembrane connections to the cytoskeleton and activate many intracellular signalling pathways [, ] Back     alignment and domain information
>PF07002 Copine: Copine; InterPro: IPR010734 This represents a conserved region approximately 180 residues long within eukaryotic copines Back     alignment and domain information
>KOG2353 consensus L-type voltage-dependent Ca2+ channel, alpha2/delta subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms] Back     alignment and domain information
>smart00726 UIM Ubiquitin-interacting motif Back     alignment and domain information
>PF11775 CobT_C: Cobalamin biosynthesis protein CobT VWA domain Back     alignment and domain information
>COG5028 Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion] Back     alignment and domain information
>TIGR01651 CobT cobaltochelatase, CobT subunit Back     alignment and domain information
>PF11443 DUF2828: Domain of unknown function (DUF2828); InterPro: IPR024553 This uncharacterised domain is found in eukaryotic, bacterial and viral proteins Back     alignment and domain information
>KOG1327 consensus Copine [Signal transduction mechanisms] Back     alignment and domain information
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function Back     alignment and domain information
>cd03819 GT1_WavL_like This family is most closely related to the GT1 family of glycosyltransferases Back     alignment and domain information
>PF03853 YjeF_N: YjeF-related protein N-terminus; InterPro: IPR004443 The YjeF N-terminal domains occur either as single proteins or fusions with other domains and are commonly associated with enzymes Back     alignment and domain information
>PF10221 DUF2151: Cell cycle and development regulator; InterPro: IPR019355 This entry represents the cell cycle regulator Mat89b, which plays an evolutionarily conserved role as a crucial regulator of both cell cycle and development [] Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query392
4b4t_W268 Near-Atomic Resolution Structural Model Of The Yeas 6e-53
2x5n_A192 Crystal Structure Of The Sprpn10 Vwa Domain Length 3e-49
>pdb|4B4T|W Chain W, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 268 Back     alignment and structure 
Iteration: 1

 Score =  204 bits (519), Expect = 6e-53,   Method: Compositional matrix adjust.
 Identities = 108/237 (45%), Positives = 147/237 (62%), Gaps = 3/237 (1%)
Query: 1   MVLEATMICIDNSEWMRNGDYSPSRLRAQADAVSLICGAKTQSNPENTVGILTMGGKGVR 60
           MVLEAT++ IDNSE+ RNGD+  +R  AQ D+V  I  AK  SNPENTVG+++  G   R
Sbjct: 1   MVLEATVLVIDNSEYSRNGDFPRTRFEAQIDSVEFIFQAKRNSNPENTVGLISGAGANPR 60
Query: 61  VLTTPTTDLGKILACMHELDIGGEMNIAAGIQVAQLALKHRQNKNQRQRIIVFAGSPVKY 120
           VL+T T + GKILA +H+  I G++++A  +Q+AQL LKHRQNK Q QRI+ F  SP+  
Sbjct: 61  VLSTFTAEFGKILAGLHDTQIEGKLHMATALQIAQLTLKHRQNKVQHQRIVAFVCSPISD 120
Query: 121 DRKVMEMIGKKLKKNSVAIDIVNFGEDDDGKPEKLEALLAAVNN--NDSSHLVHVPTGPN 178
            R  +  + K LKKN+VA+DI+NFGE +    E L+  +AAVNN   ++SHL+ V  GP 
Sbjct: 121 SRDELIRLAKTLKKNNVAVDIINFGEIEQNT-ELLDEFIAAVNNPQEETSHLLTVTPGPR 179
Query: 179 ALSDVLISSPVFTXXXXXXXXXXXXXXXXXXXXXXXXXXXVDPNIDPELALALRVSM 235
            L + + SSP+                             VDP++DPELA+ALR+SM
Sbjct: 180 LLYENIASSPIILEEGSSGMGAFGGSGGDSDANGTFMDFGVDPSMDPELAMALRLSM 236
>pdb|2X5N|A Chain A, Crystal Structure Of The Sprpn10 Vwa Domain Length = 192 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query392
2x5n_A192 SPRPN10, 26S proteasome regulatory subunit RPN10; 2e-75
1yx4_A132 26S proteasome non-ATPase regulatory subunit 4; po 2e-16
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-08
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 4e-06
2x31_A189 Magnesium-chelatase 60 kDa subunit; ligase, bacter 7e-06
1jey_B 565 KU80; double-strand DNA break repair, non-homologo 4e-05
1jey_A 609 KU70; double-strand DNA break repair, non-homologo 1e-04
3ibs_A218 Conserved hypothetical protein BATB; structural ge 8e-04
>2x5n_A SPRPN10, 26S proteasome regulatory subunit RPN10; nuclear protein, nucleus, ubiquitin; 1.30A {Schizosaccharomyces pombe} Length = 192 Back     alignment and structure
 Score =  231 bits (591), Expect = 2e-75
 Identities = 95/193 (49%), Positives = 125/193 (64%), Gaps = 2/193 (1%)

Query: 2   VLEATMICIDNSEWMRNGDYSPSRLRAQADAVSLICGAKTQSNPENTVGILTMGGKGVRV 61
           VLEATMI IDNSEWM NGDY P+R  AQ D V +I   K   NPEN  G++T+G    +V
Sbjct: 1   VLEATMILIDNSEWMINGDYIPTRFEAQKDTVHMIFNQKINDNPENMCGLMTIGDNSPQV 60

Query: 62  LTTPTTDLGKILACMHELDIGGEMNIAAGIQVAQLALKHRQNKNQRQRIIVFAGSPVKYD 121
           L+T T D GK L+ MH+L + G      GIQ+AQLALKHR+NK QRQRI+ F GSP+  D
Sbjct: 61  LSTLTRDYGKFLSAMHDLPVRGNAKFGDGIQIAQLALKHRENKIQRQRIVAFVGSPIVED 120

Query: 122 RKVMEMIGKKLKKNSVAIDIVNFGEDDDGKPEKLEALLAAVNNNDSSHLVHVPTGPNALS 181
            K +  + K++KKN+VAIDI++ GE  +     L+  + A N++DS HLV +P  P  LS
Sbjct: 121 EKNLIRLAKRMKKNNVAIDIIHIGELQN--ESALQHFIDAANSSDSCHLVSIPPSPQLLS 178

Query: 182 DVLISSPVFTADG 194
           D++  SP+     
Sbjct: 179 DLVNQSPIGQGVV 191
>1yx4_A 26S proteasome non-ATPase regulatory subunit 4; polyubiquitin, UIM, hydrolase; NMR {Homo sapiens} PDB: 1yx5_A 1yx6_A 2kde_A 2kdf_A Length = 132 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>2x31_A Magnesium-chelatase 60 kDa subunit; ligase, bacteriochlorophyll biosynthesis, photosynthesis; 7.50A {Rhodobacter capsulatus} Length = 189 Back     alignment and structure
>1jey_B KU80; double-strand DNA break repair, non-homologous END-joining, protein/nucleic acid complex, alpha/beta domain, beta barrel; HET: DNA; 2.50A {Homo sapiens} SCOP: b.131.1.2 c.62.1.4 PDB: 1jeq_B* Length = 565 Back     alignment and structure
>1jey_A KU70; double-strand DNA break repair, non-homologous END-joining, protein/nucleic acid complex, alpha/beta domain, beta barrel; HET: DNA; 2.50A {Homo sapiens} SCOP: b.131.1.1 c.62.1.3 PDB: 1jeq_A* 3rzx_B Length = 609 Back     alignment and structure
>3ibs_A Conserved hypothetical protein BATB; structural genomics, protein structure, midwest center for S genomics, MCSG, PSI-2; HET: MSE; 2.10A {Bacteroides thetaiotaomicron} Length = 218 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query392
4b4t_W268 RPN10, 26S proteasome regulatory subunit RPN10; hy 100.0
2x5n_A192 SPRPN10, 26S proteasome regulatory subunit RPN10; 100.0
1yx4_A132 26S proteasome non-ATPase regulatory subunit 4; po 99.94
1jey_B 565 KU80; double-strand DNA break repair, non-homologo 99.84
3ibs_A218 Conserved hypothetical protein BATB; structural ge 99.82
1atz_A189 VON willebrand factor; collagen-binding, hemostasi 99.65
1shu_X182 Anthrax toxin receptor 2; alpha/beta rossmann fold 99.65
1ijb_A202 VON willebrand factor; dinucleotide-binding fold, 99.65
1q0p_A223 Complement factor B; VON willebrand factor, MAC-1, 99.63
1jey_A 609 KU70; double-strand DNA break repair, non-homologo 99.62
2xgg_A178 Microneme protein 2; A/I domain, cell adhesion, hy 99.62
3n2n_F185 Anthrax toxin receptor 1; rossmann fold; 1.80A {Ho 99.59
4hqo_A266 Sporozoite surface protein 2; malaria, gliding mot 99.59
4hqf_A281 Thrombospondin-related anonymous protein, trap; ma 99.58
1mf7_A194 Integrin alpha M; cell adhesion; 1.25A {Homo sapie 99.58
2b2x_A223 Integrin alpha-1; computational design, antibody-a 99.57
4fx5_A464 VON willebrand factor type A; structural genomics, 99.57
1v7p_C200 Integrin alpha-2; snake venom, C-type lectin, anta 99.56
1n3y_A198 Integrin alpha-X; alpha/beta rossmann fold, cell a 99.56
2x31_A189 Magnesium-chelatase 60 kDa subunit; ligase, bacter 99.53
1pt6_A213 Integrin alpha-1; cell adhesion; 1.87A {Homo sapie 99.53
1rrk_A497 Complement factor B; BB, hydrolase; 2.00A {Homo sa 99.49
2odp_A509 Complement C2; C3/C5 convertase, complement serin 99.44
3hrz_D741 Complement factor B; serine protease, glycosilated 99.38
3zqk_A199 VON willebrand factor; blood clotting, adamts-13, 99.34
1mjn_A179 Integrin alpha-L; rossmann fold, immune system; 1. 99.2
3k6s_A 1095 Integrin alpha-X; cell receptor, adhesion molecule 99.17
1yvr_A538 RO autoantigen, 60-kDa SS-A/RO ribonucleoprotein, 98.8
2ww8_A 893 RRGA, cell WALL surface anchor family protein; IGG 98.67
2nvo_A535 RO sixty-related protein, RSR; alpha helical repea 98.52
3rag_A242 Uncharacterized protein; structural genomics, PSI- 98.49
2nut_A 769 Protein transport protein SEC23A; human copii SEC2 98.48
2iue_A212 Pactolus I-domain; membrane protein, CD, ITC, limb 98.36
1pcx_A 810 Protein transport protein SEC24; 2.50A {Saccharomy 98.2
1m2o_A 768 SEC23, protein transport protein SEC23, SEC23P; zi 98.08
1m2v_B 926 SEC24, protein transport protein SEC24, SEC24P, SE 98.08
2klz_A52 Ataxin-3; UIM, ubiquitin-binding, hydrolase, neuro 97.74
3fcs_B 690 Integrin beta-3; beta propeller, rossmann fold, EG 97.69
3eh2_A 766 Protein transport protein SEC24C; copii-coat prote 97.66
3eh1_A 751 Protein transport protein SEC24B; copii coat prote 97.63
3efo_B 770 SEC24 related gene family, member D; copii, coat p 97.57
3k6s_B 687 Integrin beta-2; cell receptor, adhesion molecule, 97.4
3vi3_B454 Integrin beta-1; beta propeller fold, rossman fold 97.28
3t3p_B472 Integrin beta-3; integrin, cell adhesion, blood cl 97.13
3v4v_B503 Integrin beta-7; cell adhesion, madcam-1, membrane 96.93
1p9c_A45 26S proteasome non-ATPase regulatory subunit 4; al 96.86
3rag_A242 Uncharacterized protein; structural genomics, PSI- 96.77
1q0v_A81 Hydrophilic protein; has cysteine rich putative zi 95.78
2klz_A52 Ataxin-3; UIM, ubiquitin-binding, hydrolase, neuro 94.45
1q0v_A81 Hydrophilic protein; has cysteine rich putative zi 93.54
1yx4_A132 26S proteasome non-ATPase regulatory subunit 4; po 93.21
3a1q_C45 Ubiquitin interaction motif-containing protein 1; 91.91
2rr9_C46 Putative uncharacterized protein UIMC1; Lys63-link 91.37
3a1q_C45 Ubiquitin interaction motif-containing protein 1; 82.67
3qhp_A166 Type 1 capsular polysaccharide biosynthesis prote 82.07
2rr9_C46 Putative uncharacterized protein UIMC1; Lys63-link 81.82
>4b4t_W RPN10, 26S proteasome regulatory subunit RPN10; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae} Back     alignment and structure
Probab=100.00  E-value=3.9e-78  Score=583.12  Aligned_cols=251  Identities=48%  Similarity=0.751  Sum_probs=189.9

Q ss_pred             CCcceEEEEEeCCccccCCCCCCcHHHHHHHHHHHHHHhhhcCCCCCcEEEEEecCCCceEEECCCCCHHHHHHhhcccc
Q 016296            1 MVLEATMICIDNSEWMRNGDYSPSRLRAQADAVSLICGAKTQSNPENTVGILTMGGKGVRVLTTPTTDLGKILACMHELD   80 (392)
Q Consensus         1 m~lEa~~IvIDnSesMrngD~~PtRl~aq~dav~~fv~~k~~~NPes~VGLvtmag~~~~vlvtlT~D~~kil~~L~~i~   80 (392)
                      |||||||||||+|.||+++||.||||+++++|++.|++.|+++||+++||||+|+|+.+.|++|||+|+++|+.+||+++
T Consensus         1 m~lEAtViviD~S~SM~~~D~~PsRl~a~k~Av~~li~~~~~~nPed~VGLVtfag~~~~vl~plT~D~~~il~aL~~l~   80 (268)
T 4b4t_W            1 MVLEATVLVIDNSEYSRNGDFPRTRFEAQIDSVEFIFQAKRNSNPENTVGLISGAGANPRVLSTFTAEFGKILAGLHDTQ   80 (268)
T ss_dssp             CCCEEEEEEECCSSTTSSTTSSSCHHHHHHHHHHHHHHHHHHHCTTCEEEEEECCTTSCEEEEEEESCHHHHHHHHTTCC
T ss_pred             CCceeEEEEEECCHHHhCCCCCCcHHHHHHHHHHHHHHHHhhCCCcceEEEEEecCCcceeccCCcchHHHHHHHhhhcC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCcCcHHHHHHHHHHHhcccCCCCCCcEEEEEEcCCCCCChhhHHHHHHHHHhCCceEEEEEeCCCCCCcHHHHHHHHH
Q 016296           81 IGGEMNIAAGIQVAQLALKHRQNKNQRQRIIVFAGSPVKYDRKVMEMIGKKLKKNSVAIDIVNFGEDDDGKPEKLEALLA  160 (392)
Q Consensus        81 ~~G~~sL~~gL~vA~laLkhr~~k~~~~RIVvFvgSp~~~d~~~l~~~ak~LKknnI~VdiI~fG~e~~~n~~~l~~~~~  160 (392)
                      ++|.++|.+||++|+++||||+++++++|||||++|+.+++++++++++|++||+||+|+|||||+.. .|.++|++|++
T Consensus        81 ~~G~T~l~~gL~~A~~aLk~~~~k~~~~rIIlf~ds~~~~~~~~l~~lak~lkk~gI~v~vIgFG~~~-~n~~kLe~l~~  159 (268)
T 4b4t_W           81 IEGKLHMATALQIAQLTLKHRQNKVQHQRIVAFVCSPISDSRDELIRLAKTLKKNNVAVDIINFGEIE-QNTELLDEFIA  159 (268)
T ss_dssp             CCSCCCHHHHHHHHHHHHHTCSCTTSEEEEEEEECSCCSSCHHHHHHHHHHHHHHTEEEEEEEESSCC-SSCCHHHHHHH
T ss_pred             cCCCCChHHHHHHHHHHHHhcccCCCceEEEEEECCCCCCCHHHHHHHHHHHHHcCCEEEEEEeCCCc-cchHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999988 79999999999


Q ss_pred             HHcC--CCCceEEEecCCChhhhhhhhcCCcccCCCCCCCchhHHHHhhhcCCCCCCccCCCCCCCHHHHHHHHhcHHHH
Q 016296          161 AVNN--NDSSHLVHVPTGPNALSDVLISSPVFTADGEGGSGFAAAAAAAAAGGVSDFDFGVDPNIDPELALALRVSMEEE  238 (392)
Q Consensus       161 ~vn~--~d~Sh~v~vp~g~~lLsD~l~sspi~~~~~~~~~~~~~~~~~~~~~~~~~~efgvDp~~DPELa~Alr~SlEEe  238 (392)
                      ++|+  +++||||+||||+++|||.|++|||+.|++.++.+++++++|++++++++|||||||++|||||||||||||||
T Consensus       160 ~~Ng~~~~~s~~v~v~~g~~~lsd~l~~s~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dp~~dpela~alr~s~eee  239 (268)
T 4b4t_W          160 AVNNPQEETSHLLTVTPGPRLLYENIASSPIILEEGSSGMGAFGGSGGDSDANGTFMDFGVDPSMDPELAMALRLSMEEE  239 (268)
T ss_dssp             HHCSSTTTSCEEEEECCCSSCHHHHHHTSTTSCCCCC-------------------------------------------
T ss_pred             HhcCCCCCceeEEEeCCCCccHHHHHhcCCccccCCccccccccccccccccCCcccccCCCCCCCHHHHHHHHHhHHHH
Confidence            9998  57999999999999999999999999998743333222333444556678999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhh
Q 016296          239 RARQEAAAKRAADE  252 (392)
Q Consensus       239 ~~rq~~~~~~~~~~  252 (392)
                      |+|||++++++.+.
T Consensus       240 ~~rq~~~~~~~~~~  253 (268)
T 4b4t_W          240 QQRQERLRQQQQQQ  253 (268)
T ss_dssp             --------------
T ss_pred             HHHHHHHhhccccc
Confidence            99999998776543
>2x5n_A SPRPN10, 26S proteasome regulatory subunit RPN10; nuclear protein, nucleus, ubiquitin; 1.30A {Schizosaccharomyces pombe} Back     alignment and structure
>1yx4_A 26S proteasome non-ATPase regulatory subunit 4; polyubiquitin, UIM, hydrolase; NMR {Homo sapiens} PDB: 1yx5_A 1yx6_A 2kde_A 2kdf_A Back     alignment and structure
>1jey_B KU80; double-strand DNA break repair, non-homologous END-joining, protein/nucleic acid complex, alpha/beta domain, beta barrel; HET: DNA; 2.50A {Homo sapiens} SCOP: b.131.1.2 c.62.1.4 PDB: 1jeq_B* Back     alignment and structure
>3ibs_A Conserved hypothetical protein BATB; structural genomics, protein structure, midwest center for S genomics, MCSG, PSI-2; HET: MSE; 2.10A {Bacteroides thetaiotaomicron} Back     alignment and structure
>1atz_A VON willebrand factor; collagen-binding, hemostasis, dinucleotide binding fold; 1.80A {Homo sapiens} SCOP: c.62.1.1 PDB: 4dmu_B 2adf_A 1fe8_A 1ao3_A Back     alignment and structure
>1shu_X Anthrax toxin receptor 2; alpha/beta rossmann fold, membrane protein; 1.50A {Homo sapiens} SCOP: c.62.1.1 PDB: 1tzn_a 1sht_X 1t6b_Y* Back     alignment and structure
>1ijb_A VON willebrand factor; dinucleotide-binding fold, blood clotting; 1.80A {Homo sapiens} SCOP: c.62.1.1 PDB: 1ijk_A 1auq_A 1u0n_A 3hxo_A 1uex_C 3hxq_A 1sq0_A 1m10_A 1fns_A 1oak_A 1u0o_C Back     alignment and structure
>1q0p_A Complement factor B; VON willebrand factor, MAC-1, I domain, A domain, hydrolase; 1.80A {Homo sapiens} SCOP: c.62.1.1 Back     alignment and structure
>1jey_A KU70; double-strand DNA break repair, non-homologous END-joining, protein/nucleic acid complex, alpha/beta domain, beta barrel; HET: DNA; 2.50A {Homo sapiens} SCOP: b.131.1.1 c.62.1.3 PDB: 1jeq_A* 3rzx_B Back     alignment and structure
>2xgg_A Microneme protein 2; A/I domain, cell adhesion, hydrolase; 2.05A {Toxoplasma gondii} Back     alignment and structure
>3n2n_F Anthrax toxin receptor 1; rossmann fold; 1.80A {Homo sapiens} SCOP: c.62.1.1 Back     alignment and structure
>4hqo_A Sporozoite surface protein 2; malaria, gliding motility, VWA domain, TSR domain, extensibl ribbon, receptor on sporozoite, vaccine target; HET: FUC BGC; 2.19A {Plasmodium vivax} PDB: 4hql_A* 4hqn_A* Back     alignment and structure
>4hqf_A Thrombospondin-related anonymous protein, trap; malaria, parasite motility, I domain, TSR domain, receptor O sporozoite, vaccine target; 2.20A {Plasmodium falciparum} PDB: 4hqk_A 2bbx_A Back     alignment and structure
>1mf7_A Integrin alpha M; cell adhesion; 1.25A {Homo sapiens} SCOP: c.62.1.1 PDB: 1na5_A 1jlm_A 1ido_A 1m1u_A 3q3g_G 1n9z_A 1bhq_1 1bho_1 1idn_1 3qa3_G Back     alignment and structure
>2b2x_A Integrin alpha-1; computational design, antibody-antigen complex, immune syste; 2.20A {Rattus norvegicus} SCOP: c.62.1.1 Back     alignment and structure
>4fx5_A VON willebrand factor type A; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, blood clotting; HET: MSE; 1.73A {Catenulispora acidiphila} Back     alignment and structure
>1v7p_C Integrin alpha-2; snake venom, C-type lectin, antagonist, cell adhes glycoprotein, toxin-cell adhesion complex; HET: NAG; 1.90A {Homo sapiens} SCOP: c.62.1.1 PDB: 1aox_A 1dzi_A Back     alignment and structure
>1n3y_A Integrin alpha-X; alpha/beta rossmann fold, cell adhesion; 1.65A {Homo sapiens} SCOP: c.62.1.1 Back     alignment and structure
>2x31_A Magnesium-chelatase 60 kDa subunit; ligase, bacteriochlorophyll biosynthesis, photosynthesis; 7.50A {Rhodobacter capsulatus} Back     alignment and structure
>1pt6_A Integrin alpha-1; cell adhesion; 1.87A {Homo sapiens} SCOP: c.62.1.1 PDB: 4a0q_A 1qcy_A 1qc5_A 1qc5_B 1ck4_A 1mhp_A Back     alignment and structure
>1rrk_A Complement factor B; BB, hydrolase; 2.00A {Homo sapiens} SCOP: b.47.1.2 c.62.1.1 PDB: 1rs0_A* 1rtk_A* 2win_I* 1dle_A Back     alignment and structure
>2odp_A Complement C2; C3/C5 convertase, complement serin protease, human complement system, glycoprotein, SP, VWFA,; HET: NAG; 1.90A {Homo sapiens} PDB: 2odq_A* 2i6q_A* 2i6s_A* Back     alignment and structure
>3hrz_D Complement factor B; serine protease, glycosilated, multi-domain, complement SYST convertase, complement alternate pathway; HET: NAG P6G; 2.20A {Homo sapiens} PDB: 2xwj_I* 3hs0_D* 2ok5_A* 2xwb_F* Back     alignment and structure
>3zqk_A VON willebrand factor; blood clotting, adamts-13, force sensor, VON willebrand DISE domain, haemostasis; HET: NAG; 1.70A {Homo sapiens} PDB: 3ppv_A 3ppx_A 3ppw_A 3ppy_A 3gxb_A* Back     alignment and structure
>1mjn_A Integrin alpha-L; rossmann fold, immune system; 1.30A {Homo sapiens} SCOP: c.62.1.1 PDB: 3hi6_A 1mq8_B* 3eoa_I 3eob_I 1rd4_A* 1lfa_A 1zon_A 1zoo_A 1zop_A 1dgq_A 1xdd_A* 1xdg_A* 1xuo_A* 3e2m_A* 3bqn_B* 1cqp_A* 3bqm_B* 2ica_A* 2o7n_A* 3m6f_A* ... Back     alignment and structure
>3k6s_A Integrin alpha-X; cell receptor, adhesion molecule, cell adhesion, pyrrolidone carboxylic acid; HET: NAG MAN; 3.50A {Homo sapiens} PDB: 3k71_A* 3k72_A* Back     alignment and structure
>1yvr_A RO autoantigen, 60-kDa SS-A/RO ribonucleoprotein, 60 kDa; heat repeat, VON willebrand factor A, rossmann fold, midas motif', RNA binding protein; 1.95A {Xenopus laevis} SCOP: a.118.25.1 c.62.1.5 PDB: 1yvp_A 2i91_A Back     alignment and structure
>2ww8_A RRGA, cell WALL surface anchor family protein; IGG, pilus, CNA_B, adhesin, integrin, cell adhesion; HET: EPE; 1.90A {Streptococcus pneumoniae} Back     alignment and structure
>2nvo_A RO sixty-related protein, RSR; alpha helical repeats, VON willebrand factor A domain, beta- RNA binding protein; 1.89A {Deinococcus radiodurans} Back     alignment and structure
>3rag_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tructural genomics; 1.80A {Alicyclobacillus acidocaldarius subsp} Back     alignment and structure
>2nut_A Protein transport protein SEC23A; human copii SEC23/24 complexed with SEC22, protein transport; 2.30A {Homo sapiens} PDB: 2nup_A 3egd_A 3eg9_A 3egx_A 3efo_A Back     alignment and structure
>2iue_A Pactolus I-domain; membrane protein, CD, ITC, limbs, midas, admidas, membrane, integrin, titration, rossman fold, cell adhesion, transmembrane; NMR {Mus musculus} Back     alignment and structure
>1pcx_A Protein transport protein SEC24; 2.50A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 PDB: 1pd0_A 1pd1_A Back     alignment and structure
>1m2o_A SEC23, protein transport protein SEC23, SEC23P; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 PDB: 1m2v_A 2qtv_A* Back     alignment and structure
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Back     alignment and structure
>2klz_A Ataxin-3; UIM, ubiquitin-binding, hydrolase, neurodegenerati nucleus, phosphoprotein, spinocerebellar ataxia, transcript transcription regulation; NMR {Homo sapiens} Back     alignment and structure
>3fcs_B Integrin beta-3; beta propeller, rossmann fold, EGF domain, cell adhesion, DI mutation, glycoprotein, HOST-virus interaction, M phosphoprotein; HET: NAG MAN; 2.55A {Homo sapiens} PDB: 4g1e_B* 3ije_B* 4g1m_B* 1jv2_B* 1l5g_B* 1m1x_B* 1u8c_B* Back     alignment and structure
>3eh2_A Protein transport protein SEC24C; copii-coat protein, vesicle transport, cytoplasm, endoplasmic reticulum, ER-golgi transport, golgi apparatus; 2.35A {Homo sapiens} Back     alignment and structure
>3eh1_A Protein transport protein SEC24B; copii coat protein, vesicle transport, transport signal sequence, cytoplasm, endoplasmic reticulum; 1.80A {Homo sapiens} PDB: 2nut_B 2nup_B 3egd_B 3egx_B Back     alignment and structure
>3efo_B SEC24 related gene family, member D; copii, coat protein, transport signal, disease mutation, endoplasmic reticulum, ER-golgi transport, golgi apparatus, membrane; 2.70A {Homo sapiens} PDB: 3eg9_B Back     alignment and structure
>3k6s_B Integrin beta-2; cell receptor, adhesion molecule, cell adhesion, pyrrolidone carboxylic acid; HET: NAG MAN; 3.50A {Homo sapiens} PDB: 3k71_B* 3k72_B* Back     alignment and structure
>3vi3_B Integrin beta-1; beta propeller fold, rossman fold, beta sandwich, fibronecti receptor, cell adhesion-immune system complex; HET: NAG BMA MAN; 2.90A {Homo sapiens} PDB: 3vi4_B* Back     alignment and structure
>3t3p_B Integrin beta-3; integrin, cell adhesion, blood clotting, fibrinogen, platele; HET: NAG BMA MAN; 2.20A {Homo sapiens} PDB: 3t3m_B* 3nig_B* 3nif_B* 3nid_B* 2vdr_B* 2vc2_B* 2vdk_B* 2vdm_B* 2vdn_B* 2vdl_B* 2vdp_B* 2vdq_B* 2vdo_B* 3fcu_B* 1txv_B* 1ty3_B* 1ty5_B* 1ty6_B* 1ty7_B* 1tye_B* Back     alignment and structure
>3v4v_B Integrin beta-7; cell adhesion, madcam-1, membrane; HET: NAG BMA MAN 0DU; 3.10A {Homo sapiens} PDB: 3v4p_B* Back     alignment and structure
>1p9c_A 26S proteasome non-ATPase regulatory subunit 4; alpha helix, hairpin loop, ligand binding protein; NMR {Homo sapiens} SCOP: j.105.1.1 PDB: 1p9d_S 1uel_B Back     alignment and structure
>3rag_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tructural genomics; 1.80A {Alicyclobacillus acidocaldarius subsp} Back     alignment and structure
>1q0v_A Hydrophilic protein; has cysteine rich putative zinc finger esential for function;...; stable, non-interacting alpha-helices; NMR {Saccharomyces cerevisiae} SCOP: j.105.1.1 PDB: 1q0w_A Back     alignment and structure
>2klz_A Ataxin-3; UIM, ubiquitin-binding, hydrolase, neurodegenerati nucleus, phosphoprotein, spinocerebellar ataxia, transcript transcription regulation; NMR {Homo sapiens} Back     alignment and structure
>1q0v_A Hydrophilic protein; has cysteine rich putative zinc finger esential for function;...; stable, non-interacting alpha-helices; NMR {Saccharomyces cerevisiae} SCOP: j.105.1.1 PDB: 1q0w_A Back     alignment and structure
>1yx4_A 26S proteasome non-ATPase regulatory subunit 4; polyubiquitin, UIM, hydrolase; NMR {Homo sapiens} PDB: 1yx5_A 1yx6_A 2kde_A 2kdf_A Back     alignment and structure
>3a1q_C Ubiquitin interaction motif-containing protein 1; protein complex, cytoplasm, nucleus, phosphoprotein, UBL conjugation, transcription regulation; 2.20A {Mus musculus} Back     alignment and structure
>2rr9_C Putative uncharacterized protein UIMC1; Lys63-linked diubiquitin, ubiquitin-interacting motif, ubiqu RAP80, DNA repair, nuclear protein; NMR {Homo sapiens} Back     alignment and structure
>3a1q_C Ubiquitin interaction motif-containing protein 1; protein complex, cytoplasm, nucleus, phosphoprotein, UBL conjugation, transcription regulation; 2.20A {Mus musculus} Back     alignment and structure
>3qhp_A Type 1 capsular polysaccharide biosynthesis prote (CAPJ); rossmann fold, glycosyltransferase, transferase; 1.50A {Helicobacter pylori} Back     alignment and structure
>2rr9_C Putative uncharacterized protein UIMC1; Lys63-linked diubiquitin, ubiquitin-interacting motif, ubiqu RAP80, DNA repair, nuclear protein; NMR {Homo sapiens} Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 392
d1jeyb2236 c.62.1.4 (B:6-241) Ku80 subunit N-terminal domain 1e-18
d1jeya2220 c.62.1.3 (A:34-253) Ku70 subunit N-terminal domain 5e-10
>d1jeyb2 c.62.1.4 (B:6-241) Ku80 subunit N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 236 Back     information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Ku80 subunit N-terminal domain
domain: Ku80 subunit N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 81.9 bits (201), Expect = 1e-18
 Identities = 18/168 (10%), Positives = 52/168 (30%), Gaps = 18/168 (10%)

Query: 4   EATMICIDNSEWM-RNGDYSPSRLRAQADAVSLICGAKTQSNPENTVGILTMGGKG---- 58
            A ++C+D    M  +     S        +++    +  +  ++ + ++  G  G    
Sbjct: 3   AAVVLCMDVGFTMSNSIPGIESPFEQAKKVITMFVQRQVFAENKDEIALVLFGTDGTDNP 62

Query: 59  ---------VRVLTTPTTDLGKILACMHELDIGGEMNI----AAGIQVAQLALKHRQNKN 105
                    + V          +L  +      G        A  + +  +  +    K 
Sbjct: 63  LSGGDQYQNITVHRHLMLPDFDLLEDIESKIQPGSQQADFLDALIVSMDVIQHETIGKKF 122

Query: 106 QRQRIIVFAGSPVKYDRKVMEMIGKKLKKNSVAIDIVNFGEDDDGKPE 153
           +++ I +F     ++ +  +++I   LKK  +++              
Sbjct: 123 EKRHIEIFTDLSSRFSKSQLDIIIHSLKKCDISLQFFLPFSLGKEDGS 170
>d1jeya2 c.62.1.3 (A:34-253) Ku70 subunit N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 220 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query392
d1jeyb2236 Ku80 subunit N-terminal domain {Human (Homo sapien 99.78
d1jeya2220 Ku70 subunit N-terminal domain {Human (Homo sapien 99.67
d1shux_181 Capillary morphogenesis protein 2 domain {Human (H 99.57
d1atza_184 von Willebrand factor A3 domain, vWA3 {Human (Homo 99.47
d1n3ya_189 Integrin alpha-x beta2 {Human (Homo sapiens) [TaxI 99.44
d1ijba_202 von Willebrand factor A1 domain, vWA1 {Human (Homo 99.42
d1q0pa_209 Complement factor B domain {Human (Homo sapiens) [ 99.37
d1mf7a_194 Integrin alpha M (CR3, CD11b/CD18, Mac-1 alpha sub 99.33
d1v7pc_193 Integrin alpha2-beta1 {Human (Homo sapiens) [TaxId 99.32
d1pt6a_192 Integrin alpha1-beta1 {Human (Homo sapiens) [TaxId 99.3
d1mjna_179 Integrin CD11a/CD18 (Leukocyte function associated 98.98
d1yvra2174 60-kda SS-A/Ro ribonucleoprotein, RoRNP {African c 98.92
d1tyeb2248 Integrin beta A domain {Human (Homo sapiens) [TaxI 98.85
d1pd0a3252 Sec24 {Baker's yeast (Saccharomyces cerevisiae) [T 98.56
d2qtva3271 Sec23 {Baker's yeast (Saccharomyces cerevisiae) [T 98.34
>d1jeyb2 c.62.1.4 (B:6-241) Ku80 subunit N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Ku80 subunit N-terminal domain
domain: Ku80 subunit N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=1.8e-18  Score=155.27  Aligned_cols=145  Identities=13%  Similarity=0.206  Sum_probs=120.0

Q ss_pred             ceEEEEEeCCccccCCCCC-CcHHHHHHHHHHHHHHhhhcCCCCCcEEEEEecCCC-------------ceEEECCCCCH
Q 016296            4 EATMICIDNSEWMRNGDYS-PSRLRAQADAVSLICGAKTQSNPENTVGILTMGGKG-------------VRVLTTPTTDL   69 (392)
Q Consensus         4 Ea~~IvIDnSesMrngD~~-PtRl~aq~dav~~fv~~k~~~NPes~VGLvtmag~~-------------~~vlvtlT~D~   69 (392)
                      ||+|||||+|.||...|.. ||||+++++++..|++.++..+|..+||||.|++..             ..++.+++...
T Consensus         3 ~aiv~~lD~S~SM~~~~~~~~srl~~ak~~~~~~v~~~~~~~~~d~vglV~f~~~~t~~~~~~~~~~~~i~~~~~~~~~~   82 (236)
T d1jeyb2           3 AAVVLCMDVGFTMSNSIPGIESPFEQAKKVITMFVQRQVFAENKDEIALVLFGTDGTDNPLSGGDQYQNITVHRHLMLPD   82 (236)
T ss_dssp             EEEEEEEECCGGGGCCBTTBCCHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESCSSCBSTTCTTTCSTTEEEEEEEECCC
T ss_pred             ceEEEEEECChhhccCCCCCCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEcCCCcccccccccccceEEEEeccccch
Confidence            7999999999999988765 899999999999999999999999999999999764             24566666666


Q ss_pred             HHHHHhhcccc--cCCcCcHHHHHHHHHHHhccc--CCCCCCcEEEEEEcCCCCCChhhHHHHHHHHHhCCceEEEEEeC
Q 016296           70 GKILACMHELD--IGGEMNIAAGIQVAQLALKHR--QNKNQRQRIIVFAGSPVKYDRKVMEMIGKKLKKNSVAIDIVNFG  145 (392)
Q Consensus        70 ~kil~~L~~i~--~~G~~sL~~gL~vA~laLkhr--~~k~~~~RIVvFvgSp~~~d~~~l~~~ak~LKknnI~VdiI~fG  145 (392)
                      ...+..+....  .++.+++..+|..|...+.++  ..+..++|||+|.++....+...+.++++.||+.+|+|++||+|
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~al~~a~~~~~~~~~~~~~~~r~IiL~TDG~~~~~~~~~~~~a~~l~~~~I~i~~ig~g  162 (236)
T d1jeyb2          83 FDLLEDIESKIQPGSQQADFLDALIVSMDVIQHETIGKKFEKRHIEIFTDLSSRFSKSQLDIIIHSLKKCDISLQFFLPF  162 (236)
T ss_dssp             HHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHHSSSSCCSEEEEEEECCCCSCCCCTTHHHHHHHHHHTTEEEEEEESS
T ss_pred             hhHHHHHhhhccccccccchhHHHHHHHHHHHHhhhcccccccEEEEEecCCCCcChHHHHHHHHHHHHcCCEEEEEecC
Confidence            66666666543  344689999999999888653  34445678999988877667778999999999999999999999


Q ss_pred             CCC
Q 016296          146 EDD  148 (392)
Q Consensus       146 ~e~  148 (392)
                      ...
T Consensus       163 ~~~  165 (236)
T d1jeyb2         163 SLG  165 (236)
T ss_dssp             CCC
T ss_pred             CcC
Confidence            766
>d1jeya2 c.62.1.3 (A:34-253) Ku70 subunit N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1shux_ c.62.1.1 (X:) Capillary morphogenesis protein 2 domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1atza_ c.62.1.1 (A:) von Willebrand factor A3 domain, vWA3 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1n3ya_ c.62.1.1 (A:) Integrin alpha-x beta2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1ijba_ c.62.1.1 (A:) von Willebrand factor A1 domain, vWA1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1q0pa_ c.62.1.1 (A:) Complement factor B domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1mf7a_ c.62.1.1 (A:) Integrin alpha M (CR3, CD11b/CD18, Mac-1 alpha subunit) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1v7pc_ c.62.1.1 (C:) Integrin alpha2-beta1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1pt6a_ c.62.1.1 (A:) Integrin alpha1-beta1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1mjna_ c.62.1.1 (A:) Integrin CD11a/CD18 (Leukocyte function associated antigen-1, LFA-1) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1yvra2 c.62.1.5 (A:364-537) 60-kda SS-A/Ro ribonucleoprotein, RoRNP {African clawed frog (Xenopus laevis) [TaxId: 8355]} Back     information, alignment and structure
>d1tyeb2 c.62.1.1 (B:107-354) Integrin beta A domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1pd0a3 c.62.1.2 (A:301-552) Sec24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d2qtva3 c.62.1.2 (A:120-390) Sec23 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure