Citrus Sinensis ID: 009068

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----
MVKNCGDFVHFQIAERNVLGEMVKIVKKKPDMQLRDKILVLLDSWQEAFGGPGGKHPQYYWAYEDLRRYGVQFPKRSPDAAPIFTPPVSHPTLGQAQASYGMPSNSSRRLDETMATEVETLSFSSLDSMRDVMELLSDMLQAVNPSDREAVKDEVIVDLVSRCRSNQKKLMQMLTTTGDEELLGRGLELNDILQNLLAKHDAIASGLPIPTEVTNLSPKPNEACAASSLKSTDAGDSSPTPNGNHPAPVASVTRALIDEEEEEEDDFALLARRHSMPKPGPSQNTSAETGGALVPVSNSNATSSLPAATPSNALALPDPPAPVRTSKEQDIIDLLSITLSTTSTSPHTPHTPPISSQSTQQVPAPSSTQGNPYASEAYPGNQGQVPYNNYVAPWAQPQSQPLPQSQPQFQPGVQPQYPHYSSAYPPPPWAPTPGYFNNQNNLAGANNMFSSTRANMPTSYRPLQPNNSFPIRGSNGSVMHGDPPASSGPGNPVSTTAQKPFIPSYRLFEDLNVLGSADARLKMTSSSSPSLSGTSGQGMVGGRK
cccccHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHccccccccccccccccccccccccccccccc
ccccccccEEEEEEcHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccEccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHcccccccHcHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHccccccccccccccccccccccccccccccc
MVKNCGDFVHFQIAERNVLGEMVKIVKKKPDMQLRDKILVLLDSWqeafggpggkhpqyyWAYEDLRRYgvqfpkrspdaapiftppvshptlgqaqasygmpsnssrrldeTMATEVETLSFSSLDSMRDVMELLSDMLQavnpsdreavkDEVIVDLVSRCRSNQKKLMQMLTTTGDEELLGRGLELNDILQNLLAKHdaiasglpiptevtnlspkpneacaasslkstdagdssptpngnhpapvaSVTRALIDEEEEEEDDFALLARrhsmpkpgpsqntsaetggalvpvsnsnatsslpaatpsnalalpdppapvrtskeqDIIDLLSITlsttstsphtphtppissqstqqvpapsstqgnpyaseaypgnqgqvpynnyvapwaqpqsqplpqsqpqfqpgvqpqyphyssayppppwaptpgyfnnqnnlagannmfsstranmptsyrplqpnnsfpirgsngsvmhgdppassgpgnpvsttaqkpfipsyrlfedlNVLGSADARlkmtsssspslsgtsgqgmvggrk
mvkncgdfvhfqiaernvlgEMVKIVKKKPDMQLRDKILVLLDSWQEAFGGPGGKHPQYYWAYEDLRRYGVQFPKRSPDAAPIFTPPVSHPTLGQAQASYGMPSNSSRRLDETMATEVETLSFSSLDSMRDVMELLSDMLQavnpsdreavkdEVIVDLVSRCRSNQKKLMQMLTTTGDEELLGRGLELNDILQNLLAKHDAIASGLPIPTEVTNLSPKPNEACAASSLKSTDAGdssptpngnhpapVASVTRALIDEEEEEEDDFALLARRHSMPKPGPSQNTSAETGGALVPVSNSNATSSLPAATPSNALALPDPPAPVRTSKEQDIIDLLSITLSTTSTSPHTPHTPPISSQSTQQVPAPSSTQGNPYASEAYPGNQGQVPYNNYVAPWAQPQSQPLPQSQPQFQPGVQPQYPHYSSAYPPPPWAPTPGYFNNQNNLAGANNMFSSTRANMPTSYRPLQPNNSFPIRGSNGSVMHGDPPASSGPGNPVSTTAQKPFIPSYRLFEDLNVLGSADARLKmtsssspslsgtsgqgmvggrk
MVKNCGDFVHFQIAERNVLGEMVKIVKKKPDMQLRDKILVLLDSWQEAFGGPGGKHPQYYWAYEDLRRYGVQFPKRSPDAAPIFTPPVSHPTLGQAQASYGMPSNSSRRLDETMATEVETLSFSSLDSMRDVMELLSDMLQAVNPSDREAVKDEVIVDLVSRCRSNQKKLMQMltttgdeellgrglelNDILQNLLAKHDAIASGLPIPTEVTNLSPKPNEACAASSLKSTDAGDSSPTPNGNHPAPVASVTRALIdeeeeeeddFALLARRHSMPKPGPSQNTSAETGGALVPVSNSNATSSLPAATPSNALALPDPPAPVRTSKEqdiidllsitlsttstsphtphtppissqstqqVPAPSSTQGNPYASEAYPGNQGQVPYNNYVAPWAqpqsqplpqsqpqfqpGVqpqyphyssayppppwaptpgyFnnqnnlagannMFSSTRANMPTSYRPLQPNNSFPIRGSNGSVMHGDPPASSGPGNPVSTTAQKPFIPSYRLFEDLNVLGSADARLKMtsssspslsgtsgQGMVGGRK
****CGDFVHFQIAERNVLGEMVKIVKKKPDMQLRDKILVLLDSWQEAFGGPGGKHPQYYWAYEDLRRYGVQF******************************************************************************KDEVIVDLVSRCRSNQKKLMQMLTTTGDEELLGRGLELNDILQNLLAKHDAIASGLPI***********************************************************************************************************************************************************************************NYV*************************************************************************************************************FIPSYRLFEDLNVL******************************
MVKNCGDFVHFQIAERNVLGEMVKIVKKKPDMQLRDKILVLLDSWQEAFGGPGGKHPQYYWAYEDLRRYGV*********************************************************MRDVMELLSD******************VDLVSRCRSNQKKL***LT*TGDEELLGRGLELNDILQNLLAKHDAIAS*************************************************************************************************************************************************************************************************************************************************************************************************************LFEDLNV*******************************
MVKNCGDFVHFQIAERNVLGEMVKIVKKKPDMQLRDKILVLLDSWQEAFGGPGGKHPQYYWAYEDLRRYGVQFPKRSPDAAPIFTPPVSHPTLGQ****************ETMATEVETLSFSSLDSMRDVMELLSDMLQAVNPSDREAVKDEVIVDLVSRCRSNQKKLMQMLTTTGDEELLGRGLELNDILQNLLAKHDAIASGLPIPTEVTNLSPK************************NHPAPVASVTRALIDEEEEEEDDFALLARRHS*************TGGALVPVSNSNATSSLPAATPSNALALPDPPAPVRTSKEQDIIDLLSITLST******************************PYASEAYPGNQGQVPYNNYVAPWAQPQSQPLPQSQPQFQPGVQPQYPHYSSAYPPPPWAPTPGYFNNQNNLAGANNMFSSTRANMPTSYRPLQPNNSFPIRGSNGSVMH************VSTTAQKPFIPSYRLFEDLNVLGSADARL***********************
*VKNCGDFVHFQIAERNVLGEMVKIVKKKPDMQLRDKILVLLDSWQEAFGGPGGKHPQYYWAYEDLRRYGVQFPKRSPDAAPIF************************************LSFSSLDSMRDVMELLSDMLQAVNPSDREAVKDEVIVDLVSRCRSNQKKLMQMLTTTGDEELLGRGLELNDILQNLLAKHDAIAS*************************************************************************************************************************************************************************************************************************AYP************************************************************************QKPFIPSYRLFEDLNVLGSA***************************
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MVKNCGDFVHFQIAERNVLGEMVKIVKKKPDMQLRDKILVLLDSWQEAFGGPGGKHPQYYWAYEDLRRYGVQFPKRSPDAAPIFTPPVSHPTLGQAQASYGMPSNSSRRLDETMATEVETLSFSSLDSMRDVMELLSDMLQAVNPSDREAVKDEVIVDLVSRCRSNQKKLMQMLTTTGDEELLGRGLELNDILQNLLAKHDAIASGLPIPTEVTNLSPKPNEACAASSLKSTDAGDSSPTPNGNHPAPVASVTRALIDEEEEEEDDFALLARRHSMPKPGPSQNTSAETGGALVPVSNSNATSSLPAATPSNALALPDPPAPVRTSKEQDIIDLLSITLSTTSTSPHTPHTPPISSQSTQQVPAPSSTQGNPYASEAYPGNQGQVPYNNYVAPWAQPQSQPLPQSQPQFQPGVQPQYPHYSSAYPPPPWAPTPGYFNNQNNLAGANNMFSSTRANMPTSYRPLQPNNSFPIRGSNGSVMHGDPPASSGPGNPVSTTAQKPFIPSYRLFEDLNVLGSADARLKMTSSSSPSLSGTSGQGMVGGRK
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 ?
Query544 2.2.26 [Sep-21-2011]
Q68FJ8507 TOM1-like protein 2 OS=Xe N/A no 0.358 0.384 0.283 2e-16
Q5SRX1507 TOM1-like protein 2 OS=Mu yes no 0.358 0.384 0.272 2e-14
Q6ZVM7507 TOM1-like protein 2 OS=Ho yes no 0.358 0.384 0.285 4e-14
O88746492 Target of Myb protein 1 O no no 0.422 0.467 0.261 1e-11
O60784492 Target of Myb protein 1 O no no 0.363 0.402 0.267 3e-10
O12940515 Target of Myb protein 1 O no no 0.389 0.411 0.259 6e-08
O75674476 TOM1-like protein 1 OS=Ho no no 0.430 0.491 0.239 4e-07
Q99LI8 775 Hepatocyte growth factor- no no 0.130 0.091 0.307 6e-06
Q9JJ50 776 Hepatocyte growth factor- no no 0.130 0.091 0.307 6e-06
Q0V8S0 777 Hepatocyte growth factor- no no 0.130 0.091 0.307 1e-05
>sp|Q68FJ8|TM1L2_XENLA TOM1-like protein 2 OS=Xenopus laevis GN=tom1l2 PE=2 SV=1 Back     alignment and function desciption
 Score = 87.8 bits (216), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 66/233 (28%), Positives = 114/233 (48%), Gaps = 38/233 (16%)

Query: 2   VKNCGDFVHFQIAERNVL-GEMVKIV--KKKPDMQLRDKILVLLDSWQEAFGG----PGG 54
           VKNCG   H Q+  R+ + G +VKI+  K  P   ++DK+L L+ +W +AF       G 
Sbjct: 78  VKNCGHRFHVQVTHRDFIDGILVKIISPKNNPPTIVQDKVLALIQAWADAFRSSPDLTGV 137

Query: 55  KHPQYYWAYEDLRRYGVQFPKRSPDA-APIFTPPVS----------HPTLGQAQASYGMP 103
            H      YE+L+R G++FP    DA +PI TP  S          H +  Q + S+   
Sbjct: 138 VH-----IYEELKRKGIEFPMADLDALSPIHTPQRSVPEVDPATNMHTSQTQKRDSFSNL 192

Query: 104 SNSS-------------RRLDETMATEVETLSF--SSLDSMRDVMELLSDMLQAVNPSDR 148
           SNS                +   ++   E +    S LD +R  ++++S+ML  + P   
Sbjct: 193 SNSKSTSTPYTAPGGPPPNVGGPISANSEQIGRLRSELDIVRGNVKVMSEMLTEMTPGQE 252

Query: 149 EAVKDEVIVDLVSRCRSNQKKLMQMLTTTGDEELLGRGLELNDILQNLLAKHD 201
            A   E++ DL   CR+ Q++++++++   +EE+    L +ND L N+  +++
Sbjct: 253 GASDLELLQDLNRTCRTMQERIVELISRVSNEEVTEELLHVNDDLNNVFLRYE 305
Probable role in protein transport.
Xenopus laevis (taxid: 8355)
>sp|Q5SRX1|TM1L2_MOUSE TOM1-like protein 2 OS=Mus musculus GN=Tom1l2 PE=1 SV=1 Back     alignment and function description
>sp|Q6ZVM7|TM1L2_HUMAN TOM1-like protein 2 OS=Homo sapiens GN=TOM1L2 PE=1 SV=1 Back     alignment and function description
>sp|O88746|TOM1_MOUSE Target of Myb protein 1 OS=Mus musculus GN=Tom1 PE=1 SV=1 Back     alignment and function description
>sp|O60784|TOM1_HUMAN Target of Myb protein 1 OS=Homo sapiens GN=TOM1 PE=1 SV=2 Back     alignment and function description
>sp|O12940|TOM1_CHICK Target of Myb protein 1 OS=Gallus gallus GN=TOM1 PE=2 SV=2 Back     alignment and function description
>sp|O75674|TM1L1_HUMAN TOM1-like protein 1 OS=Homo sapiens GN=TOM1L1 PE=1 SV=2 Back     alignment and function description
>sp|Q99LI8|HGS_MOUSE Hepatocyte growth factor-regulated tyrosine kinase substrate OS=Mus musculus GN=Hgs PE=1 SV=2 Back     alignment and function description
>sp|Q9JJ50|HGS_RAT Hepatocyte growth factor-regulated tyrosine kinase substrate OS=Rattus norvegicus GN=Hgs PE=1 SV=1 Back     alignment and function description
>sp|Q0V8S0|HGS_BOVIN Hepatocyte growth factor-regulated tyrosine kinase substrate OS=Bos taurus GN=HGS PE=2 SV=1 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 ?
Query544
225439610625 PREDICTED: uncharacterized protein LOC10 0.981 0.854 0.632 1e-173
297735580592 unnamed protein product [Vitis vinifera] 0.981 0.902 0.632 1e-173
255586353 734 protein transporter, putative [Ricinus c 0.720 0.534 0.712 1e-151
449439821 689 PREDICTED: target of Myb protein 1-like 0.738 0.583 0.688 1e-143
224087835635 predicted protein [Populus trichocarpa] 0.698 0.598 0.665 1e-137
224139312 654 predicted protein [Populus trichocarpa] 0.700 0.582 0.687 1e-135
449483742591 PREDICTED: uncharacterized protein LOC10 0.683 0.629 0.674 1e-123
356566755 740 PREDICTED: ADP-ribosylation factor-bindi 0.724 0.532 0.609 1e-123
357506521 731 Class E vacuolar protein-sorting machine 0.729 0.543 0.605 1e-119
356530201529 PREDICTED: TOM1-like protein 2-like [Gly 0.634 0.652 0.644 1e-115
>gi|225439610|ref|XP_002267147.1| PREDICTED: uncharacterized protein LOC100267076 [Vitis vinifera] Back     alignment and taxonomy information
 Score =  615 bits (1585), Expect = e-173,   Method: Compositional matrix adjust.
 Identities = 353/558 (63%), Positives = 423/558 (75%), Gaps = 24/558 (4%)

Query: 1   MVKNCGDFVHFQIAERNVLGEMVKIVKKKPDMQLRDKILVLLDSWQEAFGGPGGKHPQYY 60
           MVKNCGD+VHFQI ER +L EM+KIVKKK DMQ+R+KIL LLDSWQEAFGGPGGKHPQYY
Sbjct: 78  MVKNCGDYVHFQITERAILQEMIKIVKKKADMQVREKILALLDSWQEAFGGPGGKHPQYY 137

Query: 61  WAYEDLRRYGVQFPKRSPDAAPIFTPPVSHPTLGQAQASYGMPSNSSRRLDETMATEVET 120
           WAYE+LRR GV+FPKRS DAAPIFTPPV+HP +   Q+ YGMPSNS+RRLDE MA+E+E+
Sbjct: 138 WAYEELRRAGVEFPKRSLDAAPIFTPPVTHPIVRHPQSGYGMPSNSTRRLDEAMASEMES 197

Query: 121 LSFSSLDSMRDVMELLSDMLQAVNPSDREAVKDEVIVDLVSRCRSNQKKLMQMLTTTGDE 180
           +S +S+DSM++VM+LL+DMLQAV+PSD +AVKDEVIVDLV++CR+NQK+LMQMLT+TGDE
Sbjct: 198 VSLASMDSMQEVMQLLADMLQAVDPSDHQAVKDEVIVDLVNQCRANQKRLMQMLTSTGDE 257

Query: 181 ELLGRGLELNDILQNLLAKHDAIASGLPIPTEVTNLSPKPNEACAASSLKSTDAGDSSPT 240
           ELLGRGLELND LQ+LLAKHDAI SG P+P  VTN SP+  +   +SSLK  +  ++ P 
Sbjct: 258 ELLGRGLELNDGLQSLLAKHDAILSGSPLPNLVTNFSPQQPD-IGSSSLKPAELKETLPR 316

Query: 241 PNGNHPAPVASVTRALIDEEEEEEDDFALLARRHSMPKPGPSQNTSAETGGALVPVSNSN 300
            N +   PVA+VT+   +EEE+EEDDFA LARRHS  +  PSQ+TS  T        ++N
Sbjct: 317 SNADPSTPVAAVTKVQAEEEEDEEDDFAQLARRHSKTRATPSQSTSTGT------SDSTN 370

Query: 301 ATSSLPAAT----PSNALA-LPDPPAPVRTSKEQDIIDLLSITLSTTSTSPHTPHTPPIS 355
            T+S+  A+    PSNALA +P  PAPV+T+KEQD+IDLLS+TLST STS  T      S
Sbjct: 371 ITTSITPASSTSDPSNALAVVPVSPAPVKTTKEQDMIDLLSLTLSTISTSHETQPPSSAS 430

Query: 356 SQSTQQVPAPSSTQGNPYASEAYPGNQGQVPYNNYVAPWA---QPQSQPLPQSQPQFQPG 412
           + S QQVP  ++TQ  PY+S AY GNQGQVPY+NYV PWA   Q QSQP PQ QPQ Q  
Sbjct: 431 NPSLQQVPVSTTTQEYPYSSAAYSGNQGQVPYSNYVVPWAQPQQTQSQPQPQPQPQPQIQ 490

Query: 413 VQPQYPHYSSAYPPPPWAPTPGYFNNQNNLAGANNMFSSTRANMPTSY------RPLQPN 466
            + QYP YS  YPPPPWA TPGY N   N + +  M+S+ + N  TSY      RPLQ  
Sbjct: 491 PRTQYPQYSYGYPPPPWAATPGYSN--QNPSSSGYMYSTLQVNTNTSYMPMQGPRPLQQY 548

Query: 467 NSFPIRGSNGSVMHGDPPASSGPGNPVSTTAQKPFIPSYRLFEDLNVLGSADARLKMTSS 526
           NSF  +G+NG  M+GD     GP NPV  +  KPFIPSYRLFEDLNVLG+ D RLKMTSS
Sbjct: 549 NSFSSKGNNGLAMNGDGRV-PGPRNPVPASGNKPFIPSYRLFEDLNVLGNTDGRLKMTSS 607

Query: 527 SSPSLSGTSGQGMVGGRK 544
           +SPSLSGTS QGMVGGRK
Sbjct: 608 ASPSLSGTSSQGMVGGRK 625

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|297735580|emb|CBI18074.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|255586353|ref|XP_002533826.1| protein transporter, putative [Ricinus communis] gi|223526243|gb|EEF28561.1| protein transporter, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|449439821|ref|XP_004137684.1| PREDICTED: target of Myb protein 1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|224087835|ref|XP_002308242.1| predicted protein [Populus trichocarpa] gi|222854218|gb|EEE91765.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224139312|ref|XP_002323050.1| predicted protein [Populus trichocarpa] gi|222867680|gb|EEF04811.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|449483742|ref|XP_004156676.1| PREDICTED: uncharacterized protein LOC101230918 [Cucumis sativus] Back     alignment and taxonomy information
>gi|356566755|ref|XP_003551594.1| PREDICTED: ADP-ribosylation factor-binding protein GGA1-like [Glycine max] Back     alignment and taxonomy information
>gi|357506521|ref|XP_003623549.1| Class E vacuolar protein-sorting machinery protein HSE1 [Medicago truncatula] gi|355498564|gb|AES79767.1| Class E vacuolar protein-sorting machinery protein HSE1 [Medicago truncatula] Back     alignment and taxonomy information
>gi|356530201|ref|XP_003533672.1| PREDICTED: TOM1-like protein 2-like [Glycine max] 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 ?
Query544
TAIR|locus:2057140671 AT2G38410 [Arabidopsis thalian 0.404 0.327 0.531 8.8e-114
TAIR|locus:2180982542 AT5G01760 [Arabidopsis thalian 0.579 0.581 0.441 3.5e-67
TAIR|locus:2077808607 AT3G08790 [Arabidopsis thalian 0.538 0.482 0.332 6.7e-45
TAIR|locus:2027037506 AT1G21380 [Arabidopsis thalian 0.387 0.416 0.429 1.1e-41
TAIR|locus:2025297446 AT1G76970 "AT1G76970" [Arabido 0.376 0.459 0.427 9.9e-39
TAIR|locus:2160654447 AT5G63640 [Arabidopsis thalian 0.426 0.519 0.318 8.1e-26
MGI|MGI:2443306507 Tom1l2 "target of myb1-like 2 0.172 0.185 0.363 5.1e-12
ZFIN|ZDB-GENE-060721-1476 tom1 "target of myb1 (chicken) 0.571 0.653 0.225 7.6e-12
UNIPROTKB|D3ZZQ9507 Tom1l2 "Protein Tom1l2" [Rattu 0.172 0.185 0.353 2.9e-11
UNIPROTKB|Q5BIP4492 TOM1 "Uncharacterized protein" 0.205 0.227 0.347 3.8e-11
TAIR|locus:2057140 AT2G38410 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 501 (181.4 bits), Expect = 8.8e-114, Sum P(4) = 8.8e-114
 Identities = 127/239 (53%), Positives = 147/239 (61%)

Query:    94 GQAQASYGMPSNSSRRLDETMATEVETLSFSSLDSMRDVMELLSDMLQAVNPSDREAVKD 153
             G  Q  YGMPS SSRRLDE MATEVE LS SS++SMRDVM+LL DMLQAV+PSDREAVKD
Sbjct:   206 GIPQVGYGMPSGSSRRLDEAMATEVEGLSLSSIESMRDVMDLLGDMLQAVDPSDREAVKD 265

Query:   154 EVIVDLVSRCRSNQKKLMQMXXXXXXXXXXXXXXXXNDILQNLLAKHDAIASGLPIPTEV 213
             EVIVDLV RCRSNQKKLMQM                ND LQ LLAKHDAIASG P+P + 
Sbjct:   266 EVIVDLVERCRSNQKKLMQMLTSTGDDELLGRGLDLNDSLQILLAKHDAIASGSPLPVQA 325

Query:   214 TNLSPKPNEAC--AASSLKSTDAGDSSPTPNGNHPAPVA-SVTRALIXXXXXXXXX-FAL 269
             +  SP   +A   A SS KS++A DSS     + P P   S  ++ I          FA 
Sbjct:   326 SG-SPLSVQASKPADSSPKSSEAKDSSSIAGSSSPIPATVSTGKSPIDEEYEEEEDEFAQ 384

Query:   270 LARRHSMPKPGPSQNTSAETGGALVPVSNSNATSSLPAATPSNALALPDPPAPVRTSKE 328
             LARRHS P   P+  T+  T      + + NA S+      + ALALPDPP PV T+KE
Sbjct:   385 LARRHSKP---PASVTTDPTS-----LESHNAASN------ALALALPDPPPPVNTTKE 429
GO:0005622 "intracellular" evidence=IEA
GO:0005634 "nucleus" evidence=ISM
GO:0005795 "Golgi stack" evidence=ISS
GO:0006886 "intracellular protein transport" evidence=IEA;ISS
GO:0006891 "intra-Golgi vesicle-mediated transport" evidence=ISS
GO:0008565 "protein transporter activity" evidence=ISS
GO:0005886 "plasma membrane" evidence=IDA
TAIR|locus:2180982 AT5G01760 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2077808 AT3G08790 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2027037 AT1G21380 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2025297 AT1G76970 "AT1G76970" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2160654 AT5G63640 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
MGI|MGI:2443306 Tom1l2 "target of myb1-like 2 (chicken)" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-060721-1 tom1 "target of myb1 (chicken)" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|D3ZZQ9 Tom1l2 "Protein Tom1l2" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|Q5BIP4 TOM1 "Uncharacterized protein" [Bos taurus (taxid:9913)] 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 ?
Query544
cd03561133 cd03561, VHS, VHS domain family; The VHS domain is 8e-21
pfam0312799 pfam03127, GAT, GAT domain 1e-19
smart00288133 smart00288, VHS, Domain present in VPS-27, Hrs and 2e-17
cd03565141 cd03565, VHS_Tom1, VHS domain family, Tom1 subfami 4e-08
pfam00790136 pfam00790, VHS, VHS domain 7e-08
cd03569142 cd03569, VHS_Hrs_Vps27p, VHS domain family, Hrs an 1e-07
PHA03247 3151 PHA03247, PHA03247, large tegument protein UL36; P 6e-07
cd03567139 cd03567, VHS_GGA, VHS domain family, GGA subfamily 4e-06
PHA032473151 PHA03247, PHA03247, large tegument protein UL36; P 1e-05
cd03568144 cd03568, VHS_STAM, VHS domain family, STAM subfami 5e-05
pfam09770 804 pfam09770, PAT1, Topoisomerase II-associated prote 4e-04
PRK10263 1355 PRK10263, PRK10263, DNA translocase FtsK; Provisio 0.002
PRK07764 824 PRK07764, PRK07764, DNA polymerase III subunits ga 0.003
>gnl|CDD|239620 cd03561, VHS, VHS domain family; The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule) Back     alignment and domain information 
 Score = 88.1 bits (219), Expect = 8e-21
 Identities = 30/70 (42%), Positives = 43/70 (61%), Gaps = 2/70 (2%)

Query: 1   MVKNCGDFVHFQIAERNVLGEMVKIVKK--KPDMQLRDKILVLLDSWQEAFGGPGGKHPQ 58
           +VKNCG   H Q+A++  L E+VKI K   K D ++R+K L L+ +W E+FGG     P 
Sbjct: 64  LVKNCGKPFHLQVADKEFLLELVKIAKNSPKYDPKVREKALELILAWSESFGGHSEDLPG 123

Query: 59  YYWAYEDLRR 68
              AY+ L+R
Sbjct: 124 IEDAYKLLKR 133

It has a superhelical structure similar to that of the ARM (Armadillo) repeats and is present at the N-termini of proteins involved in intracellular membrane trafficking. There are four general groups of VHS domain containing proteins based on their association with other domains. The first group consists of proteins of the STAM/EAST/Hbp family which has the domain composition VHS-SH3-ITAM. The second consists of proteins with a FYVE domain C-terminal to VHS. The third consists of GGA proteins with a domain composition VHS-GAT (GGA and TOM)-GAE (gamma-adaptin ear) domain. The fourth consists of proteins with a VHS domain alone or with domains other than those mentioned above. In GGA proteins, VHS domains are involved in cargo recognition in trans-Golgi, thereby having a general membrane targeting/cargo recognition role in vesicular trafficking. Length = 133
>gnl|CDD|190532 pfam03127, GAT, GAT domain Back     alignment and domain information
>gnl|CDD|197630 smart00288, VHS, Domain present in VPS-27, Hrs and STAM Back     alignment and domain information
>gnl|CDD|239623 cd03565, VHS_Tom1, VHS domain family, Tom1 subfamily; The VHS domain is an essential part of Tom1 (Target of myb1 - retroviral oncogene) protein Back     alignment and domain information
>gnl|CDD|216121 pfam00790, VHS, VHS domain Back     alignment and domain information
>gnl|CDD|239626 cd03569, VHS_Hrs_Vps27p, VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting) Back     alignment and domain information
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional Back     alignment and domain information
>gnl|CDD|239624 cd03567, VHS_GGA, VHS domain family, GGA subfamily; GGA (Golgi-localized, Gamma-ear-containing, Arf-binding) comprise a subfamily of ubiquitously expressed, monomeric, motif-binding cargo/clathrin adaptor proteins Back     alignment and domain information
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional Back     alignment and domain information
>gnl|CDD|239625 cd03568, VHS_STAM, VHS domain family, STAM subfamily; members include STAM (Signal Transducing Adaptor Molecule), EAST (EGFR-associated protein with SH3 and TAM domains) and Hbp (Hrs-binding protein) Back     alignment and domain information
>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1 Back     alignment and domain information
>gnl|CDD|236669 PRK10263, PRK10263, DNA translocase FtsK; Provisional Back     alignment and domain information
>gnl|CDD|236090 PRK07764, PRK07764, DNA polymerase III subunits gamma and tau; Validated Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 544
KOG1087470 consensus Cytosolic sorting protein GGA2/TOM1 [Int 100.0
KOG1086594 consensus Cytosolic sorting protein/ADP-ribosylati 100.0
KOG2199462 consensus Signal transducing adaptor protein STAM/ 99.86
cd03568144 VHS_STAM VHS domain family, STAM subfamily; member 99.82
cd03569142 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p s 99.82
cd03565141 VHS_Tom1 VHS domain family, Tom1 subfamily; The VH 99.82
PF03127100 GAT: GAT domain; InterPro: IPR004152 The GAT domai 99.82
cd03567139 VHS_GGA VHS domain family, GGA subfamily; GGA (Gol 99.76
smart00288133 VHS Domain present in VPS-27, Hrs and STAM. Unpubl 99.7
PF00790140 VHS: VHS domain; InterPro: IPR002014 The VHS domai 99.67
cd03561133 VHS VHS domain family; The VHS domain is present i 99.61
KOG1818634 consensus Membrane trafficking and cell signaling 99.14
cd00197115 VHS_ENTH_ANTH VHS, ENTH and ANTH domain superfamil 98.65
PF1221096 Hrs_helical: Hepatocyte growth factor-regulated ty 90.6
cd03562114 CID CID (CTD-Interacting Domain) domain family; CI 86.38
KOG0307 1049 consensus Vesicle coat complex COPII, subunit SEC3 86.0
>KOG1087 consensus Cytosolic sorting protein GGA2/TOM1 [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information 
Probab=100.00  E-value=1.7e-46  Score=400.90  Aligned_cols=205  Identities=48%  Similarity=0.793  Sum_probs=179.1

Q ss_pred             CcccchHHHHHHhcChHHHHHHHHhhcCC-CCHHHHHHHHHHHHHHHHHhCCCCCCchHHHHHHHHHhhcCccCCCCCCC
Q 009068            1 MVKNCGDFVHFQIAERNVLGEMVKIVKKK-PDMQLRDKILVLLDSWQEAFGGPGGKHPQYYWAYEDLRRYGVQFPKRSPD   79 (544)
Q Consensus         1 cVKNCG~~FH~EIaskeFLneLvKLv~~k-~d~~VKeKILeLIqsWaeaF~~~p~klp~i~~aY~~LK~eGv~FP~~~~d   79 (544)
                      ||||||+.||.+||+|+||++|||+++++ .+.+||+|||.||++|+++|++..++++.|+.+|++|+++||+||.++++
T Consensus        65 cvkNCG~~fh~~Va~k~fL~emVk~~k~~~~~~~Vr~kiL~LI~~W~~af~~~~~~~~~~~~~y~~l~~~G~~FP~r~~~  144 (470)
T KOG1087|consen   65 CVKNCGYSFHLQVASKEFLNEMVKRPKNKPRDLKVREKILELIDTWQQAFCGPDGYLPDYYQIYDELRRKGVEFPQRDEE  144 (470)
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHHhccccCCcchhHHHHHHHHHHHHHHHccCCCCcchhHHHHHHHHHHcCCcCCCCccc
Confidence            89999999999999999999999999999 89999999999999999999996678999999999999999999999998


Q ss_pred             CCCCCCCCCCCCCCcccccccCCCCCCcccccchhh------H-HHhhhhHHHHHHHHHHHHHHHHHHHhhCCCCcccch
Q 009068           80 AAPIFTPPVSHPTLGQAQASYGMPSNSSRRLDETMA------T-EVETLSFSSLDSMRDVMELLSDMLQAVNPSDREAVK  152 (544)
Q Consensus        80 aaPV~TPp~t~ps~r~aq~~~gsP~qeAnrLiKsM~------~-E~ekls~sELe~V~~nveLLnEML~~~nP~d~~~~d  152 (544)
                      ..++++|+.......+.+...+.|. +++.+++.+.      . ++..++++||++|+++++||+|||.++++++++..+
T Consensus       145 sl~~~~pp~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~seLe~~~~~~~ll~emL~~v~p~~~e~~~  223 (470)
T KOG1087|consen  145 SLAVLTPPAVLRPAPEPQEQSGPPN-EANASMKSMAGYPTEATPEVSTLSLSELESVKGKADLLSEMLNAVDPSDEEAAK  223 (470)
T ss_pred             cccccCCCCCCCCCCCchhhcCCcc-ccccccccccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHhccCCCCcchhH
Confidence            8777776653211111110113333 5555555443      2 455667999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHHHHhhhcCCHHHHHHhhhhhHHHHHHHHHHHHHhcC
Q 009068          153 DEVIVDLVSRCRSNQKKLMQMLTTTGDEELLGRGLELNDILQNLLAKHDAIASG  206 (544)
Q Consensus       153 dElI~EL~eqCKsmQprI~rLIeetdDEElL~eLL~LNDeLn~aL~rYd~L~sG  206 (544)
                      +|+|.+|+++||.+|+|||+||+++.||++|+++|+|||+|++||.+||++.+|
T Consensus       224 ~el~~~L~~qcr~~q~rv~~Li~~~~DE~ll~~lL~lND~L~~vL~~ye~~~~g  277 (470)
T KOG1087|consen  224 DELLVDLVEQCRSKQRRVMHLIEETSDEELLCELLKLNDELQRVLERYERIASG  277 (470)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHhHHHHHHHHHHHHHhcc
Confidence            999999999999999999999999999999999999999999999999999999

>KOG1086 consensus Cytosolic sorting protein/ADP-ribosylation factor effector GGA [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>KOG2199 consensus Signal transducing adaptor protein STAM/STAM2 [Signal transduction mechanisms] Back     alignment and domain information
>cd03568 VHS_STAM VHS domain family, STAM subfamily; members include STAM (Signal Transducing Adaptor Molecule), EAST (EGFR-associated protein with SH3 and TAM domains) and Hbp (Hrs-binding protein) Back     alignment and domain information
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting) Back     alignment and domain information
>cd03565 VHS_Tom1 VHS domain family, Tom1 subfamily; The VHS domain is an essential part of Tom1 (Target of myb1 - retroviral oncogene) protein Back     alignment and domain information
>PF03127 GAT: GAT domain; InterPro: IPR004152 The GAT domain is responsible for binding of GGA proteins to several members of the ARF family including ARF1 [] and ARF3 Back     alignment and domain information
>cd03567 VHS_GGA VHS domain family, GGA subfamily; GGA (Golgi-localized, Gamma-ear-containing, Arf-binding) comprise a subfamily of ubiquitously expressed, monomeric, motif-binding cargo/clathrin adaptor proteins Back     alignment and domain information
>smart00288 VHS Domain present in VPS-27, Hrs and STAM Back     alignment and domain information
>PF00790 VHS: VHS domain; InterPro: IPR002014 The VHS domain is a ~140 residues long domain, whose name is derived from its occurrence in VPS-27, Hrs and STAM Back     alignment and domain information
>cd03561 VHS VHS domain family; The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule) Back     alignment and domain information
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>cd00197 VHS_ENTH_ANTH VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain Back     alignment and domain information
>PF12210 Hrs_helical: Hepatocyte growth factor-regulated tyrosine kinase substrate; InterPro: IPR024641 This domain comprises the helical region of hepatocyte growth factor-regulated tyrosine kinase substrate (HRS) Back     alignment and domain information
>cd03562 CID CID (CTD-Interacting Domain) domain family; CID is present in several RNA-processing factors such as Pcf11 and Nrd1 Back     alignment and domain information
>KOG0307 consensus Vesicle coat complex COPII, subunit SEC31 [Intracellular trafficking, secretion, and vesicular transport] 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 ?
Query544
3zyq_A226 Crystal Structure Of The Tandem Vhs And Fyve Domain 2e-05
1elk_A157 Vhs Domain Of Tom1 Protein From H. Sapiens Length = 4e-04
>pdb|3ZYQ|A Chain A, Crystal Structure Of The Tandem Vhs And Fyve Domains Of Hepatocyte Growth Factor-Regulated Tyrosine Kinase Substrate (Hgs-Hrs) At 1.48 A Resolution Length = 226 Back     alignment and structure 
Iteration: 1

 Score = 47.4 bits (111), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 18/49 (36%), Positives = 34/49 (69%)
Query: 1   MVKNCGDFVHFQIAERNVLGEMVKIVKKKPDMQLRDKILVLLDSWQEAF 49
           +VKNCG  VH ++A +  + E+  ++K++ ++ +R+KIL L+ +W  AF
Sbjct: 72  VVKNCGQTVHDEVANKQTMEELKDLLKRQVEVNVRNKILYLIQAWAHAF 120
>pdb|1ELK|A Chain A, Vhs Domain Of Tom1 Protein From H. Sapiens Length = 157 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 ?
Query544
1wrd_A103 TOM1, target of MYB protein 1; three-helix bundle, 2e-28
1wr6_A111 ADP-ribosylation factor binding protein GGA3; thre 7e-27
1naf_A158 ADP-ribosylation factor binding protein GGA1, golg 6e-21
1o3x_A140 ADP-ribosylation factor binding protein GGA1; prot 6e-21
1x5b_A163 Signal transducing adaptor molecule 2; VHS domain, 6e-19
1oxz_A186 ADP-ribosylation factor binding protein GGA1; GAT 8e-19
1mhq_A148 ADP-ribosylation factor binding protein GGA2; supe 8e-19
1juq_A171 ADP-ribosylation factor binding protein GGA3; prot 3e-17
3ldz_A140 STAM-1, signal transducing adapter molecule 1; ubi 4e-16
1elk_A157 Target of MYB1; superhelix of helices, endocytosis 1e-15
3g2s_A149 C-terminal fragment of sortilin-related receptor; 8e-15
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 7e-14
1dvp_A220 HRS, hepatocyte growth factor-regulated tyrosine k 5e-13
3zyq_A226 Hepatocyte growth factor-regulated tyrosine kinas 1e-12
3rru_A152 TOM1L1 protein; structural genomics, PSI-biology, 3e-12
1m2v_B 926 SEC24, protein transport protein SEC24, SEC24P, SE 3e-07
1m2v_B 926 SEC24, protein transport protein SEC24, SEC24P, SE 5e-07
1m2v_B 926 SEC24, protein transport protein SEC24, SEC24P, SE 1e-05
1m2v_B 926 SEC24, protein transport protein SEC24, SEC24P, SE 3e-05
1twf_A1733 B220, DNA-directed RNA polymerase II largest subun 1e-04
1twf_A1733 B220, DNA-directed RNA polymerase II largest subun 1e-04
3h0g_A1752 DNA-directed RNA polymerase II subunit RPB1; trans 1e-04
3h0g_A1752 DNA-directed RNA polymerase II subunit RPB1; trans 9e-04
>1wrd_A TOM1, target of MYB protein 1; three-helix bundle, ubiquitin-binding protein, protein trans signaling protein complex; 1.75A {Homo sapiens} SCOP: a.7.8.1 Length = 103 Back     alignment and structure
 Score =  108 bits (270), Expect = 2e-28
 Identities = 22/99 (22%), Positives = 49/99 (49%)

Query: 114 MATEVETLSFSSLDSMRDVMELLSDMLQAVNPSDREAVKDEVIVDLVSRCRSNQKKLMQM 173
           + +E      S L+ +   + ++S+ML  + P+  E    E++ +L   CR+ Q++++++
Sbjct: 3   LGSEQIGKLRSELEMVSGNVRVMSEMLTELVPTQAEPADLELLQELNRTCRAMQQRVLEL 62

Query: 174 LTTTGDEELLGRGLELNDILQNLLAKHDAIASGLPIPTE 212
           +    +E+L    L +ND L N+  +H+         T 
Sbjct: 63  IPQIANEQLTEELLIVNDNLNNVFLRHERFERFRTGQTT 101
>1wr6_A ADP-ribosylation factor binding protein GGA3; three-helix bundle, clathrin coat adaptor protein, protein transport/signaling protein complex; 2.60A {Homo sapiens} SCOP: a.7.8.1 PDB: 1yd8_G Length = 111 Back     alignment and structure
>1naf_A ADP-ribosylation factor binding protein GGA1, golgi-localized, gamma EAR-; clathrin-adaptor, GAT domain, helical paper-CLIP, three-helix bundle; 2.80A {Homo sapiens} SCOP: a.7.8.1 Length = 158 Back     alignment and structure
>1o3x_A ADP-ribosylation factor binding protein GGA1; protein transport; 2.10A {Homo sapiens} SCOP: a.7.8.1 PDB: 1nwm_X 1x79_A Length = 140 Back     alignment and structure
>1x5b_A Signal transducing adaptor molecule 2; VHS domain, ubiquitin binding, STAM2, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2l0t_B Length = 163 Back     alignment and structure
>1oxz_A ADP-ribosylation factor binding protein GGA1; GAT domain, membrane protein; 2.80A {Homo sapiens} SCOP: a.7.8.1 Length = 186 Back     alignment and structure
>1mhq_A ADP-ribosylation factor binding protein GGA2; super helix, protein transport; 2.20A {Homo sapiens} SCOP: a.118.9.2 Length = 148 Back     alignment and structure
>1juq_A ADP-ribosylation factor binding protein GGA3; protein-peptide compelx, VHS domain, DXXLL sorting signal, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.9.2 PDB: 1jpl_A 1lf8_A* Length = 171 Back     alignment and structure
>3ldz_A STAM-1, signal transducing adapter molecule 1; ubiquitin-binding, cytoplasm, UBL conjugation, endosome, membrane, protein transport, SH3 domain; 2.60A {Homo sapiens} Length = 140 Back     alignment and structure
>1elk_A Target of MYB1; superhelix of helices, endocytosis/exocytosis complex; 1.50A {Homo sapiens} SCOP: a.118.9.2 Length = 157 Back     alignment and structure
>3g2s_A C-terminal fragment of sortilin-related receptor; ADP-ribosylation factor binding protein GGA1, VHS, acidic- cluster dileucine signal, sorla; 1.70A {Homo sapiens} PDB: 3g2t_A* 3g2u_A 3g2v_A* 3g2w_A 1ujk_A* 1jwf_A 1ujj_A 1jwg_A* 1py1_A* Length = 149 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
>1dvp_A HRS, hepatocyte growth factor-regulated tyrosine kinase substrate; VHS, FYVE, zinc finger, superhelix, transferase; HET: CIT; 2.00A {Drosophila melanogaster} SCOP: a.118.9.2 g.50.1.1 Length = 220 Back     alignment and structure
>3zyq_A Hepatocyte growth factor-regulated tyrosine kinas substrate; signaling; 1.48A {Homo sapiens} PDB: 4avx_A* Length = 226 Back     alignment and structure
>3rru_A TOM1L1 protein; structural genomics, PSI-biology, northeast structural genom consortium, NESG, super-helical protein; 3.00A {Homo sapiens} Length = 152 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 Length = 926 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 Length = 926 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 Length = 926 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 Length = 926 Back     alignment and structure
>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A 1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A* 1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A* 1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ... Length = 1733 Back     alignment and structure
>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A 1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A* 1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A* 1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ... Length = 1733 Back     alignment and structure
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe} Length = 1752 Back     alignment and structure
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe} Length = 1752 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query544
1oxz_A186 ADP-ribosylation factor binding protein GGA1; GAT 99.93
1o3x_A140 ADP-ribosylation factor binding protein GGA1; prot 99.91
1naf_A158 ADP-ribosylation factor binding protein GGA1, golg 99.9
1wrd_A103 TOM1, target of MYB protein 1; three-helix bundle, 99.87
1x5b_A163 Signal transducing adaptor molecule 2; VHS domain, 99.85
1juq_A171 ADP-ribosylation factor binding protein GGA3; prot 99.84
1wr6_A111 ADP-ribosylation factor binding protein GGA3; thre 99.84
3ldz_A140 STAM-1, signal transducing adapter molecule 1; ubi 99.82
1mhq_A148 ADP-ribosylation factor binding protein GGA2; supe 99.82
1elk_A157 Target of MYB1; superhelix of helices, endocytosis 99.81
3g2s_A149 C-terminal fragment of sortilin-related receptor; 99.78
3zyq_A226 Hepatocyte growth factor-regulated tyrosine kinas 99.78
3rru_A152 TOM1L1 protein; structural genomics, PSI-biology, 99.73
1dvp_A220 HRS, hepatocyte growth factor-regulated tyrosine k 99.7
2pjw_H88 Uncharacterized protein YHL002W; GAT domain, core 97.7
3f1i_S77 STAM-1, signal transducing adapter molecule 1; HGS 97.59
2pjw_V91 Vacuolar protein sorting-associated protein 27; GA 97.49
1sz9_A144 PCF11 protein; RNA polymerase II CTD interacting d 94.22
3f1i_H98 Hepatocyte growth factor-regulated tyrosine kinas 92.14
>1oxz_A ADP-ribosylation factor binding protein GGA1; GAT domain, membrane protein; 2.80A {Homo sapiens} SCOP: a.7.8.1 Back     alignment and structure
Probab=99.93  E-value=1.7e-26  Score=220.80  Aligned_cols=133  Identities=18%  Similarity=0.334  Sum_probs=102.0

Q ss_pred             cccCCCC--CCcccccchhhHHHhh------hhHHHHHHHHHHHHHHHHHHHhhCCCCcccc-hhHHHHHHHHHHHHHHH
Q 009068           98 ASYGMPS--NSSRRLDETMATEVET------LSFSSLDSMRDVMELLSDMLQAVNPSDREAV-KDEVIVDLVSRCRSNQK  168 (544)
Q Consensus        98 ~~~gsP~--qeAnrLiKsM~~E~ek------ls~sELe~V~~nveLLnEML~~~nP~d~~~~-ddElI~EL~eqCKsmQp  168 (544)
                      +++|.|+  ++||+|||.|+++.+.      .+.+||++|++|++||+|||++++|++.... ++|+|+|||++||+||+
T Consensus        42 irs~~PeDL~~AN~LiK~m~~~d~~r~e~~~k~~~eLe~V~~nv~LL~EML~~~~pg~~~~~~d~Ell~eL~~~Ck~~qp  121 (186)
T 1oxz_A           42 LKSSHPEDLRAANKLIKEMVQEDQKRMEKISKRVNAIEEVNNNVKLLTEMVMSHSQGGAAAGSSEDLMKELYQRCERMRP  121 (186)
T ss_dssp             HSCCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSSCSCTTTTHHHHHHHHHHHHHHHH
T ss_pred             hcCCChhhHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCccccHHHHHHHHHHHHHHHH
Confidence            6789998  4899999999975332      2478999999999999999999999998877 89999999999999999


Q ss_pred             HHHHHhhhc-CCHHHHHHhhhhhHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCcchhccccCCC
Q 009068          169 KLMQMLTTT-GDEELLGRGLELNDILQNLLAKHDAIASGLPIPTEVTNLSPKPNEACAASSLKS  231 (544)
Q Consensus       169 rI~rLIeet-dDEElL~eLL~LNDeLn~aL~rYd~L~sG~~~~~e~~~~s~~~~~~~~l~d~~~  231 (544)
                      ||++||+++ +||++|+++|++||+|++||.+|+++++|+...++... +..|...++|+|+..
T Consensus       122 ~i~~Li~e~~ddee~L~elL~~ND~Ln~vl~kY~~~~~g~~~~~~~~~-~~~~~~~~~l~dl~~  184 (186)
T 1oxz_A          122 TLFRLASDTEDNDEALAEILQANDNLTQVINLYKQLVRGEEVNGDATA-GSIPGSTSALLDLSG  184 (186)
T ss_dssp             HHHHHHHHCCSCHHHHHHHHHHHHHHHHHHHHHTTHHHHCC-----------------------
T ss_pred             HHHHHHHHccCCHHHHHHHHHhhHHHHHHHHHHHHHhcCCCCCccccC-CCCCCCcccccCCcC
Confidence            999999987 78999999999999999999999999999998877643 223444566777654
>1o3x_A ADP-ribosylation factor binding protein GGA1; protein transport; 2.10A {Homo sapiens} SCOP: a.7.8.1 PDB: 1nwm_X 1x79_A Back     alignment and structure
>1naf_A ADP-ribosylation factor binding protein GGA1, golgi-localized, gamma EAR-; clathrin-adaptor, GAT domain, helical paper-CLIP, three-helix bundle; 2.80A {Homo sapiens} SCOP: a.7.8.1 Back     alignment and structure
>1wrd_A TOM1, target of MYB protein 1; three-helix bundle, ubiquitin-binding protein, protein trans signaling protein complex; 1.75A {Homo sapiens} SCOP: a.7.8.1 Back     alignment and structure
>1x5b_A Signal transducing adaptor molecule 2; VHS domain, ubiquitin binding, STAM2, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2l0t_B Back     alignment and structure
>1juq_A ADP-ribosylation factor binding protein GGA3; protein-peptide compelx, VHS domain, DXXLL sorting signal, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.9.2 PDB: 1jpl_A 1lf8_A* Back     alignment and structure
>1wr6_A ADP-ribosylation factor binding protein GGA3; three-helix bundle, clathrin coat adaptor protein, protein transport/signaling protein complex; 2.60A {Homo sapiens} SCOP: a.7.8.1 PDB: 1yd8_G Back     alignment and structure
>3ldz_A STAM-1, signal transducing adapter molecule 1; ubiquitin-binding, cytoplasm, UBL conjugation, endosome, membrane, protein transport, SH3 domain; 2.60A {Homo sapiens} SCOP: a.118.9.0 Back     alignment and structure
>1mhq_A ADP-ribosylation factor binding protein GGA2; super helix, protein transport; 2.20A {Homo sapiens} SCOP: a.118.9.2 Back     alignment and structure
>1elk_A Target of MYB1; superhelix of helices, endocytosis/exocytosis complex; 1.50A {Homo sapiens} SCOP: a.118.9.2 Back     alignment and structure
>3g2s_A C-terminal fragment of sortilin-related receptor; ADP-ribosylation factor binding protein GGA1, VHS, acidic- cluster dileucine signal, sorla; 1.70A {Homo sapiens} SCOP: a.118.9.2 PDB: 3g2t_A* 3g2u_A 3g2v_A* 3g2w_A 1ujk_A* 1jwf_A 1ujj_A 1jwg_A* 1py1_A* Back     alignment and structure
>3zyq_A Hepatocyte growth factor-regulated tyrosine kinas substrate; signaling; 1.48A {Homo sapiens} PDB: 4avx_A* Back     alignment and structure
>3rru_A TOM1L1 protein; structural genomics, PSI-biology, northeast structural genom consortium, NESG, super-helical protein; 3.00A {Homo sapiens} Back     alignment and structure
>1dvp_A HRS, hepatocyte growth factor-regulated tyrosine kinase substrate; VHS, FYVE, zinc finger, superhelix, transferase; HET: CIT; 2.00A {Drosophila melanogaster} SCOP: a.118.9.2 g.50.1.1 Back     alignment and structure
>2pjw_H Uncharacterized protein YHL002W; GAT domain, core complex, doamin SWAP, endocytosis/exocytosis complex; 3.01A {Saccharomyces cerevisiae} Back     alignment and structure
>3f1i_S STAM-1, signal transducing adapter molecule 1; HGS, ESCRT, ubiquitin, MVB, endosome, membrane, metal- phosphoprotein, protein transport, transport; 2.30A {Homo sapiens} Back     alignment and structure
>2pjw_V Vacuolar protein sorting-associated protein 27; GAT domain, core complex, doamin SWAP, endocytosis/exocytosis complex; 3.01A {Saccharomyces cerevisiae} Back     alignment and structure
>1sz9_A PCF11 protein; RNA polymerase II CTD interacting domain, arm repeats, transcription; 2.10A {Saccharomyces cerevisiae} SCOP: a.118.9.4 PDB: 1sza_A* 2bf0_X Back     alignment and structure
>3f1i_H Hepatocyte growth factor-regulated tyrosine kinas substrate; HGS, ESCRT, ubiquitin, MVB, endosome, membrane, metal- phosphoprotein, protein transport, transport; 2.30A {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 544
d1wrda193 a.7.8.1 (A:215-307) Target of Myb protein 1, TOM1 9e-25
d1wr6a190 a.7.8.1 (A:211-300) ADP-ribosylation factor bindin 4e-24
d1o3xa_112 a.7.8.1 (A:) ADP-ribosylation factor binding prote 2e-22
d1dvpa1145 a.118.9.2 (A:1-145) Hrs {Fruit fly (Drosophila mel 3e-19
d1juqa_151 a.118.9.2 (A:) ADP-ribosylation factor binding pro 2e-18
d1elka_153 a.118.9.2 (A:) Tom1 protein {Human (Homo sapiens) 4e-17
d1mhqa_143 a.118.9.2 (A:) ADP-ribosylation factor binding pro 5e-17
d1ujka_145 a.118.9.2 (A:) ADP-ribosylation factor binding pro 1e-15
d1szaa_144 a.118.9.4 (A:) PCF11 protein {Baker's yeast (Sacch 2e-06
>d1wrda1 a.7.8.1 (A:215-307) Target of Myb protein 1, TOM1 {Human (Homo sapiens) [TaxId: 9606]} Length = 93 Back     information, alignment and structure

class: All alpha proteins
fold: Spectrin repeat-like
superfamily: GAT-like domain
family: GAT domain
domain: Target of Myb protein 1, TOM1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 96.0 bits (239), Expect = 9e-25
 Identities = 20/78 (25%), Positives = 45/78 (57%)

Query: 124 SSLDSMRDVMELLSDMLQAVNPSDREAVKDEVIVDLVSRCRSNQKKLMQMLTTTGDEELL 183
           S L+ +   + ++S+ML  + P+  E    E++ +L   CR+ Q+++++++    +E+L 
Sbjct: 8   SELEMVSGNVRVMSEMLTELVPTQAEPADLELLQELNRTCRAMQQRVLELIPQIANEQLT 67

Query: 184 GRGLELNDILQNLLAKHD 201
              L +ND L N+  +H+
Sbjct: 68  EELLIVNDNLNNVFLRHE 85
>d1wr6a1 a.7.8.1 (A:211-300) ADP-ribosylation factor binding protein Gga3 {Human (Homo sapiens) [TaxId: 9606]} Length = 90 Back     information, alignment and structure
>d1o3xa_ a.7.8.1 (A:) ADP-ribosylation factor binding protein Gga1 {Human (Homo sapiens) [TaxId: 9606]} Length = 112 Back     information, alignment and structure
>d1dvpa1 a.118.9.2 (A:1-145) Hrs {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 145 Back     information, alignment and structure
>d1juqa_ a.118.9.2 (A:) ADP-ribosylation factor binding protein Gga3 {Human (Homo sapiens) [TaxId: 9606]} Length = 151 Back     information, alignment and structure
>d1elka_ a.118.9.2 (A:) Tom1 protein {Human (Homo sapiens) [TaxId: 9606]} Length = 153 Back     information, alignment and structure
>d1mhqa_ a.118.9.2 (A:) ADP-ribosylation factor binding protein Gga2 {Human (Homo sapiens) [TaxId: 9606]} Length = 143 Back     information, alignment and structure
>d1ujka_ a.118.9.2 (A:) ADP-ribosylation factor binding protein Gga1 {Human (Homo sapiens) [TaxId: 9606]} Length = 145 Back     information, alignment and structure
>d1szaa_ a.118.9.4 (A:) PCF11 protein {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 144 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 ?
Query544
d1o3xa_112 ADP-ribosylation factor binding protein Gga1 {Huma 99.89
d1wrda193 Target of Myb protein 1, TOM1 {Human (Homo sapiens 99.86
d1wr6a190 ADP-ribosylation factor binding protein Gga3 {Huma 99.85
d1dvpa1145 Hrs {Fruit fly (Drosophila melanogaster) [TaxId: 7 99.8
d1elka_153 Tom1 protein {Human (Homo sapiens) [TaxId: 9606]} 99.78
d1juqa_151 ADP-ribosylation factor binding protein Gga3 {Huma 99.76
d1mhqa_143 ADP-ribosylation factor binding protein Gga2 {Huma 99.74
d1ujka_145 ADP-ribosylation factor binding protein Gga1 {Huma 99.72
d1szaa_144 PCF11 protein {Baker's yeast (Saccharomyces cerevi 89.66
>d1o3xa_ a.7.8.1 (A:) ADP-ribosylation factor binding protein Gga1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All alpha proteins
fold: Spectrin repeat-like
superfamily: GAT-like domain
family: GAT domain
domain: ADP-ribosylation factor binding protein Gga1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.89  E-value=1.5e-23  Score=183.80  Aligned_cols=104  Identities=17%  Similarity=0.366  Sum_probs=92.5

Q ss_pred             CcccccchhhHHHhhh------hHHHHHHHHHHHHHHHHHHHhhCCCCc-ccchhHHHHHHHHHHHHHHHHHHHHhhhc-
Q 009068          106 SSRRLDETMATEVETL------SFSSLDSMRDVMELLSDMLQAVNPSDR-EAVKDEVIVDLVSRCRSNQKKLMQMLTTT-  177 (544)
Q Consensus       106 eAnrLiKsM~~E~ekl------s~sELe~V~~nveLLnEML~~~nP~d~-~~~ddElI~EL~eqCKsmQprI~rLIeet-  177 (544)
                      +||+|||.|+++.+..      ..+||++|++|++||+|||+++++++. ..+++|+|+|||++||+||+||++||+++ 
T Consensus         1 aAN~LiK~m~~e~e~~~e~~~k~~~eLe~v~~n~~lL~eML~~~~~~~~~~~~~~ell~eL~~~c~~~qp~i~~li~~~~   80 (112)
T d1o3xa_           1 AANKLIKEMVQEDQKRMEKISKRVNAIEEVNNNVKLLTEMVMSHSQGGAAAGSSEDLMKELYQRCERMRPTLFRLASDTE   80 (112)
T ss_dssp             CCCSSTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHTTCT
T ss_pred             CcHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence            4899999999864422      368999999999999999999988654 44677999999999999999999999987 


Q ss_pred             CCHHHHHHhhhhhHHHHHHHHHHHHHhcCCCC
Q 009068          178 GDEELLGRGLELNDILQNLLAKHDAIASGLPI  209 (544)
Q Consensus       178 dDEElL~eLL~LNDeLn~aL~rYd~L~sG~~~  209 (544)
                      +||++|+++|++||+|+++|.+|+++++|+.+
T Consensus        81 ddee~l~elL~~ND~L~~vl~rY~~~~~g~~~  112 (112)
T d1o3xa_          81 DNDEALAEILQANDNLTQVINLYKQLVRGEEV  112 (112)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHHHHHHHHTCCC
T ss_pred             CcHHHHHHHHHHHHHHHHHHHHHHHHHcCCCC
Confidence            68999999999999999999999999999863
>d1wrda1 a.7.8.1 (A:215-307) Target of Myb protein 1, TOM1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1wr6a1 a.7.8.1 (A:211-300) ADP-ribosylation factor binding protein Gga3 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1dvpa1 a.118.9.2 (A:1-145) Hrs {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Back     information, alignment and structure
>d1elka_ a.118.9.2 (A:) Tom1 protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1juqa_ a.118.9.2 (A:) ADP-ribosylation factor binding protein Gga3 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1mhqa_ a.118.9.2 (A:) ADP-ribosylation factor binding protein Gga2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1ujka_ a.118.9.2 (A:) ADP-ribosylation factor binding protein Gga1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1szaa_ a.118.9.4 (A:) PCF11 protein {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure