Citrus Sinensis ID: 032327

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---
MAFLERVKDEFVSKYGGGKAATAPANGLNKEFGPKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQAQDFRSTGTKMRRKMWLQNMKIKLIVLGILIALILIIVLSVCHGFNCGK
cccHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccc
cHHHHHHHHHHHHHHccccHccHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccc
MAFLERVKDEfvskygggkaatapanglnkefgpKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQAQDFRSTGTKMRRKMWLQNMKIKLIVLGILIALILIIVLSVchgfncgk
maflervkdefvskygggkaatapanglnKEFGPKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDktenlhqqaqdfrstgtkMRRKMWLQNMKIKLIVLGILIALILIIVLSVCHGFNCGK
MAFLERVKDEFVSKYGGGKAATAPANGLNKEFGPKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQAQDFRSTGTKMRRKMWLQNMkiklivlgilialiliivlSVCHGFNCGK
*******************************FGPKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKT***************KMRRKMWLQNMKIKLIVLGILIALILIIVLSVCHGFNC**
MAFLERVKDEFVSKYGGGKA**APANGLNKEFGPKLK********************AQVSEVKGVMMENIEKVLDRGEKIELLV*****************TKMRRKMWLQNMKIKLIVLGILIALILIIVLSVCHGFNCG*
MAFLERVKDEFVSKYGGGKAATAPANGLNKEFGPKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQAQDFRSTGTKMRRKMWLQNMKIKLIVLGILIALILIIVLSVCHGFNCGK
MAFLERVKDEFVSKYGGGKAATAPANGLNKEFGPKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQAQDFRSTGTKMRRKMWLQNMKIKLIVLGILIALILIIVLSVCHGFNCGK
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MAFLERVKDEFVSKYGGGKAATAPANGLNKEFGPKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQAQDFRSTGTKMRRKMWLQNMKIKLIVLGILIALILIIVLSVCHGFNCGK
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 ?
Query143 2.2.26 [Sep-21-2011]
Q9MAS5220 Putative vesicle-associat yes no 0.986 0.640 0.815 8e-59
Q9ZTW3219 Vesicle-associated membra no no 0.986 0.643 0.865 3e-58
P47192221 Vesicle-associated membra no no 1.0 0.647 0.846 5e-57
O48850285 Vesicle-associated membra no no 0.986 0.494 0.822 6e-55
O23429222 Vesicle-associated membra no no 0.986 0.635 0.673 3e-45
Q9M376240 Vesicle-associated membra no no 0.993 0.591 0.509 8e-41
Q8VY69217 Vesicle-associated membra no no 0.972 0.640 0.678 5e-39
Q9FMR5221 Vesicle-associated membra no no 0.951 0.615 0.362 1e-23
Q9LFP1221 Vesicle-associated membra no no 0.951 0.615 0.376 2e-23
O49377219 Vesicle-associated membra no no 0.951 0.621 0.384 1e-20
>sp|Q9MAS5|VA726_ARATH Putative vesicle-associated membrane protein 726 OS=Arabidopsis thaliana GN=VAMP726 PE=3 SV=2 Back     alignment and function desciption
 Score =  225 bits (573), Expect = 8e-59,   Method: Compositional matrix adjust.
 Identities = 115/141 (81%), Positives = 128/141 (90%)

Query: 1   MAFLERVKDEFVSKYGGGKAATAPANGLNKEFGPKLKELMQYCVDHPEEISKLAKVKAQV 60
           MAFLERVK++F  +YGGGKA+TA AN LNKEFG KLKE MQYC DHPEEISKL+KVKAQV
Sbjct: 79  MAFLERVKEDFNKRYGGGKASTAKANSLNKEFGSKLKEHMQYCADHPEEISKLSKVKAQV 138

Query: 61  SEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQAQDFRSTGTKMRRKMWLQNMKIKLIV 120
           +EVKGVMMENIEKVLDRGEKIELLVDKTENL  QAQDFR+ GTKM+RK+W +NMKIKLIV
Sbjct: 139 TEVKGVMMENIEKVLDRGEKIELLVDKTENLRSQAQDFRTQGTKMKRKLWFENMKIKLIV 198

Query: 121 LGILIALILIIVLSVCHGFNC 141
            GI++ALILII+LSVCHGF C
Sbjct: 199 FGIIVALILIIILSVCHGFKC 219
Involved in the targeting and/or fusion of transport vesicles to their target membrane.
Arabidopsis thaliana (taxid: 3702)
>sp|Q9ZTW3|VA721_ARATH Vesicle-associated membrane protein 721 OS=Arabidopsis thaliana GN=VAMP721 PE=1 SV=1 Back     alignment and function description
>sp|P47192|VA722_ARATH Vesicle-associated membrane protein 722 OS=Arabidopsis thaliana GN=VAMP722 PE=2 SV=2 Back     alignment and function description
>sp|O48850|VA725_ARATH Vesicle-associated membrane protein 725 OS=Arabidopsis thaliana GN=VAMP725 PE=2 SV=2 Back     alignment and function description
>sp|O23429|VA724_ARATH Vesicle-associated membrane protein 724 OS=Arabidopsis thaliana GN=VAMP724 PE=2 SV=2 Back     alignment and function description
>sp|Q9M376|VA727_ARATH Vesicle-associated membrane protein 727 OS=Arabidopsis thaliana GN=VAMP727 PE=2 SV=1 Back     alignment and function description
>sp|Q8VY69|VA723_ARATH Vesicle-associated membrane protein 723 OS=Arabidopsis thaliana GN=VAMP723 PE=2 SV=1 Back     alignment and function description
>sp|Q9FMR5|VA714_ARATH Vesicle-associated membrane protein 714 OS=Arabidopsis thaliana GN=VAMP714 PE=2 SV=1 Back     alignment and function description
>sp|Q9LFP1|VA713_ARATH Vesicle-associated membrane protein 713 OS=Arabidopsis thaliana GN=VAMP713 PE=2 SV=1 Back     alignment and function description
>sp|O49377|VA711_ARATH Vesicle-associated membrane protein 711 OS=Arabidopsis thaliana GN=VAMP711 PE=2 SV=2 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query143
225423676221 PREDICTED: putative vesicle-associated m 1.0 0.647 0.881 5e-69
225423678229 PREDICTED: putative vesicle-associated m 1.0 0.624 0.881 6e-69
116781485222 unknown [Picea sitchensis] gi|116791336| 1.0 0.644 0.818 7e-63
356532978232 PREDICTED: putative vesicle-associated m 1.0 0.616 0.930 9e-63
356532976215 PREDICTED: putative vesicle-associated m 1.0 0.665 0.930 1e-62
356532974221 PREDICTED: putative vesicle-associated m 1.0 0.647 0.930 1e-62
356533328221 PREDICTED: putative vesicle-associated m 0.986 0.638 0.801 2e-62
356577544221 PREDICTED: putative vesicle-associated m 0.986 0.638 0.801 2e-62
427199312219 vesicle-associated membrane protein 72 [ 0.986 0.643 0.921 1e-61
255638090221 unknown [Glycine max] 1.0 0.647 0.923 1e-61
>gi|225423676|ref|XP_002276767.1| PREDICTED: putative vesicle-associated membrane protein 726 isoform 1 [Vitis vinifera] gi|147857290|emb|CAN81365.1| hypothetical protein VITISV_015772 [Vitis vinifera] gi|297737980|emb|CBI27181.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  265 bits (676), Expect = 5e-69,   Method: Compositional matrix adjust.
 Identities = 126/143 (88%), Positives = 135/143 (94%)

Query: 1   MAFLERVKDEFVSKYGGGKAATAPANGLNKEFGPKLKELMQYCVDHPEEISKLAKVKAQV 60
           MAFLER++D+FV++YGG KAATAPAN LNK+F  KLKE MQYCVDHPEEISKLAKVK QV
Sbjct: 79  MAFLERIRDDFVARYGGEKAATAPANSLNKDFSSKLKEHMQYCVDHPEEISKLAKVKDQV 138

Query: 61  SEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQAQDFRSTGTKMRRKMWLQNMKIKLIV 120
           SEVKGVMMENIEKVLDRGEKIELLVDKT NLH+QAQDFRS GTK+RRKMWLQNMKIKLIV
Sbjct: 139 SEVKGVMMENIEKVLDRGEKIELLVDKTHNLHEQAQDFRSAGTKIRRKMWLQNMKIKLIV 198

Query: 121 LGILIALILIIVLSVCHGFNCGK 143
           LGIL+ALILIIVLSVCHGFNCGK
Sbjct: 199 LGILVALILIIVLSVCHGFNCGK 221

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|225423678|ref|XP_002276786.1| PREDICTED: putative vesicle-associated membrane protein 726 isoform 2 [Vitis vinifera] Back     alignment and taxonomy information
>gi|116781485|gb|ABK22119.1| unknown [Picea sitchensis] gi|116791336|gb|ABK25940.1| unknown [Picea sitchensis] Back     alignment and taxonomy information
>gi|356532978|ref|XP_003535046.1| PREDICTED: putative vesicle-associated membrane protein 726-like isoform 3 [Glycine max] Back     alignment and taxonomy information
>gi|356532976|ref|XP_003535045.1| PREDICTED: putative vesicle-associated membrane protein 726-like isoform 2 [Glycine max] Back     alignment and taxonomy information
>gi|356532974|ref|XP_003535044.1| PREDICTED: putative vesicle-associated membrane protein 726-like isoform 1 [Glycine max] Back     alignment and taxonomy information
>gi|356533328|ref|XP_003535217.1| PREDICTED: putative vesicle-associated membrane protein 726-like [Glycine max] Back     alignment and taxonomy information
>gi|356577544|ref|XP_003556884.1| PREDICTED: putative vesicle-associated membrane protein 726-like [Glycine max] Back     alignment and taxonomy information
>gi|427199312|gb|AFY26886.1| vesicle-associated membrane protein 72 [Morella rubra] Back     alignment and taxonomy information
>gi|255638090|gb|ACU19359.1| unknown [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 ?
Query143
TAIR|locus:2010642219 VAMP721 "AT1G04750" [Arabidops 0.986 0.643 0.744 1.9e-51
TAIR|locus:2046595229 SAR1 "AT2G33120" [Arabidopsis 1.0 0.624 0.734 2.4e-51
TAIR|locus:2010627220 VAMP726 "AT1G04760" [Arabidops 0.986 0.640 0.709 2.5e-49
TAIR|locus:2046367285 VAMP725 "AT2G32670" [Arabidops 0.986 0.494 0.709 1.8e-48
TAIR|locus:2046490217 VAMP723 "AT2G33110" [Arabidops 0.972 0.640 0.573 6.5e-35
TAIR|locus:2080340240 VAMP727 "AT3G54300" [Arabidops 0.818 0.487 0.572 1.3e-34
TAIR|locus:2147952221 VAMP713 "AT5G11150" [Arabidops 0.944 0.610 0.357 3.1e-19
TAIR|locus:2176342221 VAMP714 "AT5G22360" [Arabidops 0.769 0.497 0.383 1.4e-18
TAIR|locus:2116672219 VAMP711 "vesicle-associated me 0.944 0.616 0.350 2.2e-18
MGI|MGI:1096399220 Vamp7 "vesicle-associated memb 0.979 0.636 0.331 1.1e-16
TAIR|locus:2010642 VAMP721 "AT1G04750" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 534 (193.0 bits), Expect = 1.9e-51, P = 1.9e-51
 Identities = 105/141 (74%), Positives = 113/141 (80%)

Query:     1 MAFLERVKDEFVSKYGGGKAATAPANGLNKEFGPKLKELMQYCVDHPEEISKLAKVKAQV 60
             M+FLERVK++F  +YGGGKAATA AN LNKEFG KLKE MQYC+DHP+EISKLAKVKAQV
Sbjct:    79 MSFLERVKEDFNKRYGGGKAATAQANSLNKEFGSKLKEHMQYCMDHPDEISKLAKVKAQV 138

Query:    61 SEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQAQDFRSTGTKMRRKMWLQNMXXXXXX 120
             SEVKGVMMENIEKVLDRGEKIELLVDKTENL  QAQDFR+TGT+MRRKMWLQNM      
Sbjct:   139 SEVKGVMMENIEKVLDRGEKIELLVDKTENLRSQAQDFRTTGTQMRRKMWLQNMKIKLIV 198

Query:   121 XXXXXXXXXXXXXSVCHGFNC 141
                          SVCHGF C
Sbjct:   199 LAIIIALILIIVLSVCHGFKC 219
GO:0003674 "molecular_function" evidence=ND
GO:0006810 "transport" evidence=IEA
GO:0016020 "membrane" evidence=ISS
GO:0016192 "vesicle-mediated transport" evidence=IEA
GO:0005768 "endosome" evidence=IDA;TAS
GO:0005886 "plasma membrane" evidence=IDA;TAS
GO:0009506 "plasmodesma" evidence=IDA
GO:0009504 "cell plate" evidence=IDA
GO:0009920 "cell plate formation involved in plant-type cell wall biogenesis" evidence=IGI
GO:0072661 "protein targeting to plasma membrane" evidence=IGI
TAIR|locus:2046595 SAR1 "AT2G33120" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2010627 VAMP726 "AT1G04760" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2046367 VAMP725 "AT2G32670" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2046490 VAMP723 "AT2G33110" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2080340 VAMP727 "AT3G54300" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2147952 VAMP713 "AT5G11150" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2176342 VAMP714 "AT5G22360" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2116672 VAMP711 "vesicle-associated membrane protein 711" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
MGI|MGI:1096399 Vamp7 "vesicle-associated membrane protein 7" [Mus musculus (taxid:10090)] 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) ?
Q9MAS5VA726_ARATHNo assigned EC number0.81560.98600.6409yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
GSVIVG00030156001
SubName- Full=Putative uncharacterized protein (Chromosome chr1 scaffold_5, whole genome shotgun sequence); (221 aa)
(Vitis vinifera)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

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 ?
Query143
pfam0095789 pfam00957, Synaptobrevin, Synaptobrevin 2e-39
COG5143190 COG5143, SNC1, Synaptobrevin/VAMP-like protein [In 2e-11
COG5143190 COG5143, SNC1, Synaptobrevin/VAMP-like protein [In 1e-07
pfam1377482 pfam13774, Longin, Regulated-SNARE-like domain 1e-06
>gnl|CDD|201526 pfam00957, Synaptobrevin, Synaptobrevin Back     alignment and domain information 
 Score =  127 bits (321), Expect = 2e-39
 Identities = 49/89 (55%), Positives = 68/89 (76%)

Query: 49  EISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQAQDFRSTGTKMRRK 108
              KL K++AQV EVK +M ENI+KVL+RGEK++LLVDKTENL   AQ FR    K++RK
Sbjct: 1   SNDKLNKIQAQVDEVKDIMTENIDKVLERGEKLDLLVDKTENLQSSAQQFRKQARKLKRK 60

Query: 109 MWLQNMKIKLIVLGILIALILIIVLSVCH 137
           MW +NMK+K+I+  +++ LILII++ +C 
Sbjct: 61  MWWKNMKLKIILGLVVLILILIIIIVICG 89

Length = 89
>gnl|CDD|227472 COG5143, SNC1, Synaptobrevin/VAMP-like protein [Intracellular trafficking and secretion] Back     alignment and domain information
>gnl|CDD|227472 COG5143, SNC1, Synaptobrevin/VAMP-like protein [Intracellular trafficking and secretion] Back     alignment and domain information
>gnl|CDD|222370 pfam13774, Longin, Regulated-SNARE-like domain Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 143
KOG0859217 consensus Synaptobrevin/VAMP-like protein [Intrace 100.0
PF0095789 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 99.97
KOG0860116 consensus Synaptobrevin/VAMP-like protein [Intrace 99.97
KOG0861198 consensus SNARE protein YKT6, synaptobrevin/VAMP s 99.88
KOG0862216 consensus Synaptobrevin/VAMP-like protein SEC22 [I 99.85
COG5143190 SNC1 Synaptobrevin/VAMP-like protein [Intracellula 99.64
COG5143190 SNC1 Synaptobrevin/VAMP-like protein [Intracellula 97.92
PF1377483 Longin: Regulated-SNARE-like domain; PDB: 1IOU_A 3 97.31
PF0095789 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 97.04
PF0390892 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membr 97.03
KOG0811269 consensus SNARE protein PEP12/VAM3/Syntaxin 7/Synt 96.62
KOG0810297 consensus SNARE protein Syntaxin 1 and related pro 96.08
COG5074280 t-SNARE complex subunit, syntaxin [Intracellular t 95.0
PF09753251 Use1: Membrane fusion protein Use1; InterPro: IPR0 93.24
PF0390892 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membr 93.08
PF05478 806 Prominin: Prominin; InterPro: IPR008795 The promin 92.79
KOG0860116 consensus Synaptobrevin/VAMP-like protein [Intrace 91.74
KOG1983993 consensus Tomosyn and related SNARE-interacting pr 90.82
PF1077971 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemoly 89.32
KOG1666220 consensus V-SNARE [Intracellular trafficking, secr 88.35
PF04799171 Fzo_mitofusin: fzo-like conserved region; InterPro 88.35
COG5325283 t-SNARE complex subunit, syntaxin [Intracellular t 88.07
KOG0810297 consensus SNARE protein Syntaxin 1 and related pro 87.09
KOG3385118 consensus V-SNARE [Intracellular trafficking, secr 87.06
COG5074280 t-SNARE complex subunit, syntaxin [Intracellular t 86.59
PRK0940061 secE preprotein translocase subunit SecE; Reviewed 84.59
PF1260650 RELT: Tumour necrosis factor receptor superfamily 82.54
PTZ0047881 Sec superfamily; Provisional 82.06
KOG3202235 consensus SNARE protein TLG1/Syntaxin 6 [Intracell 82.03
PF1380096 Sigma_reg_N: Sigma factor regulator N-terminal 81.6
PF03904230 DUF334: Domain of unknown function (DUF334); Inter 81.17
PF1380096 Sigma_reg_N: Sigma factor regulator N-terminal 80.17
>KOG0859 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information 
Probab=100.00  E-value=7.6e-45  Score=271.01  Aligned_cols=141  Identities=70%  Similarity=1.080  Sum_probs=136.1

Q ss_pred             CchHHHHHHHHHhhcCCCCCccCCCCCccchhchhHHHHHHHhhcChhHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhHh
Q 032327            1 MAFLERVKDEFVSKYGGGKAATAPANGLNKEFGPKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIEKVLDRGEK   80 (143)
Q Consensus         1 F~fL~ei~~~F~~~~~~~~~~~~~~~~l~~~F~~~l~~~~~~~n~~~~~~dki~~~~~~l~ev~~im~~ni~~~l~Rge~   80 (143)
                      |+||++|+++|.++|+ ....++.+|+||.+|+++|++.|+||.++|. .|++++++.|++||+++|.+|||++++|||+
T Consensus        77 faFLe~Ik~~F~k~YG-~~a~ta~AysmN~EFs~vL~qqm~y~s~~p~-id~lskvkaqv~evk~vM~eNIekvldRGek  154 (217)
T KOG0859|consen   77 FAFLERIKEDFKKRYG-GGAHTAVAYSMNKEFSSVLKQQMQYCSEHPE-ISKLAKVKAQVTEVKGVMMENIEKVLDRGEK  154 (217)
T ss_pred             HHHHHHHHHHHHHHhc-cchhHHHHhHhHHHHHHHHHHHHHHHHcCcc-hhHHHHHHHHHHHHHHHHHHHHHHHHhccCe
Confidence            7899999999999994 5588899999999999999999999999998 6999999999999999999999999999999


Q ss_pred             HHHHHHhhHHHHHhHHHHHhhhHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhccCCccCC
Q 032327           81 IELLVDKTENLHQQAQDFRSTGTKMRRKMWLQNMKIKLIVLGILIALILIIVLSVCHGFNCGK  143 (143)
Q Consensus        81 L~~L~~ks~~L~~~a~~F~~~a~~l~~~~~wk~~k~~iii~~iv~~~~~ii~~~~c~gf~C~~  143 (143)
                      ||.|++||++|+.+|..|++++++++|+|||+|+|++++++++++++++||++.+||||.|.+
T Consensus       155 iELLVdKTenl~~~s~~fr~q~r~~~r~mw~~n~kl~~iv~~~~~~~iyiiv~~~CgG~~~~s  217 (217)
T KOG0859|consen  155 IELLVDKTENLRSKSFDFRTQGRKLRRKMWFQNMKLKLIVLGVSISLIYIIVARRCGGFTCPS  217 (217)
T ss_pred             EEeeechhhhhhhhhHHHHHHHHHHHHHHHHhccceehhhhhHHHHHHHHHHHHhccCCCCCC
Confidence            999999999999999999999999999999999999999999999999999999999999864

>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
>KOG0860 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>KOG0861 consensus SNARE protein YKT6, synaptobrevin/VAMP syperfamily [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>KOG0862 consensus Synaptobrevin/VAMP-like protein SEC22 [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>COG5143 SNC1 Synaptobrevin/VAMP-like protein [Intracellular trafficking and secretion] Back     alignment and domain information
>COG5143 SNC1 Synaptobrevin/VAMP-like protein [Intracellular trafficking and secretion] Back     alignment and domain information
>PF13774 Longin: Regulated-SNARE-like domain; PDB: 1IOU_A 3BW6_A 1H8M_A 3EGX_C 2NUP_C 3EGD_C 2NUT_C 3KYQ_A 1IFQ_B 2VX8_D 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
>PF03908 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membrane glycoprotein associated with secretory pathway 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
>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
>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
>PF03908 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membrane glycoprotein associated with secretory pathway 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
>KOG0860 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>KOG1983 consensus Tomosyn and related SNARE-interacting proteins [Intracellular trafficking, secretion, and vesicular transport] 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
>KOG1666 consensus V-SNARE [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PF04799 Fzo_mitofusin: fzo-like conserved region; InterPro: IPR006884 This entry represents the heptad repeat domain which is conserved at the C terminus of Fzo/mitofusion family of GTPases Back     alignment and domain information
>COG5325 t-SNARE complex subunit, syntaxin [Intracellular trafficking and secretion] 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
>KOG3385 consensus V-SNARE [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
>PRK09400 secE preprotein translocase subunit SecE; Reviewed Back     alignment and domain information
>PF12606 RELT: Tumour necrosis factor receptor superfamily member 19; InterPro: IPR022248 The members of tumor necrosis factor receptor (TNFR) superfamily have been designated as the "guardians of the immune system" due to their roles in immune cell proliferation, differentiation, activation, and death (apoptosis) Back     alignment and domain information
>PTZ00478 Sec superfamily; Provisional Back     alignment and domain information
>KOG3202 consensus SNARE protein TLG1/Syntaxin 6 [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PF13800 Sigma_reg_N: Sigma factor regulator N-terminal 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
>PF13800 Sigma_reg_N: Sigma factor regulator N-terminal 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 ?
Query143
4b93_A189 Complex Of Vamp7 Cytoplasmic Domain With 2nd Ankyri 3e-16
2nps_A74 Crystal Structure Of The Early Endosomal Snare Comp 9e-09
3b5n_A61 Structure Of The Yeast Plasma Membrane Snare Comple 4e-08
2kog_A119 Lipid-Bound Synaptobrevin Solution Nmr Structure Le 2e-07
3hd7_A91 Helical Extension Of The Neuronal Snare Complex Int 2e-07
1sfc_A96 Neuronal Synaptic Fusion Complex Length = 96 3e-07
1kil_A66 Three-Dimensional Structure Of The ComplexinSNARE C 4e-07
1l4a_A80 X-Ray Structure Of The Neuronal ComplexinSNARE COMP 5e-07
1n7s_A63 High Resolution Structure Of A Truncated Neuronal S 1e-06
3kyq_A199 Lipid-Induced Conformational Switch Controls Fusion 3e-06
1gl2_A65 Crystal Structure Of An Endosomal Snare Core Comple 1e-05
>pdb|4B93|A Chain A, Complex Of Vamp7 Cytoplasmic Domain With 2nd Ankyrin Repeat Domain Of Varp Length = 189 Back     alignment and structure 
Iteration: 1

 Score = 80.5 bits (197), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 44/116 (37%), Positives = 69/116 (59%), Gaps = 6/116 (5%)
Query: 1   MAFLERVKDEFVSKYGGGKAATAPANGLNKEFGPKLKELMQYCVDHPE--EISKLAKVKA 58
            +FL  VK  F + YG  +A TA    +N EF   L   +++   H E   + K+ + +A
Sbjct: 77  FSFLNEVKKRFQTTYGS-RAQTALPYAMNSEFSSVLAAQLKH---HSENKSLDKVMETQA 132
Query: 59  QVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQAQDFRSTGTKMRRKMWLQNM 114
           QV E+KG+M+ NI+ V  RGE++ELL+DKTENL   +  F++T   + R M ++N+
Sbjct: 133 QVDELKGIMVRNIDLVAQRGERLELLIDKTENLVDSSVTFKTTSRNLARAMCMKNI 188
>pdb|2NPS|A Chain A, Crystal Structure Of The Early Endosomal Snare Complex Length = 74 Back     alignment and structure
>pdb|3B5N|A Chain A, Structure Of The Yeast Plasma Membrane Snare Complex Length = 61 Back     alignment and structure
>pdb|2KOG|A Chain A, Lipid-Bound Synaptobrevin Solution Nmr Structure Length = 119 Back     alignment and structure
>pdb|3HD7|A Chain A, Helical Extension Of The Neuronal Snare Complex Into The Membrane, Spacegroup C 1 2 1 Length = 91 Back     alignment and structure
>pdb|1SFC|A Chain A, Neuronal Synaptic Fusion Complex Length = 96 Back     alignment and structure
>pdb|1KIL|A Chain A, Three-Dimensional Structure Of The ComplexinSNARE COMPLEX Length = 66 Back     alignment and structure
>pdb|1L4A|A Chain A, X-Ray Structure Of The Neuronal ComplexinSNARE COMPLEX From The Squid Loligo Pealei Length = 80 Back     alignment and structure
>pdb|1N7S|A Chain A, High Resolution Structure Of A Truncated Neuronal Snare Complex Length = 63 Back     alignment and structure
>pdb|3KYQ|A Chain A, Lipid-Induced Conformational Switch Controls Fusion Activity Of Longin Domain Snare Ykt6 Length = 199 Back     alignment and structure
>pdb|1GL2|A Chain A, Crystal Structure Of An Endosomal Snare Core Complex Length = 65 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 ?
Query143
2kog_A119 Vesicle-associated membrane protein 2; synaptobrev 2e-34
1l4a_A80 Synaptobrevin; snare, snare complex, membrane fusi 2e-29
3hd7_A91 Vesicle-associated membrane protein 2; membrane pr 2e-29
1sfc_A96 VAMP 2, protein (synaptobrevin 2); membrane fusion 1e-28
2nps_A74 VAMP-4, vesicle-associated membrane protein 4; ves 5e-27
2nut_C196 Vesicle-trafficking protein SEC22B; human copii SE 2e-26
3b5n_A61 Synaptobrevin homolog 1; snare complex, syntaxin, 3e-26
1n7s_A63 Vesicle-associated membrane protein 2; neuronal sn 4e-26
3kyq_A199 YKT6, synaptobrevin homolog YKT6; V-snare homolog, 1e-22
1gl2_A65 Endobrevin; membrane protein, membrane fusion prot 9e-21
2vx8_A169 Nucleoporin-like protein RIP, vesicle-associated m 4e-14
4afi_A173 AP-3 complex subunit delta-1, vesicle-associated p 4e-12
1urq_A63 M-tomosyn isoform; transport protein, tomosyn-snar 2e-05
>2kog_A Vesicle-associated membrane protein 2; synaptobrevin, VAMP2, DPC micelle, snare, coiled coil, membrane fusion, transmembrane; NMR {Rattus norvegicus} Length = 119 Back     alignment and structure
 Score =  115 bits (288), Expect = 2e-34
 Identities = 35/123 (28%), Positives = 61/123 (49%), Gaps = 6/123 (4%)

Query: 14  KYGGGKAATAPANGLNKEFGPKLKELMQYCVDHPEEISKLAKVKAQVSEVKGVMMENIEK 73
            +    AAT P      E GP                 +L + +AQV EV  +M  N++K
Sbjct: 2   SHMSATAATVPPAAPAGEGGPPAPPPNLTSNR------RLQQTQAQVDEVVDIMRVNVDK 55

Query: 74  VLDRGEKIELLVDKTENLHQQAQDFRSTGTKMRRKMWLQNMKIKLIVLGILIALILIIVL 133
           VL+R +K+  L D+ + L   A  F ++  K++RK W +N+K+ +I+  I   +++II++
Sbjct: 56  VLERDQKLSELDDRADALQAGASQFETSAAKLKRKYWWKNLKMMIILGVICAIILIIIIV 115

Query: 134 SVC 136
              
Sbjct: 116 YFS 118
>1l4a_A Synaptobrevin; snare, snare complex, membrane fusion, neurotransmission, endocytosis/exocytosis complex; 2.95A {Loligo pealei} SCOP: h.1.15.1 Length = 80 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 Length = 91 Back     alignment and structure
>1sfc_A VAMP 2, protein (synaptobrevin 2); membrane fusion protein complex, transport protein; 2.40A {Rattus norvegicus} SCOP: h.1.15.1 Length = 96 Back     alignment and structure
>2nps_A VAMP-4, vesicle-associated membrane protein 4; vesicle fusion, snare complex, early endosomal snare complex, VTI1A, VAMP4, transport protein; 2.50A {Mus musculus} Length = 74 Back     alignment and structure
>2nut_C Vesicle-trafficking protein SEC22B; human copii SEC23/24 complexed with SEC22, protein transport; 2.30A {Homo sapiens} PDB: 2nup_C 3egd_C 3egx_C 1ifq_A Length = 196 Back     alignment and structure
>3b5n_A Synaptobrevin homolog 1; snare complex, syntaxin, synaptobrevin, SNAP-25, SSO1P, SNC1P, SEC9P, SSO1, SNC1, coiled coil; 1.60A {Saccharomyces cerevisiae} SCOP: h.1.15.1 Length = 61 Back     alignment and structure
>1n7s_A Vesicle-associated membrane protein 2; neuronal snare protein complex, four helix bundle, transport protein; 1.45A {Rattus norvegicus} SCOP: h.1.15.1 PDB: 1kil_A 3rk2_A 3rk3_A 3rl0_A 3fii_B 3g94_B Length = 63 Back     alignment and structure
>3kyq_A YKT6, synaptobrevin homolog YKT6; V-snare homolog, lipid binding, cytoplasmic vesicle, ER-GOLG transport, golgi apparatus, lipoprotein; HET: DPV; 2.44A {Rattus norvegicus} Length = 199 Back     alignment and structure
>1gl2_A Endobrevin; membrane protein, membrane fusion protein complex, coiled coil, transmembrane; 1.9A {Rattus norvegicus} SCOP: h.1.15.1 Length = 65 Back     alignment and structure
>2vx8_A Nucleoporin-like protein RIP, vesicle-associated membrane protein 7; endocytosis,exocytosis, endocytosis, exocytosis, acetylation, coiled coil; 2.2A {Homo sapiens} PDB: 2dmw_A Length = 169 Back     alignment and structure
>4afi_A AP-3 complex subunit delta-1, vesicle-associated protein 7; endocytosis, exocytosis, clathrin adaptor, chimera, fusion P; 2.80A {Homo sapiens} Length = 173 Back     alignment and structure
>1urq_A M-tomosyn isoform; transport protein, tomosyn-snare complex, exocytosis, four helical bundle, coiled coil; 2.0A {Rattus norvegicus} SCOP: h.1.15.1 Length = 63 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query143
3hd7_A91 Vesicle-associated membrane protein 2; membrane pr 100.0
4b93_A189 Vesicle-associated membrane protein 7; endocytosis 99.97
2kog_A119 Vesicle-associated membrane protein 2; synaptobrev 99.96
2nut_C196 Vesicle-trafficking protein SEC22B; human copii SE 99.96
2nps_A74 VAMP-4, vesicle-associated membrane protein 4; ves 99.92
1sfc_A96 VAMP 2, protein (synaptobrevin 2); membrane fusion 99.92
1l4a_A80 Synaptobrevin; snare, snare complex, membrane fusi 99.91
3kyq_A199 YKT6, synaptobrevin homolog YKT6; V-snare homolog, 99.9
1n7s_A63 Vesicle-associated membrane protein 2; neuronal sn 99.87
3b5n_A61 Synaptobrevin homolog 1; snare complex, syntaxin, 99.87
1gl2_A65 Endobrevin; membrane protein, membrane fusion prot 99.82
1urq_A63 M-tomosyn isoform; transport protein, tomosyn-snar 99.73
3zym_A310 Phosphatidylinositol-binding clathrin assembly PR 98.26
2vx8_A169 Nucleoporin-like protein RIP, vesicle-associated m 98.03
3fie_C38 Fragment of vesicle-associated membrane protein 2; 98.01
3bw6_A144 Synaptobrevin homolog YKT6; YKT6P, farnesylation, 97.98
3hd7_B109 Syntaxin-1A; membrane protein, coiled-coil, 4-heli 97.72
3hd7_A91 Vesicle-associated membrane protein 2; membrane pr 95.45
2kog_A119 Vesicle-associated membrane protein 2; synaptobrev 89.58
1jth_B77 Syntaxin 1A; coiled-coil, polar layer, endocytosis 84.82
1n7s_A63 Vesicle-associated membrane protein 2; neuronal sn 83.23
3b5n_A61 Synaptobrevin homolog 1; snare complex, syntaxin, 81.73
1sfc_A96 VAMP 2, protein (synaptobrevin 2); membrane fusion 81.08
1rh5_B74 Preprotein translocase SECE subunit; protein trans 80.84
>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
Probab=100.00  E-value=2.7e-32  Score=183.26  Aligned_cols=88  Identities=32%  Similarity=0.594  Sum_probs=85.4

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHHhhHHHHHhHHHHHhhhHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 032327           50 ISKLAKVKAQVSEVKGVMMENIEKVLDRGEKIELLVDKTENLHQQAQDFRSTGTKMRRKMWLQNMKIKLIVLGILIALIL  129 (143)
Q Consensus        50 ~dki~~~~~~l~ev~~im~~ni~~~l~Rge~L~~L~~ks~~L~~~a~~F~~~a~~l~~~~~wk~~k~~iii~~iv~~~~~  129 (143)
                      .|++++++++|+||+++|.+||+++++|||+||.|++||++|+.+|..|+++|++++|+|||+|+|++++++++++++++
T Consensus         4 ~d~l~~vq~ev~evk~iM~~NI~kvL~RgekL~~L~~kt~~L~~~s~~F~~~A~~l~rkmwwkn~K~~iii~~iv~~il~   83 (91)
T 3hd7_A            4 MRRLQQTQAQVDEVVDIMRVNVDKVLERDQKLSELDDRADALQAGASQFETSAAKLKRKYWWKNLKMMIILGVICAIILI   83 (91)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            38999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcc
Q 032327          130 IIVLSVCH  137 (143)
Q Consensus       130 ii~~~~c~  137 (143)
                      +|++.+|.
T Consensus        84 ii~~~~~~   91 (91)
T 3hd7_A           84 IIIVYFST   91 (91)
T ss_dssp             HHHHTTCC
T ss_pred             HHHHHHhC
Confidence            99999983
>4b93_A Vesicle-associated membrane protein 7; endocytosis, exocytosis, snare; 2.00A {Mus musculus} PDB: 2dmw_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
>2nut_C Vesicle-trafficking protein SEC22B; human copii SEC23/24 complexed with SEC22, protein transport; 2.30A {Homo sapiens} PDB: 2nup_C 3egd_C 3egx_C 1ifq_A Back     alignment and structure
>2nps_A VAMP-4, vesicle-associated membrane protein 4; vesicle fusion, snare complex, early endosomal snare complex, VTI1A, VAMP4, transport protein; 2.50A {Mus musculus} Back     alignment and structure
>1sfc_A VAMP 2, protein (synaptobrevin 2); membrane fusion protein complex, transport protein; 2.40A {Rattus norvegicus} SCOP: h.1.15.1 Back     alignment and structure
>1l4a_A Synaptobrevin; snare, snare complex, membrane fusion, neurotransmission, endocytosis/exocytosis complex; 2.95A {Loligo pealei} SCOP: h.1.15.1 Back     alignment and structure
>3kyq_A YKT6, synaptobrevin homolog YKT6; V-snare homolog, lipid binding, cytoplasmic vesicle, ER-GOLG transport, golgi apparatus, lipoprotein; HET: DPV; 2.44A {Rattus norvegicus} Back     alignment and structure
>1n7s_A Vesicle-associated membrane protein 2; neuronal snare protein complex, four helix bundle, transport protein; 1.45A {Rattus norvegicus} SCOP: h.1.15.1 PDB: 1kil_A 3rk2_A 3rk3_A 3rl0_A 3fii_B 3g94_B Back     alignment and structure
>3b5n_A Synaptobrevin homolog 1; 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
>1gl2_A Endobrevin; membrane protein, membrane fusion protein complex, coiled coil, transmembrane; 1.9A {Rattus norvegicus} SCOP: h.1.15.1 Back     alignment and structure
>1urq_A M-tomosyn isoform; transport protein, tomosyn-snare complex, exocytosis, four helical bundle, coiled coil; 2.0A {Rattus norvegicus} SCOP: h.1.15.1 Back     alignment and structure
>3zym_A Phosphatidylinositol-binding clathrin assembly PR vesicle-associated membrane protein...; endocytosis, synaptobrevin, VAMP2, VAMP3, AP180; HET: PO4; 2.03A {Rattus norvegicus} Back     alignment and structure
>2vx8_A Nucleoporin-like protein RIP, vesicle-associated membrane protein 7; endocytosis,exocytosis, endocytosis, exocytosis, acetylation, coiled coil; 2.2A {Homo sapiens} PDB: 2dmw_A Back     alignment and structure
>3fie_C Fragment of vesicle-associated membrane protein 2; BONT F, VAMP, inhibitor, complex structure, acetylation, cell junction, hydrolase; 2.10A {Clostridium botulinum} Back     alignment and structure
>3bw6_A Synaptobrevin homolog YKT6; YKT6P, farnesylation, vacuole fusion, snare, coiled coil, lipoprotein, membrane, phosphoprotein; 2.50A {Saccharomyces cerevisiae} PDB: 1h8m_A 1iou_A 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
>1jth_B Syntaxin 1A; coiled-coil, polar layer, endocytosis-exocytosis complex; 2.00A {Rattus norvegicus} SCOP: h.1.15.1 PDB: 1hvv_A* 1urq_B Back     alignment and structure
>1n7s_A Vesicle-associated membrane protein 2; neuronal snare protein complex, four helix bundle, transport protein; 1.45A {Rattus norvegicus} SCOP: h.1.15.1 PDB: 1kil_A 3rk2_A 3rk3_A 3rl0_A 3fii_B 3g94_B Back     alignment and structure
>3b5n_A Synaptobrevin homolog 1; 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
>1sfc_A VAMP 2, protein (synaptobrevin 2); membrane fusion protein complex, transport protein; 2.40A {Rattus norvegicus} SCOP: h.1.15.1 Back     alignment and structure
>1rh5_B Preprotein translocase SECE subunit; protein translocation, SECY, membrane protein, protein channels, protein transport; 3.20A {Methanocaldococcus jannaschii} SCOP: f.23.28.1 PDB: 1rhz_B 2yxq_B 2yxr_B 3dkn_B Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 143
d1ioua_140 d.110.4.1 (A:) Synaptobrevin homolog 1 ykt6 {Baker 0.001
>d1ioua_ d.110.4.1 (A:) Synaptobrevin homolog 1 ykt6 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 140 Back     information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: Profilin-like
superfamily: SNARE-like
family: Synatpobrevin N-terminal domain
domain: Synaptobrevin homolog 1 ykt6
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 34.8 bits (80), Expect = 0.001
 Identities = 4/41 (9%), Positives = 13/41 (31%), Gaps = 1/41 (2%)

Query: 2   AFLERVKDEFVSKYGGGKAATAPANGLNKEFGPKLKELMQY 42
             L ++ DE++  +   +         +     +L   +  
Sbjct: 92  TLLNKILDEYLVAH-PKEEWADVTETNDALKMKQLDTYISK 131

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query143
d1ifqa_127 Sec22b {Mouse (Mus musculus) [TaxId: 10090]} 97.99
d1ioua_140 Synaptobrevin homolog 1 ykt6 {Baker's yeast (Sacch 97.65
>d1ifqa_ d.110.4.1 (A:) Sec22b {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Profilin-like
superfamily: SNARE-like
family: Synatpobrevin N-terminal domain
domain: Sec22b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.99  E-value=2.4e-06  Score=58.14  Aligned_cols=42  Identities=19%  Similarity=0.325  Sum_probs=34.9

Q ss_pred             CchHHHHHHHHHhhcCCCCCccCCCCCccchhchhHHHHHHHh
Q 032327            1 MAFLERVKDEFVSKYGGGKAATAPANGLNKEFGPKLKELMQYC   43 (143)
Q Consensus         1 F~fL~ei~~~F~~~~~~~~~~~~~~~~l~~~F~~~l~~~~~~~   43 (143)
                      |+||+||+++|..+|+........||+| .+|+..|++.++.|
T Consensus        85 F~fLeei~~eF~~~y~~~i~~~~rpy~F-i~Fd~~iqk~k~~y  126 (127)
T d1ifqa_          85 FAYLEDLHSEFDEQHGKKVPTVSRPYSF-IEFDTFIQKTKKLY  126 (127)
T ss_dssp             HHHHHHHHHHHHHHHTTTTTTCCSTTTT-GGGHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhhhhhcccCCcch-HHHHHHHHHHHHhc
Confidence            7899999999999995433334459998 79999999999877
>d1ioua_ d.110.4.1 (A:) Synaptobrevin homolog 1 ykt6 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure