Citrus Sinensis ID: 027570

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-
MSDVFERYERQYCEISANLSKKCTAAASLDGERKKQKVSEIQTGLDEAESLIRKMDLEARSLQPNVKAVLLAKLREYKSDLNNLKSEVKRLVSGNLNAAARDELLESGMADALTASADQRSRLMMSTERVNQSTDRIKDSRRTMLETEELGVSILQDLSSQRQSLLHAHNTLHGVDDNVSKSKKVLTAMSRRMSRNKWIIGTVVAVLVIAIILILYFKLAK
ccHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
cHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHcccccccccccHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
MSDVFERYERQYCEISANLSKKCTAAASLDGERKKQKVSEIQTGLDEAESLIRKMDLEARSLQPNVKAVLLAKLREYKSDLNNLKSEVKRLVSGNLNAAARDELLESGMADALTASADQRSRLMMSTERVNQSTDRIKDSRRTMLETEELGVSILQDLSSQRQSLLHAHNtlhgvddnvsKSKKVLTAMSRRMSRNKWIIGTVVAVLVIAIILILYFKLAK
MSDVFERYERQYCeisanlskKCTAaasldgerkkqkvseiqtgldeaESLIRKMDlearslqpnVKAVLLAKLREYKSDLNNLKSEVKRLVSGNLNAAARDELLESGMADALTAsadqrsrlmmstervnqstdrikdsrrTMLETEELGVSILQDLSSQRQSLLHAHntlhgvddnvskSKKVLTAMSrrmsrnkwiigTVVAVLVIAIILILYFKLAK
MSDVFERYERQYCEISANLSKKCTAAASLDGERKKQKVSEIQTGLDEAESLIRKMDLEARSLQPNVKAVLLAKLREYKSDLNNLKSEVKRLVSGNLNAAARDELLESGMADALTASADQRSRLMMSTERVNQSTDRIKDSRRTMLETEELGVsilqdlssqrqsllHAHNTLHGVDDNVSKSKKVLTAMSRRMSRNKWIIGTvvavlviaiililYFKLAK
*********RQYCEISA***********************************************NVKAVLLAKLREYK******************************************************************************************************************MSRNKWIIGTVVAVLVIAIILILYFKL**
MSDVFERYERQYCEISAN**************************LDEAESLIRK*********************EYKSDLNNLKSE***********************************************************TEELGVSILQ**************T*HGVDDNVSKSKKVLTAMSRRMSRNKWIIGTVVAVLVIAIILILYFKLAK
MSDVFERYERQYCEISANLSKKCTAAA****************GLDEAESLIRKMDLEARSLQPNVKAVLLAKLREYKSDLNNLKSEVKRLVSGNLNAAARDELLESGMADALTASADQRSRLM*************KDSRRTMLETEELGVSILQDLSSQRQSLLHAHNTLHGVDDNVSKSKKVLTAMSRRMSRNKWIIGTVVAVLVIAIILILYFKLAK
*SDVFERYERQYCEISANLSKKCTAAASLDGERKKQKVSEIQTGLDEAESLIRKMDLEARSLQPNVKAVLLAKLREYKSDLNNLKSEVKRLVS****************A****ASADQRSRLMMSTERVNQSTDRIKDSRRTMLETEELGVSILQDLSSQRQSLLHAHNTLHGVDDNVSKSKKVLTAMSRRMSRNKWIIGTVVAVLVIAIILILYFKLAK
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MSDVFERYERQYCEISANLSKKCTAAASLDGERKKQKVSEIQTGLDEAESLIRKMDLEARSLQPNVxxxxxxxxxxxxxxxxxxxxxxxxxxxxNLNAAARDELLESGMADALTASADQRSRLMMSTERVNQSTDRIKDSRRTMLETEELGVSILQDLSSQRQSLLHAHNTLHGVDDNVSKSKKVLTAMSRRMSRNKWIIGTVVAVLVIAIILILYFKLAK
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 ?
Query221 2.2.26 [Sep-21-2011]
Q9LVP9221 Vesicle transport v-SNARE yes no 1.0 1.0 0.764 6e-99
Q9SEL6221 Vesicle transport v-SNARE yes no 1.0 1.0 0.733 6e-89
Q9SEL5222 Vesicle transport v-SNARE no no 0.995 0.990 0.683 5e-85
O89116217 Vesicle transport through yes no 0.959 0.976 0.313 2e-27
Q96AJ9217 Vesicle transport through yes no 0.977 0.995 0.298 2e-26
Q9JI51224 Vesicle transport through yes no 0.959 0.946 0.299 2e-24
Q54CK6217 Vesicle transport through yes no 0.859 0.875 0.269 5e-16
Q04338217 t-SNARE VTI1 OS=Saccharom yes no 0.764 0.778 0.358 3e-15
O88384232 Vesicle transport through no no 0.832 0.793 0.297 3e-15
P58200232 Vesicle transport through no no 0.828 0.788 0.316 2e-14
>sp|Q9LVP9|VTI13_ARATH Vesicle transport v-SNARE 13 OS=Arabidopsis thaliana GN=VTI13 PE=2 SV=1 Back     alignment and function desciption
 Score =  360 bits (923), Expect = 6e-99,   Method: Compositional matrix adjust.
 Identities = 169/221 (76%), Positives = 197/221 (89%)

Query: 1   MSDVFERYERQYCEISANLSKKCTAAASLDGERKKQKVSEIQTGLDEAESLIRKMDLEAR 60
           MS  FERYERQYCEISANLSKKCT+A +LDGE+KKQ +SEI++G++EAE+L++KMDLEAR
Sbjct: 1   MSQGFERYERQYCEISANLSKKCTSAIALDGEQKKQNLSEIKSGVEEAEALVKKMDLEAR 60

Query: 61  SLQPNVKAVLLAKLREYKSDLNNLKSEVKRLVSGNLNAAARDELLESGMADALTASADQR 120
           +L PNVK+ LL KLREYKSDLNN K+EVKR+ SGNLNA ARDELLE+GMAD LTASADQR
Sbjct: 61  NLPPNVKSSLLVKLREYKSDLNNFKTEVKRITSGNLNATARDELLEAGMADTLTASADQR 120

Query: 121 SRLMMSTERVNQSTDRIKDSRRTMLETEELGVSILQDLSSQRQSLLHAHNTLHGVDDNVS 180
           SRLMMST+ + ++TDRIKDSRRT+LETEELGVSILQDL  QRQSLL AH TLHGVDDNV 
Sbjct: 121 SRLMMSTDHLGRTTDRIKDSRRTILETEELGVSILQDLHGQRQSLLRAHETLHGVDDNVG 180

Query: 181 KSKKVLTAMSRRMSRNKWIIGTVVAVLVIAIILILYFKLAK 221
           KSKK+LT M+RRM+RNKW IG ++ VLV+AII ILYFKL +
Sbjct: 181 KSKKILTTMTRRMNRNKWTIGAIITVLVLAIIFILYFKLTR 221
May function as a v-SNARE responsible for targeting vesicles involved in the secretory pathway.
Arabidopsis thaliana (taxid: 3702)
>sp|Q9SEL6|VTI11_ARATH Vesicle transport v-SNARE 11 OS=Arabidopsis thaliana GN=VTI11 PE=1 SV=2 Back     alignment and function description
>sp|Q9SEL5|VTI12_ARATH Vesicle transport v-SNARE 12 OS=Arabidopsis thaliana GN=VTI12 PE=1 SV=3 Back     alignment and function description
>sp|O89116|VTI1A_MOUSE Vesicle transport through interaction with t-SNAREs homolog 1A OS=Mus musculus GN=Vti1a PE=1 SV=1 Back     alignment and function description
>sp|Q96AJ9|VTI1A_HUMAN Vesicle transport through interaction with t-SNAREs homolog 1A OS=Homo sapiens GN=VTI1A PE=1 SV=2 Back     alignment and function description
>sp|Q9JI51|VTI1A_RAT Vesicle transport through interaction with t-SNAREs homolog 1A OS=Rattus norvegicus GN=Vti1a PE=1 SV=1 Back     alignment and function description
>sp|Q54CK6|VTI1A_DICDI Vesicle transport through interaction with t-SNAREs homolog 1A OS=Dictyostelium discoideum GN=vti1A PE=1 SV=1 Back     alignment and function description
>sp|Q04338|VTI1_YEAST t-SNARE VTI1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=VTI1 PE=1 SV=3 Back     alignment and function description
>sp|O88384|VTI1B_MOUSE Vesicle transport through interaction with t-SNAREs homolog 1B OS=Mus musculus GN=Vti1b PE=1 SV=1 Back     alignment and function description
>sp|P58200|VTI1B_RAT Vesicle transport through interaction with t-SNAREs homolog 1B OS=Rattus norvegicus GN=Vti1b PE=1 SV=2 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query221
358249256221 uncharacterized protein LOC100815385 [Gl 1.0 1.0 0.814 1e-105
357496517221 Vesicle transport v-SNARE [Medicago trun 1.0 1.0 0.805 1e-104
224080207220 predicted protein [Populus trichocarpa] 0.990 0.995 0.808 1e-102
388511477221 unknown [Lotus japonicus] 1.0 1.0 0.809 1e-102
225457347221 PREDICTED: vesicle transport v-SNARE 13 0.995 0.995 0.809 1e-101
255578288220 vesicle transport V-snare protein vti1a, 0.990 0.995 0.849 1e-100
297733941279 unnamed protein product [Vitis vinifera] 0.995 0.788 0.809 1e-100
297818544221 vesicle transport v-SNARE 13 [Arabidopsi 1.0 1.0 0.791 1e-100
225452897221 PREDICTED: vesicle transport v-SNARE 13 1.0 1.0 0.787 2e-98
296082955285 unnamed protein product [Vitis vinifera] 1.0 0.775 0.787 3e-98
>gi|358249256|ref|NP_001239763.1| uncharacterized protein LOC100815385 [Glycine max] gi|255634551|gb|ACU17638.1| unknown [Glycine max] Back     alignment and taxonomy information
 Score =  387 bits (994), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 180/221 (81%), Positives = 210/221 (95%)

Query: 1   MSDVFERYERQYCEISANLSKKCTAAASLDGERKKQKVSEIQTGLDEAESLIRKMDLEAR 60
           MS+VFE YERQYCE+SANL+KKCTAA +L+GE+KKQKVSE++ G+DEAE+LIRKMDLEAR
Sbjct: 1   MSNVFEGYERQYCELSANLAKKCTAAGALNGEQKKQKVSEVKAGIDEAEALIRKMDLEAR 60

Query: 61  SLQPNVKAVLLAKLREYKSDLNNLKSEVKRLVSGNLNAAARDELLESGMADALTASADQR 120
           SLQPN+K VLLAKLREYKSDLNNLKSEVK++VSGNLN +ARDELLESGMADA+TASADQR
Sbjct: 61  SLQPNIKGVLLAKLREYKSDLNNLKSEVKKIVSGNLNPSARDELLESGMADAMTASADQR 120

Query: 121 SRLMMSTERVNQSTDRIKDSRRTMLETEELGVSILQDLSSQRQSLLHAHNTLHGVDDNVS 180
           +RLM+STER+N+++DR+KDSRRTMLETEELGVSILQDL SQRQSLLHAHNTLHGVDDN+ 
Sbjct: 121 TRLMVSTERLNKTSDRVKDSRRTMLETEELGVSILQDLHSQRQSLLHAHNTLHGVDDNIG 180

Query: 181 KSKKVLTAMSRRMSRNKWIIGTVVAVLVIAIILILYFKLAK 221
           KSKK+LT MSRRM++NKW+IG +V VLVIAII+ILYFK +K
Sbjct: 181 KSKKILTNMSRRMNKNKWVIGGIVLVLVIAIIVILYFKFSK 221

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|357496517|ref|XP_003618547.1| Vesicle transport v-SNARE [Medicago truncatula] gi|355493562|gb|AES74765.1| Vesicle transport v-SNARE [Medicago truncatula] gi|388504124|gb|AFK40128.1| unknown [Medicago truncatula] Back     alignment and taxonomy information
>gi|224080207|ref|XP_002306052.1| predicted protein [Populus trichocarpa] gi|118481869|gb|ABK92871.1| unknown [Populus trichocarpa] gi|222849016|gb|EEE86563.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|388511477|gb|AFK43800.1| unknown [Lotus japonicus] Back     alignment and taxonomy information
>gi|225457347|ref|XP_002284602.1| PREDICTED: vesicle transport v-SNARE 13 [Vitis vinifera] Back     alignment and taxonomy information
>gi|255578288|ref|XP_002530011.1| vesicle transport V-snare protein vti1a, putative [Ricinus communis] gi|223530490|gb|EEF32373.1| vesicle transport V-snare protein vti1a, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|297733941|emb|CBI15188.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|297818544|ref|XP_002877155.1| vesicle transport v-SNARE 13 [Arabidopsis lyrata subsp. lyrata] gi|297322993|gb|EFH53414.1| vesicle transport v-SNARE 13 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|225452897|ref|XP_002283972.1| PREDICTED: vesicle transport v-SNARE 13 [Vitis vinifera] Back     alignment and taxonomy information
>gi|296082955|emb|CBI22256.3| unnamed protein product [Vitis vinifera] 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 ?
Query221
TAIR|locus:2175733221 SGR4 "SHOOT GRAVITROPSIM 4" [A 1.0 1.0 0.656 1.7e-73
TAIR|locus:2200595222 VTI1B [Arabidopsis thaliana (t 0.904 0.900 0.646 4.7e-64
TAIR|locus:2094662195 VTI13 "vesicle transport V-sna 0.769 0.871 0.652 1.1e-53
TAIR|locus:2164830207 AT5G39630 [Arabidopsis thalian 0.837 0.893 0.455 8.9e-38
MGI|MGI:1855699217 Vti1a "vesicle transport throu 0.882 0.898 0.295 2.3e-23
UNIPROTKB|Q96AJ9217 VTI1A "Vesicle transport throu 0.882 0.898 0.29 1.3e-22
UNIPROTKB|J9NRK3217 VTI1A "Uncharacterized protein 0.882 0.898 0.295 1.6e-22
UNIPROTKB|E1BYU6187 VTI1A "Uncharacterized protein 0.846 1.0 0.296 1.1e-21
RGD|621490224 Vti1a "vesicle transport throu 0.900 0.888 0.285 1.5e-21
ASPGD|ASPL0000044157224 AN1973 [Emericella nidulans (t 0.873 0.861 0.292 8e-21
TAIR|locus:2175733 SGR4 "SHOOT GRAVITROPSIM 4" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 742 (266.3 bits), Expect = 1.7e-73, P = 1.7e-73
 Identities = 145/221 (65%), Positives = 174/221 (78%)

Query:     1 MSDVFERYERQYCEISANLSKKCTAAASLDGERKKQKVSEIQTGLDEAESLIRKMDLEAR 60
             MSDVF+ YERQYCE+SA+LSKKC++A SLDGE+KKQK+SEI++GL+ AE LIRKMDLEAR
Sbjct:     1 MSDVFDGYERQYCELSASLSKKCSSAISLDGEQKKQKLSEIKSGLENAEVLIRKMDLEAR 60

Query:    61 SLQPNVKAVLLAKLREYKSDLNNLKSEVKRLVSGNLNAAARDELLESGMADALTASADQR 120
             +L PN+K+ LL KLRE+KSDLNN K+EVKR+ SG LNAAARDELLE+GMAD  TASADQR
Sbjct:    61 TLPPNLKSSLLVKLREFKSDLNNFKTEVKRITSGQLNAAARDELLEAGMADTKTASADQR 120

Query:   121 SRLMMSTERVNQSTDRIKDSRRTMLETEELGVXXXXXXXXXXXXXXHAHNTLHGVDDNVS 180
             +RLMMSTER+ ++TDR+KDSRRTM+ETEE+GV               AH TLHGVDDN+ 
Sbjct:   121 ARLMMSTERLGRTTDRVKDSRRTMMETEEIGVSILQDLHGQRQSLLRAHETLHGVDDNIG 180

Query:   181 KSKKVLTAMSRRMSRNKWIIGTXXXXXXXXXXXXXYFKLAK 221
             KSKK+LT M+RRM++NKW IG              YFKL K
Sbjct:   181 KSKKILTDMTRRMNKNKWTIGAIIIALIAAIFIILYFKLTK 221
GO:0006886 "intracellular protein transport" evidence=IEA
GO:0005515 "protein binding" evidence=IPI
GO:0005770 "late endosome" evidence=IDA;TAS
GO:0005802 "trans-Golgi network" evidence=IDA;TAS
GO:0006896 "Golgi to vacuole transport" evidence=IGI
GO:0004872 "receptor activity" evidence=TAS
GO:0009630 "gravitropism" evidence=IMP
GO:0030140 "trans-Golgi network transport vesicle" evidence=IDA
GO:0005773 "vacuole" evidence=IDA
GO:0000325 "plant-type vacuole" evidence=IDA
GO:0005774 "vacuolar membrane" evidence=IDA
GO:0006623 "protein targeting to vacuole" evidence=RCA;IMP
GO:0005829 "cytosol" evidence=RCA
GO:0000902 "cell morphogenesis" evidence=RCA
GO:0006605 "protein targeting" evidence=RCA
GO:0006816 "calcium ion transport" evidence=RCA
GO:0006944 "cellular membrane fusion" evidence=RCA
GO:0007030 "Golgi organization" evidence=RCA
GO:0007033 "vacuole organization" evidence=RCA
GO:0009651 "response to salt stress" evidence=RCA
GO:0016049 "cell growth" evidence=RCA
GO:0016192 "vesicle-mediated transport" evidence=RCA
GO:0016197 "endosomal transport" evidence=RCA
GO:0048193 "Golgi vesicle transport" evidence=RCA
TAIR|locus:2200595 VTI1B [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2094662 VTI13 "vesicle transport V-snare 13" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2164830 AT5G39630 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
MGI|MGI:1855699 Vti1a "vesicle transport through interaction with t-SNAREs 1A" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|Q96AJ9 VTI1A "Vesicle transport through interaction with t-SNAREs homolog 1A" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|J9NRK3 VTI1A "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|E1BYU6 VTI1A "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
RGD|621490 Vti1a "vesicle transport through interaction with t-SNAREs 1A" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
ASPGD|ASPL0000044157 AN1973 [Emericella nidulans (taxid:162425)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

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

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q9SEL6VTI11_ARATHNo assigned EC number0.73301.01.0yesno
Q9LVP9VTI13_ARATHNo assigned EC number0.76471.01.0yesno
P78768VTI1_SCHPONo assigned EC number0.30540.83710.8644yesno
O89116VTI1A_MOUSENo assigned EC number0.31330.95920.9769yesno

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 ?
Query221
pfam0500879 pfam05008, V-SNARE, Vesicle transport v-SNARE prot 5e-24
pfam1235266 pfam12352, V-SNARE_C, Snare region anchored in the 5e-18
pfam0390892 pfam03908, Sec20, Sec20 0.003
>gnl|CDD|203149 pfam05008, V-SNARE, Vesicle transport v-SNARE protein N-terminus Back     alignment and domain information 
 Score = 90.7 bits (226), Expect = 5e-24
 Identities = 35/79 (44%), Positives = 51/79 (64%)

Query: 12 YCEISANLSKKCTAAASLDGERKKQKVSEIQTGLDEAESLIRKMDLEARSLQPNVKAVLL 71
          + E+ A + +K      L GE +K  + EI+  LDEAE L+ +M+LE R+L  + +A   
Sbjct: 1  FKELLAEIKRKLARIPKLSGEERKAALREIERKLDEAEELLDQMELEVRNLPSSERAKYN 60

Query: 72 AKLREYKSDLNNLKSEVKR 90
          AKLREYKS+L+ LK E+KR
Sbjct: 61 AKLREYKSELDKLKRELKR 79

V-SNARE proteins are required for protein traffic between eukaryotic organelles. The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this. This domain is the N-terminal half of the V-Snare proteins. Length = 79
>gnl|CDD|152787 pfam12352, V-SNARE_C, Snare region anchored in the vesicle membrane C-terminus Back     alignment and domain information
>gnl|CDD|112708 pfam03908, Sec20, Sec20 Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 221
KOG1666220 consensus V-SNARE [Intracellular trafficking, secr 100.0
KOG3251213 consensus Golgi SNAP receptor complex member [Intr 99.94
KOG3208231 consensus SNARE protein GS28 [Intracellular traffi 99.92
PF0500879 V-SNARE: Vesicle transport v-SNARE protein N-termi 99.6
PF1235266 V-SNARE_C: Snare region anchored in the vesicle me 99.55
PF0390892 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membr 99.52
KOG3202235 consensus SNARE protein TLG1/Syntaxin 6 [Intracell 98.67
KOG0812311 consensus SNARE protein SED5/Syntaxin 5 [Intracell 98.36
PF09753251 Use1: Membrane fusion protein Use1; InterPro: IPR0 98.15
KOG0809305 consensus SNARE protein TLG2/Syntaxin 16 [Intracel 97.99
PF0095789 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 97.93
KOG0810297 consensus SNARE protein Syntaxin 1 and related pro 97.91
COG5074280 t-SNARE complex subunit, syntaxin [Intracellular t 97.88
KOG0860116 consensus Synaptobrevin/VAMP-like protein [Intrace 97.63
KOG3385118 consensus V-SNARE [Intracellular trafficking, secr 97.43
KOG0811269 consensus SNARE protein PEP12/VAM3/Syntaxin 7/Synt 97.26
COG5325283 t-SNARE complex subunit, syntaxin [Intracellular t 97.14
smart0039766 t_SNARE Helical region found in SNAREs. All alpha- 96.87
KOG3894316 consensus SNARE protein Syntaxin 18/UFE1 [Intracel 96.87
KOG3065 273 consensus SNAP-25 (synaptosome-associated protein) 96.84
KOG2678244 consensus Predicted membrane protein [Function unk 96.77
PF0421070 MtrG: Tetrahydromethanopterin S-methyltransferase, 96.07
KOG1666220 consensus V-SNARE [Intracellular trafficking, secr 96.01
PF0573963 SNARE: SNARE domain; InterPro: IPR000727 The proce 96.0
PRK0102677 tetrahydromethanopterin S-methyltransferase subuni 95.7
TIGR0114970 mtrG N5-methyltetrahydromethanopterin:coenzyme M m 95.64
PRK10884206 SH3 domain-containing protein; Provisional 95.57
COG406475 MtrG Tetrahydromethanopterin S-methyltransferase, 95.56
PF0095789 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 94.78
cd0019360 t_SNARE Soluble NSF (N-ethylmaleimide-sensitive fu 94.6
PF06160560 EzrA: Septation ring formation regulator, EzrA ; I 94.24
PF0988959 DUF2116: Uncharacterized protein containing a Zn-r 93.75
PF06008264 Laminin_I: Laminin Domain I; InterPro: IPR009254 L 91.61
KOG0859217 consensus Synaptobrevin/VAMP-like protein [Intrace 91.1
PF06008264 Laminin_I: Laminin Domain I; InterPro: IPR009254 L 90.88
PF1291156 OppC_N: N-terminal TM domain of oligopeptide trans 90.32
PF03904230 DUF334: Domain of unknown function (DUF334); Inter 90.06
PF05478 806 Prominin: Prominin; InterPro: IPR008795 The promin 89.26
PRK04778 569 septation ring formation regulator EzrA; Provision 89.16
KOG0862216 consensus Synaptobrevin/VAMP-like protein SEC22 [I 89.1
PF1518885 CCDC-167: Coiled-coil domain-containing protein 16 88.77
PF0988959 DUF2116: Uncharacterized protein containing a Zn-r 87.7
PRK1542279 septal ring assembly protein ZapB; Provisional 86.83
PF09753251 Use1: Membrane fusion protein Use1; InterPro: IPR0 86.67
KOG4603201 consensus TBP-1 interacting protein [Signal transd 85.7
PRK1476227 membrane protein; Provisional 85.41
PHA0265081 hypothetical protein; Provisional 85.4
TIGR0129452 P_lamban phospholamban. This model represents the 85.14
PHA03240258 envelope glycoprotein M; Provisional 85.02
PF10805106 DUF2730: Protein of unknown function (DUF2730); In 84.48
KOG3208231 consensus SNARE protein GS28 [Intracellular traffi 84.26
PHA0281971 hypothetical protein; Provisional 83.76
PF1266958 P12: Virus attachment protein p12 family 83.42
PF0427252 Phospholamban: Phospholamban; InterPro: IPR005984 83.36
PF0811443 PMP1_2: ATPase proteolipid family; InterPro: IPR01 83.02
PHA0284475 putative transmembrane protein; Provisional 82.55
PF1077971 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemoly 82.18
COG307479 Uncharacterized protein conserved in bacteria [Fun 81.61
PF05283186 MGC-24: Multi-glycosylated core protein 24 (MGC-24 81.5
PF06024101 DUF912: Nucleopolyhedrovirus protein of unknown fu 81.11
PF04678180 DUF607: Protein of unknown function, DUF607; Inter 80.6
PF12128 1201 DUF3584: Protein of unknown function (DUF3584); In 80.18
KOG3065273 consensus SNAP-25 (synaptosome-associated protein) 80.15
PHA0316488 hypothetical protein; Provisional 80.01
>KOG1666 consensus V-SNARE [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information 
Probab=100.00  E-value=9.7e-50  Score=306.84  Aligned_cols=220  Identities=54%  Similarity=0.776  Sum_probs=209.2

Q ss_pred             CchHHHHHHHHHHHHHHHHHHHHhHhhccChHHHHHHHHHHHhhHHHHHHHHHHHHHHhhcCChhHHHHHHHHHHHHHHH
Q 027570            1 MSDVFERYERQYCEISANLSKKCTAAASLDGERKKQKVSEIQTGLDEAESLIRKMDLEARSLQPNVKAVLLAKLREYKSD   80 (221)
Q Consensus         1 Ms~~f~~ye~e~~~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~me~e~~~~~~~~r~~~~~k~~~~r~~   80 (221)
                      ||++|+.||++|+.+.++|..+|+.+++.++++++..+++|+..+++|++++.+|+.|++.+||+.|..|..|+++|+.+
T Consensus         1 ms~~fe~yEqqy~~l~a~it~k~~~~~~~~~~ekk~~l~~i~~~leEa~ell~qMdlEvr~lp~~~Rs~~~~KlR~yksd   80 (220)
T KOG1666|consen    1 MSSLFEGYEQQYRELSAEITKKIGRALSLPGSEKKQLLSEIDSKLEEANELLDQMDLEVRELPPNFRSSYLSKLREYKSD   80 (220)
T ss_pred             CchHHHHHHHHHHHHHHHHHHhHHHHhcCCchHHHHHHHHHHHhHHHHHHHHHHHHHHHHhCCchhhhHHHHHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHccccchhhhhHhhhccccCcccccHHHHHHHhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 027570           81 LNNLKSEVKRLVSGNLNAAARDELLESGMADALTASADQRSRLMMSTERVNQSTDRIKDSRRTMLETEELGVSILQDLSS  160 (221)
Q Consensus        81 l~~l~~~~~~~~~~~~~~~~r~~Ll~~~~~~~~~~~~~~r~~~~~~~~~l~~~~~~L~~s~~~~~ete~~g~~~~~~L~~  160 (221)
                      ++.++.++++..+.....++|+++++....++...+.+||++++++++.|.+++++|.++++++.|||++|.+|+++|+.
T Consensus        81 l~~l~~e~k~~~~~~~~~~~rde~~~~~~add~~~~~dQR~rLl~nTerLeRst~rl~ds~Ria~ETEqIG~~IL~dL~~  160 (220)
T KOG1666|consen   81 LKKLKRELKRTTSRNLNAGDRDELLEALEADDQNISADQRARLLQNTERLERSTDRLKDSQRIALETEQIGSEILEDLHG  160 (220)
T ss_pred             HHHHHHHHHHhhccccccchHHHHHhhhhccccccchhHHHHHHhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999854444578899987765444445789999999999999999999999999999999999999999999


Q ss_pred             hhHhHHHHhcchhchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 027570          161 QRQSLLHAHNTLHGVDDNVSKSKKVLTAMSRRMSRNKWIIGTVVAVLVIAIILILYFKLA  220 (221)
Q Consensus       161 Qre~l~~~~~~~~~i~~~l~~s~~~l~~i~rr~~~dk~Il~~ii~il~i~i~~vl~~k~~  220 (221)
                      ||++|.+++..+.++++++++|+++++.|.||+.+|||++++||++++++|++++|+||+
T Consensus       161 QRe~L~rar~rL~~td~~lgkS~kiL~tM~RR~~~nk~~~~aii~~l~~~il~ilY~kf~  220 (220)
T KOG1666|consen  161 QREQLERARERLRETDANLGKSRKILTTMTRRLIRNKFTLTAIIALLVLAILLILYSKFT  220 (220)
T ss_pred             HHHHHHHHHHHHHhchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            999999999999999999999999999999999999999999999999999999999995

>KOG3251 consensus Golgi SNAP receptor complex member [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>KOG3208 consensus SNARE protein GS28 [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles Back     alignment and domain information
>PF12352 V-SNARE_C: Snare region anchored in the vesicle membrane C-terminus; PDB: 1GL2_C 2NPS_C Back     alignment and domain information
>PF03908 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membrane glycoprotein associated with secretory pathway Back     alignment and domain information
>KOG3202 consensus SNARE protein TLG1/Syntaxin 6 [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>KOG0812 consensus SNARE protein SED5/Syntaxin 5 [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PF09753 Use1: Membrane fusion protein Use1; InterPro: IPR019150 This entry represents a family of proteins, approximately 300 residues in length, involved in vesicle transport Back     alignment and domain information
>KOG0809 consensus SNARE protein TLG2/Syntaxin 16 [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PF00957 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 Synaptobrevin is an intrinsic membrane protein of small synaptic vesicles [], specialised secretory organelles of neurons that actively accumulate neurotransmitters and participate in their calcium-dependent release by exocytosis Back     alignment and domain information
>KOG0810 consensus SNARE protein Syntaxin 1 and related proteins [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>COG5074 t-SNARE complex subunit, syntaxin [Intracellular trafficking and secretion] Back     alignment and domain information
>KOG0860 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>KOG3385 consensus V-SNARE [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>KOG0811 consensus SNARE protein PEP12/VAM3/Syntaxin 7/Syntaxin 17 [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>COG5325 t-SNARE complex subunit, syntaxin [Intracellular trafficking and secretion] Back     alignment and domain information
>smart00397 t_SNARE Helical region found in SNAREs Back     alignment and domain information
>KOG3894 consensus SNARE protein Syntaxin 18/UFE1 [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>KOG3065 consensus SNAP-25 (synaptosome-associated protein) component of SNARE complex [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>KOG2678 consensus Predicted membrane protein [Function unknown] Back     alignment and domain information
>PF04210 MtrG: Tetrahydromethanopterin S-methyltransferase, subunit G ; InterPro: IPR005866 This model describes the N5-methyltetrahydromethanopterin: coenzyme M methyltransferase subunit G in methanogenic archaea Back     alignment and domain information
>KOG1666 consensus V-SNARE [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PF05739 SNARE: SNARE domain; InterPro: IPR000727 The process of vesicular fusion with target membranes depends on a set of SNAREs (SNAP-Receptors), which are associated with the fusing membranes [, ] Back     alignment and domain information
>PRK01026 tetrahydromethanopterin S-methyltransferase subunit G; Provisional Back     alignment and domain information
>TIGR01149 mtrG N5-methyltetrahydromethanopterin:coenzyme M methyltransferase subunit G Back     alignment and domain information
>PRK10884 SH3 domain-containing protein; Provisional Back     alignment and domain information
>COG4064 MtrG Tetrahydromethanopterin S-methyltransferase, subunit G [Coenzyme metabolism] Back     alignment and domain information
>PF00957 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 Synaptobrevin is an intrinsic membrane protein of small synaptic vesicles [], specialised secretory organelles of neurons that actively accumulate neurotransmitters and participate in their calcium-dependent release by exocytosis Back     alignment and domain information
>cd00193 t_SNARE Soluble NSF (N-ethylmaleimide-sensitive fusion protein)-Attachment protein (SNAP) REceptor domain; these alpha-helical motifs form twisted and parallel heterotetrameric helix bundles; the core complex contains one helix from a protein that is anchored in the vesicle membrane (synaptobrevin), one helix from a protein of the target membrane (syntaxin), and two helices from another protein anchored in the target membrane (SNAP-25); their interaction forms a core which is composed of a polar zero layer, a flanking leucine-zipper layer acts as a water tight shield to isolate ionic interactions in the zero layer from the surrounding solvent Back     alignment and domain information
>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site Back     alignment and domain information
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown Back     alignment and domain information
>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells Back     alignment and domain information
>KOG0859 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells Back     alignment and domain information
>PF12911 OppC_N: N-terminal TM domain of oligopeptide transport permease C Back     alignment and domain information
>PF03904 DUF334: Domain of unknown function (DUF334); InterPro: IPR005602 This is a family of proteins found in Staphylococcus aureus plasmid with no characterised function Back     alignment and domain information
>PF05478 Prominin: Prominin; InterPro: IPR008795 The prominins are an emerging family of proteins that, among the multispan membrane proteins, display a novel topology Back     alignment and domain information
>PRK04778 septation ring formation regulator EzrA; Provisional Back     alignment and domain information
>KOG0862 consensus Synaptobrevin/VAMP-like protein SEC22 [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167 Back     alignment and domain information
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown Back     alignment and domain information
>PRK15422 septal ring assembly protein ZapB; Provisional Back     alignment and domain information
>PF09753 Use1: Membrane fusion protein Use1; InterPro: IPR019150 This entry represents a family of proteins, approximately 300 residues in length, involved in vesicle transport Back     alignment and domain information
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms] Back     alignment and domain information
>PRK14762 membrane protein; Provisional Back     alignment and domain information
>PHA02650 hypothetical protein; Provisional Back     alignment and domain information
>TIGR01294 P_lamban phospholamban Back     alignment and domain information
>PHA03240 envelope glycoprotein M; Provisional Back     alignment and domain information
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins Back     alignment and domain information
>KOG3208 consensus SNARE protein GS28 [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PHA02819 hypothetical protein; Provisional Back     alignment and domain information
>PF12669 P12: Virus attachment protein p12 family Back     alignment and domain information
>PF04272 Phospholamban: Phospholamban; InterPro: IPR005984 Phospholamban (PLB) is a small protein (52 amino acids) that regulates the affinity of the cardiac sarcoplasmic reticulum Ca2+-ATPase (SERCA2a) for calcium Back     alignment and domain information
>PF08114 PMP1_2: ATPase proteolipid family; InterPro: IPR012589 This family consists of small proteolipids associated with the plasma membrane H+ ATPase Back     alignment and domain information
>PHA02844 putative transmembrane protein; Provisional Back     alignment and domain information
>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes [] Back     alignment and domain information
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown] Back     alignment and domain information
>PF05283 MGC-24: Multi-glycosylated core protein 24 (MGC-24); InterPro: IPR007947 CD164 is a mucin-like receptor, or sialomucin, with specificity in receptor/ ligand interactions that depends on the structural characteristics of the mucin-like receptor Back     alignment and domain information
>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins Back     alignment and domain information
>PF04678 DUF607: Protein of unknown function, DUF607; InterPro: IPR006769 This entry represents the C-terminal domain of coiled-coil domain containing protein 109 Back     alignment and domain information
>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins Back     alignment and domain information
>KOG3065 consensus SNAP-25 (synaptosome-associated protein) component of SNARE complex [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PHA03164 hypothetical protein; Provisional 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 ?
Query221
1vcs_A102 Solution Structure Of Rsgi Ruh-009, An N-Terminal D 1e-08
>pdb|1VCS|A Chain A, Solution Structure Of Rsgi Ruh-009, An N-Terminal Domain Of Vti1a [mus Musculus] Length = 102 Back     alignment and structure 
Iteration: 1

 Score = 56.2 bits (134), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 27/89 (30%), Positives = 51/89 (57%), Gaps = 2/89 (2%)
Query: 8  YERQYCEISANLSKKCTAAASLDGERKKQKVSEIQTGLDEAESLIRKMDLEARSLQPNVK 67
          YE+ +  ++A ++ K      L  + KKQ V+ ++  L+EA  L+ +MDLE R + P  +
Sbjct: 10 YEQDFAVLTAEITSKIARVPRLPPDEKKQMVANVEKQLEEARELLEQMDLEVREIPPQSR 69
Query: 68 AVLLAKLREYKSDLNNLKSEVK--RLVSG 94
           +   ++R YK ++  L+++ K  R+ SG
Sbjct: 70 GMYSNRMRSYKQEMGKLETDFKRSRIASG 98

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query221
2nps_C81 Vesicle transport through interaction with T- snar 1e-27
1vcs_A102 Vesicle transport through interaction with T- snar 1e-26
2qyw_A102 Vesicle transport through interaction with T-SNAR 6e-23
1gl2_C65 VTI1B, vesicle transport V-snare protein VTI1-like 9e-21
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-09
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-06
3onj_A97 T-snare VTI1; helix, HABC, protein transport; 1.92 5e-09
>2nps_C Vesicle transport through interaction with T- snares homolog 1A; vesicle fusion, snare complex, early endosomal snare complex, VTI1A, VAMP4, transport protein; 2.50A {Rattus norvegicus} Length = 81 Back     alignment and structure
 Score = 99.5 bits (248), Expect = 1e-27
 Identities = 27/81 (33%), Positives = 50/81 (61%)

Query: 117 ADQRSRLMMSTERVNQSTDRIKDSRRTMLETEELGVSILQDLSSQRQSLLHAHNTLHGVD 176
              R+ L+ +TER+ +S+ R++   +  +ETE++G  +L++LS  R+ +  A   L   D
Sbjct: 1   GSMRAHLLDNTERLERSSRRLEAGYQIAVETEQIGQEMLENLSHDRERIQRARERLRETD 60

Query: 177 DNVSKSKKVLTAMSRRMSRNK 197
            N+ KS ++LT M RR+ +N+
Sbjct: 61  ANLGKSSRILTGMLRRIIQNR 81
>1vcs_A Vesicle transport through interaction with T- snares homolog 1A; HABC domain, VTI1, UP and DOWN three helix bundle, LEFT-handed twist; NMR {Mus musculus} SCOP: a.47.2.1 Length = 102 Back     alignment and structure
>2qyw_A Vesicle transport through interaction with T-SNAR homolog; HABC domain, protein transport, endocytosis; 2.00A {Mus musculus} PDB: 2v8s_V Length = 102 Back     alignment and structure
>1gl2_C VTI1B, vesicle transport V-snare protein VTI1-like 1; membrane protein, membrane fusion protein complex, coiled coil, transmembrane; 1.9A {Mus musculus} SCOP: h.1.15.1 Length = 65 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>3onj_A T-snare VTI1; helix, HABC, protein transport; 1.92A {Saccharomyces cerevisiae} PDB: 3onl_C Length = 97 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query221
2qyw_A102 Vesicle transport through interaction with T-SNAR 99.84
1vcs_A102 Vesicle transport through interaction with T- snar 99.83
3onj_A97 T-snare VTI1; helix, HABC, protein transport; 1.92 99.81
2nps_C81 Vesicle transport through interaction with T- snar 99.77
1gl2_C65 VTI1B, vesicle transport V-snare protein VTI1-like 99.53
1n7s_C79 SNAP-25A; neuronal snare protein complex, four hel 99.26
1nhl_A54 Synaptosomal-associated protein 23; snare, coiled- 98.95
3b5n_C70 Protein transport protein SEC9; snare complex, syn 98.52
1l4a_C83 S-SNAP25 fusion protein; snare, snare complex, mem 98.39
3hd7_B109 Syntaxin-1A; membrane protein, coiled-coil, 4-heli 97.9
3hd7_A91 Vesicle-associated membrane protein 2; membrane pr 97.78
2kog_A119 Vesicle-associated membrane protein 2; synaptobrev 97.04
3hd7_A91 Vesicle-associated membrane protein 2; membrane pr 96.42
1gl2_D65 Syntaxin 8, vesicle transport V-snare protein VTI1 95.79
2nps_D82 Syntaxin-6; vesicle fusion, snare complex, early e 95.35
3b5n_D64 Protein transport protein SEC9; snare complex, syn 95.22
1sfc_D87 Protein (SNAP-25B), protein (synaptobrevin 2); mem 95.17
1n7s_D66 SNAP-25A; neuronal snare protein complex, four hel 94.97
1l4a_D87 S-SNAP25 fusion protein; snare, snare complex, mem 94.34
1dn1_B267 Syntaxin 1A, syntaxin binding protein 1; protein-p 92.85
2c5k_T95 Syntaxin TLG1, T-snare affecting A late golgi comp 91.2
2xhe_B279 Syntaxin1; exocytosis, exocytosis complex, snare, 85.77
3c98_B279 Syntaxin-1A; protein complex, alternative splicing 84.33
3ghg_A 562 Fibrinogen alpha chain; triple-stranded coiled coi 82.71
2jee_A81 YIIU; FTSZ, septum, coiled-coil, cell division, ce 82.59
2kog_A119 Vesicle-associated membrane protein 2; synaptobrev 82.47
>2qyw_A Vesicle transport through interaction with T-SNAR homolog; HABC domain, protein transport, endocytosis; 2.00A {Mus musculus} PDB: 2v8s_V Back     alignment and structure
Probab=99.84  E-value=2e-20  Score=131.59  Aligned_cols=89  Identities=25%  Similarity=0.365  Sum_probs=85.4

Q ss_pred             CchHHHHHHHHHHHHHHHHHHHHhHhhcc-ChHHHHHHHHHHHhhHHHHHHHHHHHHHHhhcCChhHHHHHHHHHHHHHH
Q 027570            1 MSDVFERYERQYCEISANLSKKCTAAASL-DGERKKQKVSEIQTGLDEAESLIRKMDLEARSLQPNVKAVLLAKLREYKS   79 (221)
Q Consensus         1 Ms~~f~~ye~e~~~~~~~i~~~l~~~~~~-~~~~~~~~~~~i~~~l~~~~~~l~~me~e~~~~~~~~r~~~~~k~~~~r~   79 (221)
                      ||++|++||++|+.+..+|..+|++++.. ++++|+..+++++..|++|+++|.+|+.|++++|++.|..|..|++.|+.
T Consensus        13 mSelFe~YE~df~~l~~~i~~kl~~i~~~~~~e~rk~~i~~ie~~ldEA~eLl~qMelE~r~~p~s~R~~~~~klr~Yk~   92 (102)
T 2qyw_A           13 SSEHFEKLHEIFRGLLEDLQGVPERLLGTAGTEEKKKLVRDFDEKQQEANETLAEMEEELRYAPLTFRNPMMSKLRNYRK   92 (102)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence            78999999999999999999999999876 77999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q 027570           80 DLNNLKSEVK   89 (221)
Q Consensus        80 ~l~~l~~~~~   89 (221)
                      +++.++++|+
T Consensus        93 dL~~lk~elk  102 (102)
T 2qyw_A           93 DLAKLHREVR  102 (102)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHhhcC
Confidence            9999998873
>1vcs_A Vesicle transport through interaction with T- snares homolog 1A; HABC domain, VTI1, UP and DOWN three helix bundle, LEFT-handed twist; NMR {Mus musculus} SCOP: a.47.2.1 Back     alignment and structure
>3onj_A T-snare VTI1; helix, HABC, protein transport; 1.92A {Saccharomyces cerevisiae} PDB: 3onl_C Back     alignment and structure
>2nps_C Vesicle transport through interaction with T- snares homolog 1A; vesicle fusion, snare complex, early endosomal snare complex, VTI1A, VAMP4, transport protein; 2.50A {Rattus norvegicus} Back     alignment and structure
>1gl2_C VTI1B, vesicle transport V-snare protein VTI1-like 1; membrane protein, membrane fusion protein complex, coiled coil, transmembrane; 1.9A {Mus musculus} SCOP: h.1.15.1 Back     alignment and structure
>1n7s_C SNAP-25A; neuronal snare protein complex, four helix bundle, transport protein; 1.45A {Rattus norvegicus} SCOP: h.1.15.1 PDB: 1sfc_C 1urq_C 3hd7_C* 3hd9_C 3ipd_C 3rk2_C 3rk3_C 3rl0_C 1kil_C 1jth_A Back     alignment and structure
>1nhl_A Synaptosomal-associated protein 23; snare, coiled-coil, protein transport; 2.30A {Homo sapiens} SCOP: h.1.15.1 Back     alignment and structure
>3b5n_C Protein transport protein SEC9; snare complex, syntaxin, synaptobrevin, SNAP-25, SSO1P, SNC1P, SEC9P, SSO1, SNC1, coiled coil; 1.60A {Saccharomyces cerevisiae} SCOP: h.1.15.1 Back     alignment and structure
>1l4a_C S-SNAP25 fusion protein; snare, snare complex, membrane fusion, neurotransmission, endocytosis/exocytosis complex; 2.95A {Loligo pealei} SCOP: h.1.15.1 Back     alignment and structure
>3hd7_B Syntaxin-1A; membrane protein, coiled-coil, 4-helical bundle, cell juncti cytoplasmic vesicle, membrane, phosphoprotein; HET: GGG; 3.40A {Rattus norvegicus} PDB: 3hd9_B 3ipd_B Back     alignment and structure
>3hd7_A Vesicle-associated membrane protein 2; membrane protein, coiled-coil, 4-helical bundle, cell juncti cytoplasmic vesicle, membrane, phosphoprotein; HET: GGG; 3.40A {Rattus norvegicus} PDB: 3hd9_A 3ipd_A Back     alignment and structure
>2kog_A Vesicle-associated membrane protein 2; synaptobrevin, VAMP2, DPC micelle, snare, coiled coil, membrane fusion, transmembrane; NMR {Rattus norvegicus} Back     alignment and structure
>3hd7_A Vesicle-associated membrane protein 2; membrane protein, coiled-coil, 4-helical bundle, cell juncti cytoplasmic vesicle, membrane, phosphoprotein; HET: GGG; 3.40A {Rattus norvegicus} PDB: 3hd9_A 3ipd_A Back     alignment and structure
>1gl2_D Syntaxin 8, vesicle transport V-snare protein VTI1-like 1; membrane protein, membrane fusion protein complex, coiled coil, transmembrane; 1.9A {Rattus norvegicus} SCOP: h.1.15.1 Back     alignment and structure
>2nps_D Syntaxin-6; vesicle fusion, snare complex, early endosomal snare complex, VTI1A, VAMP4, transport protein; 2.50A {Homo sapiens} Back     alignment and structure
>3b5n_D Protein transport protein SEC9; snare complex, syntaxin, synaptobrevin, SNAP-25, SSO1P, SNC1P, SEC9P, SSO1, SNC1, coiled coil; 1.60A {Saccharomyces cerevisiae} Back     alignment and structure
>1sfc_D Protein (SNAP-25B), protein (synaptobrevin 2); membrane fusion protein complex, transport protein; 2.40A {Rattus norvegicus} SCOP: h.1.15.1 Back     alignment and structure
>1n7s_D SNAP-25A; neuronal snare protein complex, four helix bundle, transport protein; 1.45A {Rattus norvegicus} SCOP: h.1.15.1 PDB: 3rk2_D 3rk3_D 3rl0_D 1kil_D 3hd7_D* 3hd9_D 3ipd_D 1urq_D 1xtg_B Back     alignment and structure
>1l4a_D S-SNAP25 fusion protein; snare, snare complex, membrane fusion, neurotransmission, endocytosis/exocytosis complex; 2.95A {Loligo pealei} SCOP: h.1.15.1 Back     alignment and structure
>1dn1_B Syntaxin 1A, syntaxin binding protein 1; protein-protein complex, multi-subunit; 2.60A {Rattus norvegicus} PDB: 3c98_B Back     alignment and structure
>2c5k_T Syntaxin TLG1, T-snare affecting A late golgi compartment protein 1; protein transport/complex, snare, VFT complex, protein transport, phosphorylation; 2.05A {Saccharomyces cerevisiae} PDB: 2c5j_A 2c5i_T Back     alignment and structure
>2xhe_B Syntaxin1; exocytosis, exocytosis complex, snare, neuro fusion, SM PROT choanoflagellates; 2.80A {Monosiga brevicollis} Back     alignment and structure
>3c98_B Syntaxin-1A; protein complex, alternative splicing, cytoplasm, membrane, phosphoprotein, protein transport, transport, coiled coil; 2.60A {Rattus norvegicus} Back     alignment and structure
>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G* Back     alignment and structure
>2jee_A YIIU; FTSZ, septum, coiled-coil, cell division, cell cycle, hypothetical protein; 2.8A {Escherichia coli} Back     alignment and structure
>2kog_A Vesicle-associated membrane protein 2; synaptobrevin, VAMP2, DPC micelle, snare, coiled coil, membrane fusion, transmembrane; NMR {Rattus norvegicus} 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 221
d1vcsa189 a.47.2.1 (A:8-96) Vesicle transport v-SNARE protei 2e-26
>d1vcsa1 a.47.2.1 (A:8-96) Vesicle transport v-SNARE protein Vti1-like 2 {Mouse (Mus musculus) [TaxId: 10090]} Length = 89 Back     information, alignment and structure

class: All alpha proteins
fold: STAT-like
superfamily: t-snare proteins
family: t-snare proteins
domain: Vesicle transport v-SNARE protein Vti1-like 2
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 95.1 bits (237), Expect = 2e-26
 Identities = 26/85 (30%), Positives = 49/85 (57%)

Query: 6  ERYERQYCEISANLSKKCTAAASLDGERKKQKVSEIQTGLDEAESLIRKMDLEARSLQPN 65
          E YE+ +  ++A ++ K      L  + KKQ V+ ++  L+EA  L+ +MDLE R + P 
Sbjct: 1  EGYEQDFAVLTAEITSKIARVPRLPPDEKKQMVANVEKQLEEARELLEQMDLEVREIPPQ 60

Query: 66 VKAVLLAKLREYKSDLNNLKSEVKR 90
           + +   ++R YK ++  L+++ KR
Sbjct: 61 SRGMYSNRMRSYKQEMGKLETDFKR 85

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query221
d1vcsa189 Vesicle transport v-SNARE protein Vti1-like 2 {Mou 99.79
>d1vcsa1 a.47.2.1 (A:8-96) Vesicle transport v-SNARE protein Vti1-like 2 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
class: All alpha proteins
fold: STAT-like
superfamily: t-snare proteins
family: t-snare proteins
domain: Vesicle transport v-SNARE protein Vti1-like 2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.79  E-value=2.8e-19  Score=120.51  Aligned_cols=87  Identities=30%  Similarity=0.589  Sum_probs=84.5

Q ss_pred             HHHHHHHHHHHHHHHHHHhHhhccChHHHHHHHHHHHhhHHHHHHHHHHHHHHhhcCChhHHHHHHHHHHHHHHHHHHHH
Q 027570            6 ERYERQYCEISANLSKKCTAAASLDGERKKQKVSEIQTGLDEAESLIRKMDLEARSLQPNVKAVLLAKLREYKSDLNNLK   85 (221)
Q Consensus         6 ~~ye~e~~~~~~~i~~~l~~~~~~~~~~~~~~~~~i~~~l~~~~~~l~~me~e~~~~~~~~r~~~~~k~~~~r~~l~~l~   85 (221)
                      ++||.+|+.+..+|..+|++++..+|++|++.+++++..|++|.++|.+|++|++++||+.|..|..|++.|+.+++.++
T Consensus         1 E~YE~~y~~l~a~i~~kl~~i~~~~geerk~~l~~ie~~leEA~ell~qMelEvr~~p~s~R~~~~~klr~Yk~dl~~lk   80 (89)
T d1vcsa1           1 EGYEQDFAVLTAEITSKIARVPRLPPDEKKQMVANVEKQLEEARELLEQMDLEVREIPPQSRGMYSNRMRSYKQEMGKLE   80 (89)
T ss_dssp             CCSHHHHHHHHHHHHHHHHHGGGSCTTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCTTTHHHHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHcCCchHHHHHHHHHHHhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            36999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHH
Q 027570           86 SEVKRLV   92 (221)
Q Consensus        86 ~~~~~~~   92 (221)
                      ++|++++
T Consensus        81 ~elk~a~   87 (89)
T d1vcsa1          81 TDFKRSR   87 (89)
T ss_dssp             HHTHHHH
T ss_pred             HHHHhhc
Confidence            9999875