Citrus Sinensis ID: 006202

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-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------

MSGKGGGGGVGKGNNGISSIPAGSRKIVQSLKEIVNCPESEIYAMLKECNMDPNEAVNRLLSQDPFHEVKSKRDKRKESKDTTDSRSRGASNTSNRGGRGGTDRYGVRSGAAYFTSNESGTLQSKPAYKKENGTHGYAGSSSSAAGVVANNMNQRPPFYSDDMPTENKTLEVVSGDGISSSSQPSSGFQSSWLGVPGQVSMADIVKMGRPHNKAPPHKNVNNHHVLAPPAAVSHQELHSSQGHSKVSEFNSEPEVATSQHVSPNDEWPSIEHPPAMSSVLEGSAQSDLYTKPAHSELYTNPSNLSVDRTDQQIEAQLDEVEEEEDGPHEIPKTNHVGSAPVSSRNMQEDNSGGSSLFENNLYNNMSSYQPHRHAFEHDEAHDGTSVSAKLQQLNLQNDDREAPVEEDSPSVIIPNHLQVHSSDCSHLSFGSFGTGIDSAFSGPFASRPLKNNLEERSETADAPSIGHSDARNPEYYGDEHLRSTSDANIANRPNVTAGDYDSPAVSQPSEVLKQESVEALQENQYSFPSSAPGYNYENAQQLNSAFAHQQASSQMQNLAPFSSMMAYTNSLPSTLLTSNVQPAREPDLQYSPFPMTQSMPTKYSNTASSISGPTISMPEVPPLLCLIELLKFIALLRIWLRLNRNQFISLKLLEDVL

cccccccccccccccccccccccHHHHHHHHHHHccccHHHHHHHHHHHcccHHHHHHHHcccccccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHccccccccccccccccccEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHccHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHccccEEEHHHHHHHc

cccccccccccccccccccccHHHHHHHHHHHHHHcccHHHHHHHHHHccccHHHHHHHHHcccccHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHccccccccccccccccccEEEccccEccccccccEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHcccccccccccccccccccccccccccccccccccccccccccccccccccccHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc

msgkgggggvgkgnngissipagSRKIVQSLKEIVNCPESEIYAMLKEcnmdpneavnrllsqdpfhevkskrdkrkeskdttdsrsrgasntsnrggrggtdrygvrsgaayftsnesgtlqskpaykkengthgyagssssaagvvannmnqrppfysddmptenktlevvsgdgissssqpssgfqsswlgvpgqvSMADIvkmgrphnkapphknvnnhhvlappaavshqelhssqghskvsefnsepevatsqhvspndewpsiehppamssvlegsaqsdlytkpahselytnpsnlsvdrtDQQIEAQLdeveeeedgpheipktnhvgsapvssrnmqednsggsslfennlynnmssyqphrhafehdeahdgtsvSAKLQQLnlqnddreapveedspsviipnhlqvhssdcshlsfgsfgtgidsafsgpfasrplknnleersetadapsighsdarnpeyygdehlrstsdanianrpnvtagdydspavsqpsevlKQESVEALQEnqysfpssapgynyenaQQLNSAFAHQQAssqmqnlapfssmmaytnslpstlltsnvqparepdlqyspfpmtqsmptkysntassisgptismpevppLLCLIELLKFIALLRIWLRLNRNQFISLKLLEDVL

msgkgggggvgkgnngissipagSRKIVQSLKEIVNCPESEIYAMLKECNMDPNEAVNRllsqdpfhevkskrdkrkeskdttdsrsrgasntsnrggrggtdrygVRSGAAyftsnesgtlqsKPAYKKENGTHGYAGSSSSAAGVVANNMNQRPPFYSDDMPTENKTLEVVSGDGISSSSQPSSGFQSSWLGVPGQVSMADIVKMGRPHNKAPPHKNVNNHHVLAPPAAVSHQELHSSQGHSKVSEFNSEPEVATSQHVSPNDEWPSIEHPPAMSSVLEGSAQSDLYTKPAHSELytnpsnlsvdrTDQQIEAQLDEVEeeedgpheipktnhvgsapvssrNMQEDNSGGSSLFENNLYNNMSSYQPHRHAFEHDEAHDGTSVSAKLQQLNLQNDDREAPVEEDSPSVIIPNHLQVHSSDCSHLSFGSFGTGIDSAFSGPFASRPLKNNLEERsetadapsighsdarNPEYYGDEHLRSTSDANIANRPNVTAGDYDSPAVSQPSEVLKQESVEALQENQYSFPSSAPGYNYENAQQLNSAFAHQQASSQMQNLAPFSSMMAYTNSLPSTLLTSNVQPAREPDLQYSPFPMTQSMPTKYSNTASSISGPTISMPEVPPLLCLIELLKFIALLRIWLRLNrnqfislklledvl

MSgkgggggvgkgnngISSIPAGSRKIVQSLKEIVNCPESEIYAMLKECNMDPNEAVNRLLSQDPFHEVkskrdkrkeskdttdsRSRGASNTSNRGGRGGTDRYGVRSGAAYFTSNESGTLQSKPAYKKENGTHGYagssssaagvvaNNMNQRPPFYSDDMPTENKTLEVVsgdgissssqpssgfqssWLGVPGQVSMADIVKMGRPHNKAPPHKNVNNHHVLAPPAAVSHQELHSSQGHSKVSEFNSEPEVATSQHVSPNDEWPSIEHPPAMSSVLEGSAQSDLYTKPAHSELYTNPSNLSVDRTDQQIEAQLDeveeeeDGPHEIPKTNHVGSAPVSSRNMQEDNSGGSSLFENNLYNNMSSYQPHRHAFEHDEAHDGTSVSAKLQQLNLQNDDREAPVEEDSPSVIIPNHLQVHSSDCSHLSFGSFGTGIDSAFSGPFASRPLKNNLEERSETADAPSIGHSDARNPEYYGDEHLRSTSDANIANRPNVTAGDYDSPAVSQPSEVLKQESVEALQENQYSFPSSAPGYNYENAQQLNSAFAHQQASSQMQNLAPFSSMMAYTNSLPSTLLTSNVQPAREPDLQYSPFPMTQSMPTKYSNTASSISGPTISMPEVPPLLCLIELLKFIALLRIWLRLNRNQFISLKLLEDVL

**************************IVQSLKEIVNCPESEIYAMLKECN**************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************IPNHLQVHSSDCSHLSFGSFGTGI***************************************************************************************************************************************************************************************VPPLLCLIELLKFIALLRIWLRLNRNQFISLKLL****

***********************SRKIVQSLKEIVNCPESEIYAMLKECNMDPNEAVNRLL**************************************************************************************************************************************************************************************************************************************************************************************************************************************************************IIPNHLQVHSSDCSHLSFGSF**********************************************************************************************************************************************************************************************LLCLIELLKFIALLRIWLRLNRNQFISLKLLEDVL

**********GKGNNGISSIPAGSRKIVQSLKEIVNCPESEIYAMLKECNMDPNEAVNRLLSQDPF**********************************GTDRYGVRSGAAYFTSNESGTLQSKPAYKKENGTHGYAGSSSSAAGVVANNMNQRPPFYSDDMPTENKTLEVV****************SSWLGVPGQVSMADIVKMGRPHNKAPPHKNVNNHHVLAPPA************************************WPSIEHPPAMSSVLEGSAQSDLYTKPAHSELYTNPSNLSVDRTDQQIEAQLD**********EIPKTNHVGS**************GSSLFENNLYNNMSSYQPHRHAFEH*********SAKLQQLNLQ***********SPSVIIPNHLQVHSSDCSHLSFGSFGTGIDSAFSGPFASRPLKNNL***********IGHSDARNPEYYGDEHLRSTSDANIANRPNVTAGDYDSPAVSQPSEVLKQESVEALQENQYSFPSSAPGYNYENAQQLNSA*********MQNLAPFSSMMAYTNSLPSTLLTSNVQPAREPDLQYSPFPMTQSMPTKYSNTASSISGPTISMPEVPPLLCLIELLKFIALLRIWLRLNRNQFISLKLLEDVL

********************PAGSRKIVQSLKEIVNCPESEIYAMLKECNMDPNEAVNRLLSQDPFHEVKSKR*********************************************************************************************************************************************************************************************************************************************************************************************************************************************DSPSVIIPNHLQVHSSDCSHLSFGSFGT*****************************************************************************************************Y*********F***************SSMMAYTNSLPSTLLTSNVQPAREPDLQYSPFPM*********************MPEVPPLLCLIELLKFIALLRIWLRLNRNQFISLKLLEDVL

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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MSGKGGGGGVGKGNNGISSIPAGSRKIVQSLKEIVNCPESEIYAMLKECNMDPNEAVNRLLSQDPFHEVKSKRDKRKESKDTTDSRSRGASNTSNRGGRGGTDRYGVRSGAAYFTSNESGTLQSKPAYKKENGTHGYAGSSSSAAGVVANNMNQRPPFYSDDMPTENKTLEVVSGDGISSSSQPSSGFQSSWLGVPGQVSMADIVKMGRPHNKAPPHKNVNNHHVLAPPAAVSHQELHSSQGHSKVSEFNSEPEVATSQHVSPNDEWPSIEHPPAMSSVLEGSAQSDLYTKPAHSELYTNPSNLSxxxxxxxxxxxxxxxxxxxxxPHEIPKTNHVGSAPVSSRNMQEDNSGGSSLFENNLYNNMSSYQPHRHAFEHDEAHDGTSVSAKLQQLNLQNDDREAPVEEDSPSVIIPNHLQVHSSDCSHLSFGSFGTGIDSAFSGPFASRPLKNNLEERSETADAPSIGHSDARNPEYYGDEHLRSTSDANIANRPNVTAGDYDSPAVSQPSEVLKQESVEALQENQYSFPSSAPGYNYENAQQLNSAFAHQQASSQMQNLAPFSSMMAYTNSLPSTLLTSNVQPAREPDLQYSPFPMTQSMPTKYSNTASSISGPTISMPEVPPLLCLIELLKFIALLRIWLRLNRNQFISLKLLEDVL

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

No hits with e-value below 0.001 by BLAST

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
Query		657
255557423		849	conserved hypothetical protein [Ricinus	0.920	0.712	0.650	0.0
224116450		911	predicted protein [Populus trichocarpa]	0.904	0.652	0.601	0.0
359483606		866	PREDICTED: uncharacterized protein LOC10	0.890	0.675	0.615	0.0
297740637		799	unnamed protein product [Vitis vinifera]	0.802	0.659	0.562	1e-174
356511015		846	PREDICTED: uncharacterized protein LOC10	0.866	0.672	0.545	1e-155
356528381		837	PREDICTED: uncharacterized protein LOC10	0.872	0.684	0.524	1e-153
356532397		838	PREDICTED: uncharacterized protein LOC10	0.866	0.678	0.524	1e-147
356558027		839	PREDICTED: uncharacterized protein LOC10	0.844	0.661	0.509	1e-139
357519233		865	hypothetical protein MTR_8g088190 [Medic	0.894	0.679	0.490	1e-137
449433553		845	PREDICTED: uncharacterized protein LOC10	0.875	0.680	0.497	1e-136

>gi\|255557423\|ref\|XP_002519742.1\| conserved hypothetical protein [Ricinus communis] gi\|223541159\|gb\|EEF42715.1\| conserved hypothetical protein [Ricinus communis]	Back alignment and taxonomy information

 Score =  753 bits (1944), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 407/626 (65%), Positives = 485/626 (77%), Gaps = 21/626 (3%)

Query: 1   MSGKGGGGGVGKGNNGISSIPAGSRKIVQSLKEIVNCPESEIYAMLKECNMDPNEAVNRL 60
           MSGK      GKGN+GIS IPAGSRK+VQSLKEIVNCPE EIYAMLK+CNMDPNEAVNRL
Sbjct: 1   MSGKAAINN-GKGNSGISGIPAGSRKMVQSLKEIVNCPEPEIYAMLKDCNMDPNEAVNRL 59

Query: 61  LSQDPFHEVKSKRDKRKESKDTTDSRSRGASNTSNRGGRGGTDRYGVRSGAAYFTSNESG 120
           LSQDPFHEVKSKR+K+KE+KDTT+ RSR A+N ++R GR G DRYG R G++ F+SN+ G
Sbjct: 60  LSQDPFHEVKSKREKKKETKDTTEPRSRVANNATHRAGRVGADRYG-RGGSSQFSSNDPG 118

Query: 121 TLQSKPAYKKENGTHGYAGSSSSAAGVVANNMNQRPPFYSDDMPTENKTLEVVSGDGISS 180
               KPAYKKENGT+  AGSSS+ + +   N+N+RP   SD +  ENK L V + DG+S 
Sbjct: 119 VSHGKPAYKKENGTNASAGSSSAPS-MAGTNINRRPILNSDLVAAENKLLTVGASDGVSL 177

Query: 181 SSQPSSGFQSSWLGVPGQVSMADIVKMGRPHNKA-PPHKNVNNHHVLAPPAAVSHQELHS 239
           SSQP++GFQS W+GVPGQVSMADIVKMGRPHNKA PPH +VN+ H  APP    + +LH 
Sbjct: 178 SSQPTAGFQSPWVGVPGQVSMADIVKMGRPHNKAMPPHHSVNHRHPAAPPLTALNHDLHL 237

Query: 240 SQGHS-KVSEFNSEPEVATSQHVSPNDEWPSIEHPPAMSS--VLEGSAQSDLYTKPAHSE 296
           S+ +S KVSE N+EPEV  SQ V  NDEWPSIE P A+S   VLE          P+ SE
Sbjct: 238 SENYSAKVSEVNAEPEVTASQLVHANDEWPSIE-PSAVSMPPVLEA---------PSDSE 287

Query: 297 LYTNPSNLSVDRTDQQIEAQLDEVEEEEDGPHEIPKTNHVGSAPVSSRNMQEDNSGGSSL 356
           L T+PSNL +DR +Q ++++LD+ +  ED   E    NHVG   VSSR ++ED++ GSS+
Sbjct: 288 LCTDPSNLPLDRVNQHMQSELDDTQSTEDDHIETFNVNHVGPTSVSSRTIKEDDAVGSSM 347

Query: 357 FENNLYNNMSSYQPHRHAFEHDEAHDG-TSVSAKLQQLNLQNDDREAPVEEDSPSVIIPN 415
           FE+NLY NM SYQ HRHAFEH EA DG +SV+A LQ L+LQ +D+ A  +ED+PSVIIPN
Sbjct: 348 FESNLYGNMGSYQTHRHAFEH-EAEDGASSVAANLQHLSLQGEDQAASSDEDNPSVIIPN 406

Query: 416 HLQVHSSDCSHLSFGSFGTGIDSAFSGPFASRPLKNNLEERSETADAPSIGHSDARNPEY 475
           HLQVH+ DCSHLSFGSFG+GI SAF G FASRPLKNNLEE SE  DA S  HSDARN EY
Sbjct: 407 HLQVHAQDCSHLSFGSFGSGIGSAFPGAFASRPLKNNLEETSEVVDASSAVHSDARNTEY 466

Query: 476 YGDEHLRSTSDANIANRPNVTAGDYDSPAVSQPSEVLKQESVEALQENQYSFPSSAPGYN 535
           YGDEHLR+ +D N+ +R  V+ G+YDSPA  QP EVLK+E+ EA Q NQY+FPSSA GY 
Sbjct: 467 YGDEHLRNAADDNLIHRAGVSPGNYDSPAGPQP-EVLKEETPEAAQGNQYAFPSSASGYT 525

Query: 536 YENAQQLNSAFAHQQASSQMQNLAPFSSMM-AYTNSLPSTLLTSNVQPAREPDLQYSPFP 594
           +EN+QQLN+AF++ Q SSQMQN+ PFS++M AYTNSLPSTLLTS VQ  REPDL YSPFP
Sbjct: 526 FENSQQLNAAFSNPQTSSQMQNMTPFSNVMQAYTNSLPSTLLTSTVQQGREPDLPYSPFP 585

Query: 595 MTQSMPTKYSNTASSISGPTISMPEV 620
           +TQSMPTKYSNTASSISGP+ISMPE 
Sbjct: 586 VTQSMPTKYSNTASSISGPSISMPEA 611

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|224116450\|ref\|XP_002317304.1\| predicted protein [Populus trichocarpa] gi\|222860369\|gb\|EEE97916.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|359483606\|ref\|XP_002271969.2\| PREDICTED: uncharacterized protein LOC100245196 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|297740637\|emb\|CBI30819.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|356511015\|ref\|XP_003524227.1\| PREDICTED: uncharacterized protein LOC100776017 [Glycine max]	Back alignment and taxonomy information

>gi\|356528381\|ref\|XP_003532782.1\| PREDICTED: uncharacterized protein LOC100803908 [Glycine max]	Back alignment and taxonomy information

>gi\|356532397\|ref\|XP_003534759.1\| PREDICTED: uncharacterized protein LOC100783978 [Glycine max]	Back alignment and taxonomy information

>gi\|356558027\|ref\|XP_003547310.1\| PREDICTED: uncharacterized protein LOC100782498 [Glycine max]	Back alignment and taxonomy information

>gi\|357519233\|ref\|XP_003629905.1\| hypothetical protein MTR_8g088190 [Medicago truncatula] gi\|355523927\|gb\|AET04381.1\| hypothetical protein MTR_8g088190 [Medicago truncatula]	Back alignment and taxonomy information

>gi\|449433553\|ref\|XP_004134562.1\| PREDICTED: uncharacterized protein LOC101211388 [Cucumis sativus]	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
Query		657
TAIR\|locus:2013693		831	AT1G29350 "AT1G29350" [Arabido	0.392	0.310	0.471	1.3e-55
TAIR\|locus:2013713		831	AT1G29370 "AT1G29370" [Arabido	0.392	0.310	0.468	3.8e-55
TAIR\|locus:2117671		758	AT4G18150 "AT4G18150" [Arabido	0.287	0.249	0.380	1.7e-48
TAIR\|locus:2170433		607	AT5G46380 "AT5G46380" [Arabido	0.152	0.164	0.415	7e-18
TAIR\|locus:2091087		841	AT3G07660 "AT3G07660" [Arabido	0.164	0.128	0.406	3.4e-17
TAIR\|locus:2088202		848	AT3G13990 "AT3G13990" [Arabido	0.070	0.054	0.553	2.3e-10
TAIR\|locus:2090019		567	GIP1 "GBF-interacting protein	0.162	0.188	0.295	1.3e-05
DICTYBASE\|DDB_G0270760		991	DDB_G0270760 "unknown" [Dictyo	0.403	0.267	0.222	0.00088

TAIR\|locus:2013693 AT1G29350 "AT1G29350" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 575 (207.5 bits), Expect = 1.3e-55, P = 1.3e-55
 Identities = 134/284 (47%), Positives = 179/284 (63%)

Query:   341 VSSRNMQEDNSGGSSLFENNLYNNMSSYQPHRHAFEHDEAHDGTSVSAKLQQLNLQNDDR 400
             V + ++QED S  SS  ++N Y   S   P  H   H +  D +S SA  QQL+  + D+
Sbjct:   297 VQADSVQEDESVVSSEIDDNPYQTQS--HPVEH---HKDEDDVSSGSASFQQLD--SHDQ 349

Query:   401 EAPVEEDSPSVIIPNHLQVHSSDCSHLSFGSFGTGIDSAFSGPFASRPLKNNLEERSETA 460
             E   EED P+V+IPNHL +H+ +C+ LSFGSFG        G F SRPL N++E  S+ A
Sbjct:   350 EVSHEEDRPAVVIPNHLLIHTEECAQLSFGSFG--------G-FGSRPLSNSVEATSDVA 400

Query:   461 DAPSIGHSDARNPEYYGDEHLRSTSDANIANRPNVTAGDYDSPAVSQPSEVLKQESVEAL 520
               P I HSDARN E+YGDEHL ST++ N+ + P    G+YD  ++    EVLKQE+ E  
Sbjct:   401 --PQIEHSDARNTEFYGDEHLGSTTNGNMVHTP--ATGNYDD-SLETRREVLKQENSEGA 455

Query:   521 QENQYSFPSSAPGYNYENA--QQLNSAF--AHQQASSQMQNLAPFSSMM-AYTNSLPSTL 575
             QE+QY+F  S  GY YENA  QQ+NSA+  +H  + +QM NL   S++M  Y++S+P+TL
Sbjct:   456 QEHQYTFTQSEQGYAYENAKQQQMNSAYDASHTNSQNQMHNLDSLSNVMQGYSHSVPNTL 515

Query:   576 LTSNVQPAREPDLQYSPFPMTQSMPTKYSNTASSISGPTISMPE 619
             L    Q ARE D QYSPF   QSM ++ SN ASS+ G +ISMPE
Sbjct:   516 LAQTAQNARELDFQYSPFSAQQSMQSRTSNNASSLGGQSISMPE 559

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR\|locus:2013713 AT1G29370 "AT1G29370" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2117671 AT4G18150 "AT4G18150" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2170433 AT5G46380 "AT5G46380" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2091087 AT3G07660 "AT3G07660" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2088202 AT3G13990 "AT3G13990" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2090019 GIP1 "GBF-interacting protein 1" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

DICTYBASE\|DDB_G0270760 DDB_G0270760 "unknown" [Dictyostelium discoideum (taxid:44689)]	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

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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

Fail to connect to STRING server

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
Query		657
pfam06972		60	pfam06972, DUF1296, Protein of unknown function (D	1e-29

>gnl\|CDD\|115617 pfam06972, DUF1296, Protein of unknown function (DUF1296)	Back alignment and domain information

 Score =  111 bits (278), Expect = 1e-29
 Identities = 41/60 (68%), Positives = 50/60 (83%), Gaps = 1/60 (1%)

Query: 20 IPAGSRKIVQSLKEIVNC-PESEIYAMLKECNMDPNEAVNRLLSQDPFHEVKSKRDKRKE 78
          IPA  RK +QS+KE+V    +++IYAMLKECNMDPNE V +LLSQD FHEVKSKR+K+KE
Sbjct: 1  IPAELRKTIQSIKEVVGKHSDADIYAMLKECNMDPNETVQKLLSQDTFHEVKSKREKKKE 60

This family represents a conserved region approximately 60 residues long within a number of plant proteins of unknown function. Structural modelling suggests this domain may bind nucleic acids. Length = 60

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		657
PF06972		60	DUF1296: Protein of unknown function (DUF1296); In	99.94
PF02845		42	CUE: CUE domain; InterPro: IPR003892 This domain m	97.53
PF00627		37	UBA: UBA/TS-N domain; InterPro: IPR000449 UBA doma	97.24
smart00546		43	CUE Domain that may be involved in binding ubiquit	96.85
smart00165		37	UBA Ubiquitin associated domain. Present in Rad23,	96.71
cd00194		38	UBA Ubiquitin Associated domain. The UBA domain is	96.67
PF14555		43	UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A	95.46
PRK06369		115	nac nascent polypeptide-associated complex protein	93.6
TIGR00264		116	alpha-NAC-related protein. This hypothetical prote	92.93
PRK09377		290	tsf elongation factor Ts; Provisional	92.51
TIGR00601		378	rad23 UV excision repair protein Rad23. All protei	92.27
CHL00098		200	tsf elongation factor Ts	91.89
TIGR00116		290	tsf translation elongation factor Ts. This protein	91.43
PF11547		53	E3_UbLigase_EDD: E3 ubiquitin ligase EDD; InterPro	91.03
COG1308		122	EGD2 Transcription factor homologous to NACalpha-B	90.85
PRK12332		198	tsf elongation factor Ts; Reviewed	90.37
PF03474		39	DMA: DMRTA motif; InterPro: IPR005173 This region	89.52
COG0264		296	Tsf Translation elongation factor Ts [Translation,	88.16
PF08938		79	HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This	88.02
KOG1071		340	consensus Mitochondrial translation elongation fac	81.43

>PF06972 DUF1296: Protein of unknown function (DUF1296); InterPro: IPR009719 This family represents a conserved region approximately 60 residues long within a number of plant proteins of unknown function	Back alignment and domain information

Probab=99.94  E-value=5.4e-28  Score=197.00  Aligned_cols=59  Identities=86%  Similarity=1.268  Sum_probs=57.6

Q ss_pred             CCcchHHHHHhhhhccCC-ChHHHHHHHHhcCCCHHHHHHHHhcCCccchhhcccccccc
Q 006202           20 IPAGSRKIVQSLKEIVNC-PESEIYAMLKECNMDPNEAVNRLLSQDPFHEVKSKRDKRKE   78 (657)
Q Consensus        20 ip~~~rk~Vq~lkEi~~~-seeei~~aL~dCn~DpneAv~rLL~~d~f~eVkkKR~kkKE   78 (657)
                      ||+++||+||.||||+|+ ||+|||+||+|||||||||++|||+||+|||||+||+||||
T Consensus         1 IP~~~rk~VQ~iKEiv~~hse~eIya~L~ecnMDpnea~qrLL~qD~FheVk~krdkkKE   60 (60)
T PF06972_consen    1 IPAASRKTVQSIKEIVGCHSEEEIYAMLKECNMDPNEAVQRLLSQDPFHEVKSKRDKKKE   60 (60)
T ss_pred             CChHHHHHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHHHHhcCcHHHHHHhhhhccC
Confidence            899999999999999965 99999999999999999999999999999999999999997

>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs)	Back alignment and domain information

>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []	Back alignment and domain information

>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs)	Back alignment and domain information

>smart00165 UBA Ubiquitin associated domain	Back alignment and domain information

>cd00194 UBA Ubiquitin Associated domain	Back alignment and domain information

>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A	Back alignment and domain information

>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed	Back alignment and domain information

>TIGR00264 alpha-NAC-related protein	Back alignment and domain information

>PRK09377 tsf elongation factor Ts; Provisional	Back alignment and domain information

>TIGR00601 rad23 UV excision repair protein Rad23	Back alignment and domain information

>CHL00098 tsf elongation factor Ts	Back alignment and domain information

>TIGR00116 tsf translation elongation factor Ts	Back alignment and domain information

>PF11547 E3_UbLigase_EDD: E3 ubiquitin ligase EDD; InterPro: IPR024725 EDD, the ER ubiquitin ligase from the HECT ligases, contains an N-terminal ubiquitin-associated (UBA) domain which binds ubiquitin	Back alignment and domain information

>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]	Back alignment and domain information

>PRK12332 tsf elongation factor Ts; Reviewed	Back alignment and domain information

>PF03474 DMA: DMRTA motif; InterPro: IPR005173 This region is found to the C terminus of the DM DNA-binding domain IPR001275 from INTERPRO []	Back alignment and domain information

>COG0264 Tsf Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins	Back alignment and domain information

>KOG1071 consensus Mitochondrial translation elongation factor EF-Tsmt, catalyzes nucleotide exchange on EF-Tumt [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		657
1wj7_A		104	Hypothetical protein (RSGI RUH-015); UBA domain, u	98.94
1z96_A		40	DNA-damage, UBA-domain protein MUD1; ubiquitin, th	97.43
2dhy_A		67	CUE domain-containing protein 1; structural genomi	97.31
2cp9_A		64	EF-TS, EF-TSMT, elongation factor TS, mitochondria	97.24
1wgl_A		59	TOLL-interacting protein; CUE domain, structural g	97.22
1ify_A		49	HHR23A, UV excision repair protein RAD23 homolog A	97.16
1vg5_A		73	RSGI RUH-014, rhomboid family protein; UBA domain,	97.14
2g3q_A		43	Protein YBL047C; endocytosis, solution structure,	97.09
1otr_A		49	Protein CUE2; protein-protein complex, cell cycle;	97.05
2knz_A		53	Ubiquilin-4; cytoplasm, endoplasmic reticulum, nuc	96.85
2bwb_A		46	Ubiquitin-like protein DSK2; UBA, signaling protei	96.71
2jy5_A		52	Ubiquilin-1; UBA, alternative splicing, cytoplasm,	96.69
2dah_A		54	Ubiquilin-3; UBA domain, structural genomics, NPPS	96.65
1wji_A		63	Tudor domain containing protein 3; UBA domain, str	96.36
1wr1_B		58	Ubiquitin-like protein DSK2; UBA domain, UBA-ubiqu	96.28
2di0_A		71	Activating signal cointegrator 1 complex subunit 2	96.23
2dak_A		63	Ubiquitin carboxyl-terminal hydrolase 5; isopeptid	96.17
2ekk_A		47	UBA domain from E3 ubiquitin-protein ligase HUWE1;	95.62
1wiv_A		73	UBP14, ubiquitin-specific protease 14; ubiquitin a	95.3
1vej_A		74	Riken cDNA 4931431F19; UBA domain, three helix bun	95.3
1veg_A		83	NEDD8 ultimate buster-1; ubiquitin associated doma	95.25
1dv0_A		47	DNA repair protein HHR23A; helical bundle, DNA bin	95.08
2lva_A		129	Ubiquitin carboxyl-terminal hydrolase 28; UIM, ubi	93.96
2dna_A		67	Unnamed protein product; ubiquitin associated doma	94.88
2cpw_A		64	CBL-interacting protein STS-1 variant; ubiquitin a	94.79
2dkl_A		85	Trinucleotide repeat containing 6C protein; TNRC6C	94.66
2qsf_X		171	RAD23, UV excision repair protein RAD23; alpha-bet	94.63
2dag_A		74	Ubiquitin carboxyl-terminal hydrolase 5; isopeptid	94.45
2dai_A		83	Ubadc1, ubiquitin associated domain containing 1;	94.44
1whc_A		64	RSGI RUH-027, UBA/UBX 33.3 kDa protein; UBA domain	94.36
1vdl_A		80	Ubiquitin carboxyl-terminal hydrolase 25; UBA doma	94.22
2cwb_A		108	Chimera of immunoglobulin G binding protein G and	93.84
1aip_C		196	EF-TS, elongation factor TS; nucleotide exchange,	93.28
2lbc_A		126	Ubiquitin carboxyl-terminal hydrolase 13; tandem U	93.17
1xb2_B		291	EF-TS, elongation factor TS, mitochondrial, EF-TSM	93.02
2qho_B		53	E3 ubiquitin-protein ligase EDD1; protein-protein	92.94
2dal_A		62	Protein KIAA0794; FAS associted factor 1, UBA-like	92.91
2ooa_A		52	E3 ubiquitin-protein ligase CBL-B; alpha-helical d	92.62
3k9o_A		201	Ubiquitin-conjugating enzyme E2 K; E2-25K, complex	92.43
1oqy_A		368	HHR23A, UV excision repair protein RAD23 homolog A	91.07
2crn_A		64	Ubash3A protein; compact three-helix bundle, struc	90.7
2d9s_A		53	CBL E3 ubiquitin protein ligase; UBA domain, dimer	90.66
3e46_A		253	Ubiquitin-conjugating enzyme E2-25 kDa; huntington	90.52
2dam_A		67	ETEA protein; KIAA0887, UBA-like domain, structura	90.13
1v92_A		46	NSFL1 cofactor P47; 3-helix bundle, recombination;	90.07
1oqy_A		368	HHR23A, UV excision repair protein RAD23 homolog A	89.54
1tr8_A		102	Conserved protein (MTH177); chaperones, nascent po	89.45
2ejs_A		58	Autocrine motility factor receptor, isoform 2; CUE	89.14
2juj_A		56	E3 ubiquitin-protein ligase CBL; alpha helix, UBA	89.13
3e21_A		45	HFAF1, FAS-associated factor 1; UBA, alternative s	88.88
1vek_A		84	UBP14, ubiquitin-specific protease 14, putative; U	88.66
2ekf_A		61	Ancient ubiquitous protein 1; CUE, ubiquitin ligas	88.13
4g3o_A		58	E3 ubiquitin-protein ligase AMFR; all-helical stru	86.75
1p3q_Q		54	VPS9P, vacuolar protein sorting-associated protein	86.16
4ae4_A		118	Ubiquitin-associated protein 1; protein transport,	86.07

>1wj7_A Hypothetical protein (RSGI RUH-015); UBA domain, ubiquitin associated domain, structural genomics, riken structural genomics/proteomics initiative; NMR {Mus musculus} SCOP: a.5.2.1	Back alignment and structure

Probab=98.94  E-value=4.8e-10  Score=100.32  Aligned_cols=55  Identities=29%  Similarity=0.383  Sum_probs=49.4

Q ss_pred             CcchHHHHHhhhhccCCChHHHHHHHHhcCCCHHHHHHHHhcCC----ccchhhccccc
Q 006202           21 PAGSRKIVQSLKEIVNCPESEIYAMLKECNMDPNEAVNRLLSQD----PFHEVKSKRDK   75 (657)
Q Consensus        21 p~~~rk~Vq~lkEi~~~seeei~~aL~dCn~DpneAv~rLL~~d----~f~eVkkKR~k   75 (657)
                      .++++++|+.|+|++|++++++..||.+||+|+++||++||++.    .|++|+|||.+
T Consensus        36 d~d~eekVk~L~EmtG~seeeAr~AL~~~ngDl~~AI~~Lleg~~~~~~W~~~~kKk~~   94 (104)
T 1wj7_A           36 DADFEEKVKQLIDITGKNQDECVIALHDCNGDVNRAINVLLEGNPDTHSWEMVGKKKGV   94 (104)
T ss_dssp             CHHHHHHHHHHHHHTCCCHHHHHHHHHHHTSCHHHHHHHHHTCSSSCSSCSSCCCCCCS
T ss_pred             cccHHHHHHHHHHhhCCCHHHHHHHHHHcCCCHHHHHHHHHhCCCcCCceeeecccccc
Confidence            46889999999999999999999999999999999999999874    69999765444

PyMOL of 1wj7

>1z96_A DNA-damage, UBA-domain protein MUD1; ubiquitin, three-helix bundle, protein transport; 1.80A {Schizosaccharomyces pombe} SCOP: a.5.2.1	Back alignment and structure

>2dhy_A CUE domain-containing protein 1; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}	Back alignment and structure

>2cp9_A EF-TS, EF-TSMT, elongation factor TS, mitochondrial; UBA, structural genomics, human, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.2	Back alignment and structure

>1wgl_A TOLL-interacting protein; CUE domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, immune system; NMR {Homo sapiens} SCOP: a.5.2.4	Back alignment and structure

>1ify_A HHR23A, UV excision repair protein RAD23 homolog A; ubiquitin associated domain, UBA domain, ubiquitin proteosome pathway, DNA binding protein; NMR {Homo sapiens} SCOP: a.5.2.1	Back alignment and structure

>1vg5_A RSGI RUH-014, rhomboid family protein; UBA domain, cDNA, structural genomics, riken structural genomics/proteomics initiative; NMR {Arabidopsis thaliana} SCOP: a.5.2.1	Back alignment and structure

>2g3q_A Protein YBL047C; endocytosis, solution structure, UBA domain, endocytosis/signaling protein complex; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.1	Back alignment and structure

>1otr_A Protein CUE2; protein-protein complex, cell cycle; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.4	Back alignment and structure

>2knz_A Ubiquilin-4; cytoplasm, endoplasmic reticulum, nucleus, phosphoprotein, protein binding; NMR {Mus musculus}	Back alignment and structure

>2bwb_A Ubiquitin-like protein DSK2; UBA, signaling protein; 2.3A {Saccharomyces cerevisiae} SCOP: a.5.2.1 PDB: 2bwe_A	Back alignment and structure

>2jy5_A Ubiquilin-1; UBA, alternative splicing, cytoplasm, nucleus, phosphoprotein, proteasome, signaling protein; NMR {Homo sapiens} PDB: 2jy6_B	Back alignment and structure

>2dah_A Ubiquilin-3; UBA domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.5.2.1	Back alignment and structure

>1wji_A Tudor domain containing protein 3; UBA domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: a.5.2.1	Back alignment and structure

>1wr1_B Ubiquitin-like protein DSK2; UBA domain, UBA-ubiquitin complex, signaling protein; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.1	Back alignment and structure

>2di0_A Activating signal cointegrator 1 complex subunit 2; ASCC2, CUE domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.4	Back alignment and structure

>2dak_A Ubiquitin carboxyl-terminal hydrolase 5; isopeptidase T, ubiquitin specific protease 5, USP 5, UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>2ekk_A UBA domain from E3 ubiquitin-protein ligase HUWE1; ubiquitin associated domain, compact three helix bundle, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>1wiv_A UBP14, ubiquitin-specific protease 14; ubiquitin associated domain, UBA domain, three helix bundle, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.5.2.1	Back alignment and structure

>1vej_A Riken cDNA 4931431F19; UBA domain, three helix bundle, ubiquitin associated domain, structural genomics; NMR {Mus musculus} SCOP: a.5.2.1	Back alignment and structure

>1veg_A NEDD8 ultimate buster-1; ubiquitin associated domain, UBA domain, three helix bundle, structural genomics; NMR {Mus musculus} SCOP: a.5.2.1	Back alignment and structure

>1dv0_A DNA repair protein HHR23A; helical bundle, DNA binding protein; HET: DNA; NMR {Homo sapiens} SCOP: a.5.2.1 PDB: 1f4i_A	Back alignment and structure

>2lva_A Ubiquitin carboxyl-terminal hydrolase 28; UIM, ubiquitin interacting motif, UBA domain, NESG, northeas structural genomics consortium, SGC; NMR {Homo sapiens}	Back alignment and structure

>2dna_A Unnamed protein product; ubiquitin associated domain, DSK2 protein, proteasome, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.5.2.1	Back alignment and structure

>2cpw_A CBL-interacting protein STS-1 variant; ubiquitin associated domain, UBA, compact three helix bundle, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.1	Back alignment and structure

>2dkl_A Trinucleotide repeat containing 6C protein; TNRC6C, KIAA1582 protein, UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.1	Back alignment and structure

>2dag_A Ubiquitin carboxyl-terminal hydrolase 5; isopeptidase T, ubiquitin specific protease 5 (USP 5), UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>2dai_A Ubadc1, ubiquitin associated domain containing 1; UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>1whc_A RSGI RUH-027, UBA/UBX 33.3 kDa protein; UBA domain, structural genomics, riken structural genomics/proteomics initiative, unknown function; NMR {Mus musculus} SCOP: a.5.2.1	Back alignment and structure

>1vdl_A Ubiquitin carboxyl-terminal hydrolase 25; UBA domain, mouse cDNA, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: a.5.2.1	Back alignment and structure

>2cwb_A Chimera of immunoglobulin G binding protein G and ubiquitin-like protein SB132; helical bundle, protein binding; NMR {Streptococcus SP} PDB: 2den_A	Back alignment and structure

>1aip_C EF-TS, elongation factor TS; nucleotide exchange, GTP-binding, complex of two elongation factors; 3.00A {Thermus thermophilus} SCOP: a.5.2.2 d.43.1.1	Back alignment and structure

>2lbc_A Ubiquitin carboxyl-terminal hydrolase 13; tandem UBA of USP13; NMR {Homo sapiens}	Back alignment and structure

>1xb2_B EF-TS, elongation factor TS, mitochondrial, EF-TSMT; protein-protein complex, translation; HET: MSE; 2.20A {Bos taurus} SCOP: a.5.2.2 d.43.1.1 d.43.1.1	Back alignment and structure

>2qho_B E3 ubiquitin-protein ligase EDD1; protein-protein complex, protein binding/ligase complex; 1.85A {Homo sapiens}	Back alignment and structure

>2dal_A Protein KIAA0794; FAS associted factor 1, UBA-like domain, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>2ooa_A E3 ubiquitin-protein ligase CBL-B; alpha-helical domain; 1.56A {Homo sapiens} PDB: 2oob_A 2jnh_A 2do6_A	Back alignment and structure

>3k9o_A Ubiquitin-conjugating enzyme E2 K; E2-25K, complex structure, ATP-binding, isopeptide BO ligase, nucleotide-binding, UBL conjugation pathway; 1.80A {Homo sapiens} PDB: 3k9p_A 1yla_A 2o25_A	Back alignment and structure

>1oqy_A HHR23A, UV excision repair protein RAD23 homolog A; DNA repair, proteasome-mediated degradation, protein- protein interaction, replication; NMR {Homo sapiens} SCOP: a.5.2.1 a.5.2.1 a.189.1.1 d.15.1.1 PDB: 1qze_A 1tp4_A	Back alignment and structure

>2crn_A Ubash3A protein; compact three-helix bundle, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.5.2.1	Back alignment and structure

>2d9s_A CBL E3 ubiquitin protein ligase; UBA domain, dimer, protein binding, structural genomics, NPPSFA; NMR {Mus musculus}	Back alignment and structure

>3e46_A Ubiquitin-conjugating enzyme E2-25 kDa; huntington interacting, ligase, alternative splicing, cytoplasm, UBL conjugation, UBL conjugation pathway; 1.86A {Homo sapiens} SCOP: a.5.2.1 d.20.1.1 PDB: 3f92_A*	Back alignment and structure

>2dam_A ETEA protein; KIAA0887, UBA-like domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}	Back alignment and structure

>1v92_A NSFL1 cofactor P47; 3-helix bundle, recombination; NMR {Rattus norvegicus} SCOP: a.5.2.3	Back alignment and structure

>1oqy_A HHR23A, UV excision repair protein RAD23 homolog A; DNA repair, proteasome-mediated degradation, protein- protein interaction, replication; NMR {Homo sapiens} SCOP: a.5.2.1 a.5.2.1 a.189.1.1 d.15.1.1 PDB: 1qze_A 1tp4_A	Back alignment and structure

>1tr8_A Conserved protein (MTH177); chaperones, nascent polypeptide-associated complex, ribosome domain, ubiquitin, chaperone; 2.27A {Methanothermobacter marburgensis}	Back alignment and structure

>2ejs_A Autocrine motility factor receptor, isoform 2; CUE, ubiquitin ligase complex, ubiquitin-conjugating enzyme, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>2juj_A E3 ubiquitin-protein ligase CBL; alpha helix, UBA domain, calcium, cytoplasm, metal- binding, phosphorylation, proto-oncogene, SH2 domain; NMR {Homo sapiens}	Back alignment and structure

>3e21_A HFAF1, FAS-associated factor 1; UBA, alternative splicing, apoptosis, nucleus, phosphoprotein; 1.73A {Homo sapiens}	Back alignment and structure

>1vek_A UBP14, ubiquitin-specific protease 14, putative; UBA domain, three helix bundle, ubiquitin associated domain, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.5.2.1	Back alignment and structure

>2ekf_A Ancient ubiquitous protein 1; CUE, ubiquitin ligase complex, ubiquitin-conjugating enzyme, structural genomics, NPPSFA; NMR {Homo sapiens}	Back alignment and structure

>4g3o_A E3 ubiquitin-protein ligase AMFR; all-helical structure, BAG6; 1.60A {Homo sapiens}	Back alignment and structure

>1p3q_Q VPS9P, vacuolar protein sorting-associated protein VPS9; trafficking, post translational modification, mono- ubiquitination; 1.70A {Saccharomyces cerevisiae} SCOP: a.5.2.4 PDB: 1mn3_A	Back alignment and structure

>4ae4_A Ubiquitin-associated protein 1; protein transport, endosomal sorting, tetherin, VPU, HIV-1, monoubiquitin; HET: NHE; 1.65A {Homo sapiens} PDB: 4ae4_B*	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		657
d1wj7a1		91	a.5.2.1 (A:8-98) Ubiquitin-associated protein 2-li	8e-04

>d1wj7a1 a.5.2.1 (A:8-98) Ubiquitin-associated protein 2-like Ubap2l {Mouse (Mus musculus) [TaxId: 10090]} Length = 91	Back information, alignment and structure


class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin-associated protein 2-like Ubap2l
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.8 bits (85), Expect = 8e-04
 Identities = 15/58 (25%), Positives = 24/58 (41%), Gaps = 4/58 (6%)

Query: 25 RKIVQSLKEIVNCPESEIYAMLKECNMDPNEAVNRLL----SQDPFHEVKSKRDKRKE 78
           + V+ L +I    + E    L +CN D N A+N LL        +  V  K+    +
Sbjct: 33 EEKVKQLIDITGKNQDECVIALHDCNGDVNRAINVLLEGNPDTHSWEMVGKKKGVSGQ 90

PyMOL of d1wj7a1

Homologous Domains Detected by HHsearch

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

ID	Alignment Graph	Length	Definition	Probability
Query		657
d1wj7a1		91	Ubiquitin-associated protein 2-like Ubap2l {Mouse	99.3
d1wgla_		59	Toll-interacting protein {Human (Homo sapiens) [Ta	97.07
d1xb2b1		56	Elongation factor Ts (EF-Ts), N-terminal domain {C	96.84
d1wgna_		63	Ubiquitin-associated protein 1, UBAP1 {Human (Homo	96.84
d1oqya1		41	DNA repair protein Hhr23a {Human (Homo sapiens) [T	96.82
d1aipc1		52	Elongation factor Ts (EF-Ts), N-terminal domain {T	96.66
d1efub3		54	Elongation factor Ts (EF-Ts), N-terminal domain {E	96.59
d1vg5a_		73	Rhomboid family protein At3g58460 {Thale cress (Ar	96.11
d2bwba1		44	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	95.4
d2g3qa1		43	Endocytic protein Ede1, YBL047C {Saccharomyces cer	95.28
d1wjia_		63	Tudor domain containing protein 3, TDRD3 {Human (H	94.87
d1wiva_		73	Ubiquitin isopeptidase T {Thale cress (Arabidopsis	94.82
d2daha1		41	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	94.63
d1mn3a_		54	Vacuolar protein sorting-associated protein vps9 {	94.48
d1veja1		61	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	94.01
d1vdla_		80	Ubiquitin carboxyl-terminal hydrolase 25 {Mouse (M	94.01
d2dnaa1		50	Ubiquilin-like protein Ubqlnl {Mouse (Mus musculus	93.9
d1v92a_		46	NSFL1 (p97 ATPase) cofactor p47, UBA-like domain {	91.8
d1whca_		64	UBA/UBX 33.3 kDa protein {Mouse (Mus musculus) [Ta	87.14
d2di0a1		63	Activating signal cointegrator 1 complex subunit 2	86.49
d2cpwa1		51	Cbl-interacting protein p70, STS1 {Human (Homo sap	86.09
d1veka_		84	Ubiquitin isopeptidase T {Thale cress (Arabidopsis	81.82

>d1wj7a1 a.5.2.1 (A:8-98) Ubiquitin-associated protein 2-like Ubap2l {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin-associated protein 2-like Ubap2l
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.30  E-value=5.8e-13  Score=114.21  Aligned_cols=54  Identities=30%  Similarity=0.401  Sum_probs=49.7

Q ss_pred             CcchHHHHHhhhhccCCChHHHHHHHHhcCCCHHHHHHHHhcCC----ccchhhcccc
Q 006202           21 PAGSRKIVQSLKEIVNCPESEIYAMLKECNMDPNEAVNRLLSQD----PFHEVKSKRD   74 (657)
Q Consensus        21 p~~~rk~Vq~lkEi~~~seeei~~aL~dCn~DpneAv~rLL~~d----~f~eVkkKR~   74 (657)
                      +++++++|++|+|+|+++++|++.||||||+|++.||+.||++.    .|+.++|||.
T Consensus        29 D~~i~~kVkql~e~T~rsede~~~ALhDcn~D~~~AIn~lLEg~~~~~~Wet~~kKk~   86 (91)
T d1wj7a1          29 DADFEEKVKQLIDITGKNQDECVIALHDCNGDVNRAINVLLEGNPDTHSWEMVGKKKG   86 (91)
T ss_dssp             CHHHHHHHHHHHHHTCCCHHHHHHHHHHHTSCHHHHHHHHHTCSSSCSSCSSCCCCCC
T ss_pred             cHHHHHHHHHHHHHhCCCHHHHHHHHhcCCccHHHHHHHHHhcCCCCCceeecccccc
Confidence            67899999999999999999999999999999999999999973    8999976543

PyMOL of d1wj7a1

>d1wgla_ a.5.2.4 (A:) Toll-interacting protein {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1xb2b1 a.5.2.2 (B:56-111) Elongation factor Ts (EF-Ts), N-terminal domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}	Back information, alignment and structure

>d1wgna_ a.5.2.1 (A:) Ubiquitin-associated protein 1, UBAP1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1oqya1 a.5.2.1 (A:160-200) DNA repair protein Hhr23a {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1aipc1 a.5.2.2 (C:2-53) Elongation factor Ts (EF-Ts), N-terminal domain {Thermus thermophilus [TaxId: 274]}	Back information, alignment and structure

>d1efub3 a.5.2.2 (B:1-54) Elongation factor Ts (EF-Ts), N-terminal domain {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d1vg5a_ a.5.2.1 (A:) Rhomboid family protein At3g58460 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}	Back information, alignment and structure

>d2bwba1 a.5.2.1 (A:328-371) DSK2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}	Back information, alignment and structure

>d2g3qa1 a.5.2.1 (A:1339-1381) Endocytic protein Ede1, YBL047C {Saccharomyces cerevisiae [TaxId: 4932]}	Back information, alignment and structure

>d1wjia_ a.5.2.1 (A:) Tudor domain containing protein 3, TDRD3 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1wiva_ a.5.2.1 (A:) Ubiquitin isopeptidase T {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}	Back information, alignment and structure

>d2daha1 a.5.2.1 (A:8-48) Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1mn3a_ a.5.2.4 (A:) Vacuolar protein sorting-associated protein vps9 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}	Back information, alignment and structure

>d1veja1 a.5.2.1 (A:8-68) 4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1vdla_ a.5.2.1 (A:) Ubiquitin carboxyl-terminal hydrolase 25 {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d2dnaa1 a.5.2.1 (A:12-61) Ubiquilin-like protein Ubqlnl {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d1v92a_ a.5.2.3 (A:) NSFL1 (p97 ATPase) cofactor p47, UBA-like domain {Rat (Rattus norvegicus) [TaxId: 10116]}	Back information, alignment and structure

>d1whca_ a.5.2.1 (A:) UBA/UBX 33.3 kDa protein {Mouse (Mus musculus) [TaxId: 10090]}	Back information, alignment and structure

>d2di0a1 a.5.2.4 (A:8-70) Activating signal cointegrator 1 complex subunit 2 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d2cpwa1 a.5.2.1 (A:8-58) Cbl-interacting protein p70, STS1 {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1veka_ a.5.2.1 (A:) Ubiquitin isopeptidase T {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}	Back information, alignment and structure