Citrus Sinensis ID: 031220

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---
MAILFSLVARGSVVLAECSATATNASAIARQILDKIPGNNDSHVSYSQDRYIFHVKRTDGLTVLCMADDTAGRRIPFAFLEDIHQRFVKTYGRAVLSAQAYGMNDEFSRVLSQQMEYYSDDPNADRINRIKGEMSQETRSASESRLGVSEAQYGGETSSSRLR
ccEEEEEEEEccEEEEEcccccccHHHHHHHHHccccccccccEEEEcccEEEEEEEEccEEEEEEEEcccccccHHHHHHHHHHHHHHHHcHHHHcccccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHcHHHHHcccc
ccEEEEEEEcccEEEEEEccccccHHHHHHHHHHHcccccccEEEEEcccEEEEEEEcccEEEEEEEccccccccHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHcccccccccHcccccccccccccccccccc
MAILFSLVARGSVVLAECSATATNASAIARQILdkipgnndshvsysqdryifhvkrtdgltvlcmaddtagrripfaFLEDIHQRFVKTYGRAVLSAQAYGMNDEFSRVLSQQMEyysddpnadrINRIkgemsqetrsasesrlgvseaqyggetsssrlr
MAILFSLVARGSVVLAECSATATNASAIARQILDKIPGNNDSHVSYSQDRYIFHVKRTDGLTVLCMADDTAGRRIPFAFLEDIHQRFVKTYGRAVLSAQAYGMNDEFSRVLSQQMEYYSDDPNADRINRIKGemsqetrsasesrlgvseaqyggetsssrlr
MAILFSLVARGSVVLAECSATATNASAIARQILDKIPGNNDSHVSYSQDRYIFHVKRTDGLTVLCMADDTAGRRIPFAFLEDIHQRFVKTYGRAVLSAQAYGMNDEFSRVLSQQMEYYSDDPNADRINRIKGEMSQETRSASESRLGVSEAQYGGETSSSRLR
**ILFSLVARGSVVLAECSATATNASAIARQILDKIPGNNDSHVSYSQDRYIFHVKRTDGLTVLCMADDTAGRRIPFAFLEDIHQRFVKTYGRAVLSAQAYGMNDEFSRVL****************************************************
MAILFSLVARGSVVLAECSATATNASAIARQILDKIPGNNDSHVSYSQDRYIFHVKRTDGLTVLCMADDTAGRRIPFAFLEDIHQRFVKTYGRAVLSAQAYGMNDEFSRVLSQQME****************EMSQETRSASESRLGVSEAQY***T******
MAILFSLVARGSVVLAECSATATNASAIARQILDKIPGNNDSHVSYSQDRYIFHVKRTDGLTVLCMADDTAGRRIPFAFLEDIHQRFVKTYGRAVLSAQAYGMNDEFSRVLSQQMEYYSDDPNADRINRIKGE******************************
MAILFSLVARGSVVLAECSATATNASAIARQILDKIPGNNDSHVSYSQDRYIFHVKRTDGLTVLCMADDTAGRRIPFAFLEDIHQRFVKTYGRAVLSAQAYGMNDEFSRVLSQQMEYYSDDPN**RINRI*********************************
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
ooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
SSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
SSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MAILFSLVARGSVVLAECSATATNASAIARQILDKIPGNNDSHVSYSQDRYIFHVKRTDGLTVLCMADDTAGRRIPFAFLEDIHQRFVKTYGRAVLSAQAYGMNDEFSRVLSQQMEYYSDDPNADRINRIKGEMSQETRSASESRLGVSEAQYGGETSSSRLR
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 ?
Query163 2.2.26 [Sep-21-2011]
Q9LFP1221 Vesicle-associated membra yes no 0.834 0.615 0.824 2e-64
Q9SIQ9219 Vesicle-associated membra no no 0.834 0.621 0.816 6e-64
O49377219 Vesicle-associated membra no no 0.834 0.621 0.808 9e-64
Q9FMR5221 Vesicle-associated membra no no 0.858 0.633 0.577 3e-45
Q86AQ7260 Vesicle-associated membra yes no 0.828 0.519 0.492 3e-31
Q9JHW5220 Vesicle-associated membra yes no 0.828 0.613 0.375 2e-22
Q5ZL74220 Vesicle-associated membra yes no 0.828 0.613 0.382 4e-22
P70280220 Vesicle-associated membra yes no 0.828 0.613 0.367 4e-22
P51809220 Vesicle-associated membra no no 0.828 0.613 0.375 7e-22
Q17QI5220 Vesicle-associated membra yes no 0.828 0.613 0.375 7e-22
>sp|Q9LFP1|VA713_ARATH Vesicle-associated membrane protein 713 OS=Arabidopsis thaliana GN=VAMP713 PE=2 SV=1 Back     alignment and function desciption
 Score =  244 bits (622), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 113/137 (82%), Positives = 132/137 (96%), Gaps = 1/137 (0%)

Query: 1   MAILFSLVARGSVVLAECSATATNASAIARQILDKIPGNN-DSHVSYSQDRYIFHVKRTD 59
           MAI+F+LVARG+VVL+E SAT+TNAS+I++QIL+K+PGN+ DSH+SYSQDRYIFHVKRTD
Sbjct: 1   MAIIFALVARGTVVLSEFSATSTNASSISKQILEKLPGNDSDSHMSYSQDRYIFHVKRTD 60

Query: 60  GLTVLCMADDTAGRRIPFAFLEDIHQRFVKTYGRAVLSAQAYGMNDEFSRVLSQQMEYYS 119
           GLTVLCMAD+TAGR IPFAFL+DIHQRFVKTYGRA+ SAQAY MNDEFSRVLSQQME+YS
Sbjct: 61  GLTVLCMADETAGRNIPFAFLDDIHQRFVKTYGRAIHSAQAYSMNDEFSRVLSQQMEFYS 120

Query: 120 DDPNADRINRIKGEMSQ 136
           +DPNADR++RIKGEMSQ
Sbjct: 121 NDPNADRMSRIKGEMSQ 137
Involved in the targeting and/or fusion of transport vesicles to their target membrane.
Arabidopsis thaliana (taxid: 3702)
>sp|Q9SIQ9|VA712_ARATH Vesicle-associated membrane protein 712 OS=Arabidopsis thaliana GN=VAMP712 PE=3 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
>sp|Q9FMR5|VA714_ARATH Vesicle-associated membrane protein 714 OS=Arabidopsis thaliana GN=VAMP714 PE=2 SV=1 Back     alignment and function description
>sp|Q86AQ7|VAM7B_DICDI Vesicle-associated membrane protein 7B OS=Dictyostelium discoideum GN=vamp7B PE=3 SV=1 Back     alignment and function description
>sp|Q9JHW5|VAMP7_RAT Vesicle-associated membrane protein 7 OS=Rattus norvegicus GN=Vamp7 PE=1 SV=1 Back     alignment and function description
>sp|Q5ZL74|VAMP7_CHICK Vesicle-associated membrane protein 7 OS=Gallus gallus GN=VAMP7 PE=2 SV=1 Back     alignment and function description
>sp|P70280|VAMP7_MOUSE Vesicle-associated membrane protein 7 OS=Mus musculus GN=Vamp7 PE=1 SV=1 Back     alignment and function description
>sp|P51809|VAMP7_HUMAN Vesicle-associated membrane protein 7 OS=Homo sapiens GN=VAMP7 PE=1 SV=3 Back     alignment and function description
>sp|Q17QI5|VAMP7_BOVIN Vesicle-associated membrane protein 7 OS=Bos taurus GN=VAMP7 PE=2 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query163
255548872220 Vesicle-associated membrane protein, put 0.834 0.618 0.919 3e-69
444436404223 VAMP7-like protein [Eucalyptus cladocaly 0.834 0.609 0.911 5e-68
224141911220 predicted protein [Populus trichocarpa] 0.834 0.618 0.889 5e-68
449437158219 PREDICTED: vesicle-associated membrane p 0.834 0.621 0.897 1e-67
224089278220 predicted protein [Populus trichocarpa] 0.834 0.618 0.882 4e-67
356501396219 PREDICTED: vesicle-associated membrane p 0.834 0.621 0.882 1e-66
388492222219 unknown [Lotus japonicus] 0.834 0.621 0.860 7e-66
225430324220 PREDICTED: vesicle-associated membrane p 0.834 0.618 0.875 1e-65
363806654 265 uncharacterized protein LOC100820063 [Gl 0.834 0.513 0.867 4e-65
357493899219 Vesicle-associated membrane protein 7C [ 0.834 0.621 0.830 2e-64
>gi|255548872|ref|XP_002515492.1| Vesicle-associated membrane protein, putative [Ricinus communis] gi|223545436|gb|EEF46941.1| Vesicle-associated membrane protein, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  265 bits (678), Expect = 3e-69,   Method: Compositional matrix adjust.
 Identities = 125/136 (91%), Positives = 133/136 (97%)

Query: 1   MAILFSLVARGSVVLAECSATATNASAIARQILDKIPGNNDSHVSYSQDRYIFHVKRTDG 60
           MAIL++LVARGSVVLAE +ATATNASAIARQIL+KIPGNNDSHVSYSQDRYIFHVKRTDG
Sbjct: 1   MAILYALVARGSVVLAEFTATATNASAIARQILEKIPGNNDSHVSYSQDRYIFHVKRTDG 60

Query: 61  LTVLCMADDTAGRRIPFAFLEDIHQRFVKTYGRAVLSAQAYGMNDEFSRVLSQQMEYYSD 120
           LTVLCMADDTAGRRIPFAFLEDIHQRFV+TYGRAV SAQAY MNDEFSRVL+QQMEYYS+
Sbjct: 61  LTVLCMADDTAGRRIPFAFLEDIHQRFVRTYGRAVHSAQAYAMNDEFSRVLNQQMEYYSN 120

Query: 121 DPNADRINRIKGEMSQ 136
           DPNADRINR+KGEMSQ
Sbjct: 121 DPNADRINRLKGEMSQ 136

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|444436404|gb|AGE09570.1| VAMP7-like protein [Eucalyptus cladocalyx] Back     alignment and taxonomy information
>gi|224141911|ref|XP_002324304.1| predicted protein [Populus trichocarpa] gi|118482139|gb|ABK93000.1| unknown [Populus trichocarpa] gi|222865738|gb|EEF02869.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|449437158|ref|XP_004136359.1| PREDICTED: vesicle-associated membrane protein 713-like [Cucumis sativus] gi|449516866|ref|XP_004165467.1| PREDICTED: vesicle-associated membrane protein 713-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|224089278|ref|XP_002308673.1| predicted protein [Populus trichocarpa] gi|118487208|gb|ABK95432.1| unknown [Populus trichocarpa] gi|222854649|gb|EEE92196.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356501396|ref|XP_003519511.1| PREDICTED: vesicle-associated membrane protein 713-like [Glycine max] Back     alignment and taxonomy information
>gi|388492222|gb|AFK34177.1| unknown [Lotus japonicus] Back     alignment and taxonomy information
>gi|225430324|ref|XP_002285207.1| PREDICTED: vesicle-associated membrane protein 713 [Vitis vinifera] gi|296082055|emb|CBI21060.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|363806654|ref|NP_001242259.1| uncharacterized protein LOC100820063 [Glycine max] gi|255639293|gb|ACU19944.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|357493899|ref|XP_003617238.1| Vesicle-associated membrane protein 7C [Medicago truncatula] gi|355518573|gb|AET00197.1| Vesicle-associated membrane protein 7C [Medicago truncatula] 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 ?
Query163
TAIR|locus:2147952221 VAMP713 "AT5G11150" [Arabidops 0.834 0.615 0.824 1.7e-57
TAIR|locus:2059591219 VAMP712 "vesicle-associated me 0.834 0.621 0.816 3.6e-57
TAIR|locus:2116672219 VAMP711 "vesicle-associated me 0.834 0.621 0.808 9.6e-57
TAIR|locus:2176342221 VAMP714 "AT5G22360" [Arabidops 0.852 0.628 0.581 4.6e-41
DICTYBASE|DDB_G0277173260 vamp7B "vesicle-associated mem 0.828 0.519 0.492 9.1e-29
RGD|621558220 Vamp7 "vesicle-associated memb 0.828 0.613 0.375 1.1e-21
ZFIN|ZDB-GENE-040426-1055220 sybl1 "synaptobrevin-like 1" [ 0.773 0.572 0.417 2.4e-21
FB|FBgn0033452218 CG1599 [Drosophila melanogaste 0.828 0.619 0.360 3e-21
UNIPROTKB|E1C278167 VAMP7 "Vesicle-associated memb 0.828 0.808 0.382 3e-21
UNIPROTKB|F1NTP7178 VAMP7 "Vesicle-associated memb 0.828 0.758 0.382 3e-21
TAIR|locus:2147952 VAMP713 "AT5G11150" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 591 (213.1 bits), Expect = 1.7e-57, P = 1.7e-57
 Identities = 113/137 (82%), Positives = 132/137 (96%)

Query:     1 MAILFSLVARGSVVLAECSATATNASAIARQILDKIPGNN-DSHVSYSQDRYIFHVKRTD 59
             MAI+F+LVARG+VVL+E SAT+TNAS+I++QIL+K+PGN+ DSH+SYSQDRYIFHVKRTD
Sbjct:     1 MAIIFALVARGTVVLSEFSATSTNASSISKQILEKLPGNDSDSHMSYSQDRYIFHVKRTD 60

Query:    60 GLTVLCMADDTAGRRIPFAFLEDIHQRFVKTYGRAVLSAQAYGMNDEFSRVLSQQMEYYS 119
             GLTVLCMAD+TAGR IPFAFL+DIHQRFVKTYGRA+ SAQAY MNDEFSRVLSQQME+YS
Sbjct:    61 GLTVLCMADETAGRNIPFAFLDDIHQRFVKTYGRAIHSAQAYSMNDEFSRVLSQQMEFYS 120

Query:   120 DDPNADRINRIKGEMSQ 136
             +DPNADR++RIKGEMSQ
Sbjct:   121 NDPNADRMSRIKGEMSQ 137
GO:0003674 "molecular_function" evidence=ND
GO:0006810 "transport" evidence=IEA
GO:0016020 "membrane" evidence=ISS
GO:0016021 "integral to membrane" evidence=IEA
GO:0016192 "vesicle-mediated transport" evidence=IEA
GO:0005773 "vacuole" evidence=IDA
GO:0005774 "vacuolar membrane" evidence=TAS
GO:0009651 "response to salt stress" evidence=IMP
GO:0005794 "Golgi apparatus" evidence=IDA
TAIR|locus:2059591 VAMP712 "vesicle-associated membrane protein 712" [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
TAIR|locus:2176342 VAMP714 "AT5G22360" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0277173 vamp7B "vesicle-associated membrane protein 7B" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
RGD|621558 Vamp7 "vesicle-associated membrane protein 7" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-040426-1055 sybl1 "synaptobrevin-like 1" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
FB|FBgn0033452 CG1599 [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
UNIPROTKB|E1C278 VAMP7 "Vesicle-associated membrane protein 7" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|F1NTP7 VAMP7 "Vesicle-associated membrane protein 7" [Gallus gallus (taxid:9031)] 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) ?
Q9LFP1VA713_ARATHNo assigned EC number0.82480.83430.6153yesno

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:
estExt_Genewise1_v1.C_LG_XVIII1645
SubName- Full=Putative uncharacterized protein; (220 aa)
(Populus trichocarpa)
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 ?
Query163
pfam1377482 pfam13774, Longin, Regulated-SNARE-like domain 1e-26
>gnl|CDD|222370 pfam13774, Longin, Regulated-SNARE-like domain Back     alignment and domain information 
 Score = 95.3 bits (238), Expect = 1e-26
 Identities = 34/84 (40%), Positives = 45/84 (53%), Gaps = 3/84 (3%)

Query: 28  IARQILDKIPGNNDSHVSYSQDRYIFHVKRTDGLTVLCMADDTAGRRIPFAFLEDIHQRF 87
           +A+ IL+K+P  N    SY +  Y FH    DGL  LC+AD    RR+ FAFLE+I   F
Sbjct: 1   VAKTILEKLP-PNSPRQSYEEGNYTFHYLVEDGLCYLCIADKEYPRRLAFAFLEEIKDEF 59

Query: 88  VKTYGRA-VLSAQAYGMNDEFSRV 110
           +K YG +   +A  Y    EF   
Sbjct: 60  LKKYGGSQAATASPYAFP-EFDTF 82

Longin is one of the approximately 26 components required for transporting proteins from the ER to the plasma membrane, via the Golgi apparatus. It is necessary for the steps of the transfer from the ER to the Golgi complex. Longins are the only R-SNAREs that are common to all eukaryotes, and they are characterized by a conserved N-terminal domain with a profilin-like fold called a longin domain. Length = 82

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 163
KOG0859217 consensus Synaptobrevin/VAMP-like protein [Intrace 100.0
KOG0862216 consensus Synaptobrevin/VAMP-like protein SEC22 [I 99.98
KOG0861198 consensus SNARE protein YKT6, synaptobrevin/VAMP s 99.96
PF1377483 Longin: Regulated-SNARE-like domain; PDB: 1IOU_A 3 99.88
COG5143190 SNC1 Synaptobrevin/VAMP-like protein [Intracellula 99.85
KOG0860116 consensus Synaptobrevin/VAMP-like protein [Intrace 99.06
PF0095789 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 98.53
PF04086 279 SRP-alpha_N: Signal recognition particle, alpha su 96.68
PF09426141 Nyv1_N: Vacuolar R-SNARE Nyv1 N terminal; InterPro 95.84
KOG0781 587 consensus Signal recognition particle receptor, al 94.53
PF04099142 Sybindin: Sybindin-like family ; InterPro: IPR0072 94.04
KOG0938 446 consensus Adaptor complexes medium subunit family 92.43
PF04628132 Sedlin_N: Sedlin, N-terminal conserved region; Int 88.68
PF01217141 Clat_adaptor_s: Clathrin adaptor complex small cha 87.72
PF03164 415 Mon1: Trafficking protein Mon1; InterPro: IPR00435 80.55
>KOG0859 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information 
Probab=100.00  E-value=5e-52  Score=301.08  Aligned_cols=155  Identities=46%  Similarity=0.750  Sum_probs=151.2

Q ss_pred             CceEEEEEEeCCeeEeeeeCCCCCHHHHHHHHhccCCCCCCCeeEEEeCCEEEEEEEeCCEEEEEEecCCCCcccHHHHH
Q 031220            1 MAILFSLVARGSVVLAECSATATNASAIARQILDKIPGNNDSHVSYSQDRYIFHVKRTDGLTVLCMADDTAGRRIPFAFL   80 (163)
Q Consensus         1 M~I~Y~~Iar~~~iLae~~~~~~~~~~~~~~vl~~i~~~~~~k~~~~~~~~~~h~l~~~~~~~~~itd~~~~~~~af~fL   80 (163)
                      |+|+|+.||||++|||||++.+|||..++..+|+++|++++.|.+|.+|+|+|||+.+||++|+||+|++.++++||.||
T Consensus         1 m~iiYs~VARGTvvLaeft~~~gNf~sva~qiL~klp~~~n~k~tYs~d~y~Fh~l~~dg~tylcvadds~gR~ipfaFL   80 (217)
T KOG0859|consen    1 MSIIYSFVARGTVILAEFTEFSGNFSSIAAQILQKLPSSSNSKFTYSCDGYTFHYLVEDGLTYLCVADDSAGRQIPFAFL   80 (217)
T ss_pred             CceeEEEEecceEEEEeeeeccCCHHHHHHHHHHhCCCCCCCceEEecCCeEEEEEEeCCeEEEEEEeccccccccHHHH
Confidence            89999999999999999999999999999999999998768899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhcccccccCCCCchhhhHHHHHHHHHHhcCCchhhHHHHHHHhHHHHHHHHHhcHHHHHhhhhcCCCc
Q 031220           81 EDIHQRFVKTYGRAVLSAQAYGMNDEFSRVLSQQMEYYSDDPNADRINRIKGEMSQETRSASESRLGVSEAQYGGETS  158 (163)
Q Consensus        81 ~~i~~~F~~~~~~~~~~~~~~~~~~~F~~~l~~~~~~yn~~~~~dki~~i~~~v~evk~im~~NI~kvle~l~RGe~~  158 (163)
                      ++|++.|.+.|+..+.++.+|++|++|++.|++-|++|.++|+.|++.+++.||+|||+||++|||||+|   |||+|
T Consensus        81 e~Ik~~F~k~YG~~a~ta~AysmN~EFs~vL~qqm~y~s~~p~id~lskvkaqv~evk~vM~eNIekvld---RGeki  155 (217)
T KOG0859|consen   81 ERIKEDFKKRYGGGAHTAVAYSMNKEFSSVLKQQMQYCSEHPEISKLAKVKAQVTEVKGVMMENIEKVLD---RGEKI  155 (217)
T ss_pred             HHHHHHHHHHhccchhHHHHhHhHHHHHHHHHHHHHHHHcCcchhHHHHHHHHHHHHHHHHHHHHHHHHh---ccCeE
Confidence            9999999999998899999999999999999999999999999999999999999999999999999886   99995

>KOG0862 consensus Synaptobrevin/VAMP-like protein SEC22 [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
>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
>COG5143 SNC1 Synaptobrevin/VAMP-like protein [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
>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
>PF04086 SRP-alpha_N: Signal recognition particle, alpha subunit, N-terminal; InterPro: IPR007222 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ] Back     alignment and domain information
>PF09426 Nyv1_N: Vacuolar R-SNARE Nyv1 N terminal; InterPro: IPR019005 This entry represents the N-terminal domain of vacuolar R-SNARE Nyv1, which adopts a longin fold [] Back     alignment and domain information
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PF04099 Sybindin: Sybindin-like family ; InterPro: IPR007233 Sybindin is a physiological syndecan-2 ligand on dendritic spines, the small protrusions on the surface of dendrites that receive the vast majority of excitatory synapses Back     alignment and domain information
>KOG0938 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PF04628 Sedlin_N: Sedlin, N-terminal conserved region; InterPro: IPR006722 Sedlin is a 140 amino-acid protein with a putative role in endoplasmic reticulum-to-Golgi transport Back     alignment and domain information
>PF01217 Clat_adaptor_s: Clathrin adaptor complex small chain; InterPro: IPR022775 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment Back     alignment and domain information
>PF03164 Mon1: Trafficking protein Mon1; InterPro: IPR004353 Members of this family have been called SAND proteins [] although these proteins do not contain a SAND domain 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 ?
Query163
4b93_A189 Complex Of Vamp7 Cytoplasmic Domain With 2nd Ankyri 4e-23
2dmw_A131 Solution Structure Of The Longin Domain Of Synaptob 2e-22
4afi_A173 Complex Between Vamp7 Longin Domain And Fragment Of 9e-22
2vx8_A169 Vamp7 Longin Domain Hrb Peptide Complex Length = 16 1e-20
>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 =  103 bits (258), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 50/136 (36%), Positives = 82/136 (60%), Gaps = 1/136 (0%)
Query: 1   MAILFSLVARGSVVLAECSATATNASAIARQILDKIPGNNDSHVSYSQDRYIFHVKRTDG 60
           MAILF++VARG+ +LA+ +    N   +  QIL KIP  N+  ++YS   Y+FH    D 
Sbjct: 2   MAILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNK-LTYSHGNYLFHYICQDR 60
Query: 61  LTVLCMADDTAGRRIPFAFLEDIHQRFVKTYGRAVLSAQAYGMNDEFSRVLSQQMEYYSD 120
           +  LC+ DD   R   F+FL ++ +RF  TYG    +A  Y MN EFS VL+ Q++++S+
Sbjct: 61  IVYLCITDDDFERSRAFSFLNEVKKRFQTTYGSRAQTALPYAMNSEFSSVLAAQLKHHSE 120
Query: 121 DPNADRINRIKGEMSQ 136
           + + D++   + ++ +
Sbjct: 121 NKSLDKVMETQAQVDE 136
>pdb|2DMW|A Chain A, Solution Structure Of The Longin Domain Of Synaptobrevin- Like Protein 1 Length = 131 Back     alignment and structure
>pdb|4AFI|A Chain A, Complex Between Vamp7 Longin Domain And Fragment Of Delta- Adaptin From Ap3 Length = 173 Back     alignment and structure
>pdb|2VX8|A Chain A, Vamp7 Longin Domain Hrb Peptide Complex Length = 169 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 ?
Query163
4afi_A173 AP-3 complex subunit delta-1, vesicle-associated p 6e-43
2vx8_A169 Nucleoporin-like protein RIP, vesicle-associated m 3e-39
2nut_C196 Vesicle-trafficking protein SEC22B; human copii SE 1e-26
3kyq_A199 YKT6, synaptobrevin homolog YKT6; V-snare homolog, 3e-16
3bw6_A144 Synaptobrevin homolog YKT6; YKT6P, farnesylation, 4e-07
>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
 Score =  139 bits (352), Expect = 6e-43
 Identities = 48/121 (39%), Positives = 75/121 (61%), Gaps = 1/121 (0%)

Query: 1   MAILFSLVARGSVVLAECSATATNASAIARQILDKIPGNNDSHVSYSQDRYIFHVKRTDG 60
           MAILF++VARG+ +LA+ +    N   +  QIL KIP + ++ ++YS   Y+FH    D 
Sbjct: 54  MAILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIP-SENNKLTYSHGNYLFHYICQDR 112

Query: 61  LTVLCMADDTAGRRIPFAFLEDIHQRFVKTYGRAVLSAQAYGMNDEFSRVLSQQMEYYSD 120
           +  LC+ DD   R   F+FL ++ +RF  TYG    +A  Y MN EFS VL+ Q++++S+
Sbjct: 113 IVYLCITDDDFERSRAFSFLNEVKKRFQTTYGSRAQTALPYAMNSEFSSVLAAQLKHHSE 172

Query: 121 D 121
           +
Sbjct: 173 N 173
>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
>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
>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
>3bw6_A Synaptobrevin homolog YKT6; YKT6P, farnesylation, vacuole fusion, snare, coiled coil, lipoprotein, membrane, phosphoprotein; 2.50A {Saccharomyces cerevisiae} PDB: 1h8m_A 1iou_A Length = 144 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query163
4b93_A189 Vesicle-associated membrane protein 7; endocytosis 100.0
2nut_C196 Vesicle-trafficking protein SEC22B; human copii SE 100.0
4afi_A173 AP-3 complex subunit delta-1, vesicle-associated p 100.0
3kyq_A199 YKT6, synaptobrevin homolog YKT6; V-snare homolog, 100.0
2vx8_A169 Nucleoporin-like protein RIP, vesicle-associated m 100.0
3bw6_A144 Synaptobrevin homolog YKT6; YKT6P, farnesylation, 99.96
1gl2_A65 Endobrevin; membrane protein, membrane fusion prot 99.16
1n7s_A63 Vesicle-associated membrane protein 2; neuronal sn 99.12
2nps_A74 VAMP-4, vesicle-associated membrane protein 4; ves 99.08
1l4a_A80 Synaptobrevin; snare, snare complex, membrane fusi 99.04
3b5n_A61 Synaptobrevin homolog 1; snare complex, syntaxin, 99.01
1sfc_A96 VAMP 2, protein (synaptobrevin 2); membrane fusion 98.98
3hd7_A91 Vesicle-associated membrane protein 2; membrane pr 98.94
2kog_A119 Vesicle-associated membrane protein 2; synaptobrev 98.94
3zym_A310 Phosphatidylinositol-binding clathrin assembly PR 98.63
1urq_A63 M-tomosyn isoform; transport protein, tomosyn-snar 98.61
3fie_C38 Fragment of vesicle-associated membrane protein 2; 98.58
2fh5_A185 Signal recognition particle receptor alpha subunit 98.13
2fz0_A149 R-snare NYV1P, V-snare component of the vacuolar s 96.58
2j3w_A142 Sedlin, trafficking protein particle complex prote 93.85
3tjz_C153 Coatomer subunit zeta-1; protein trafficking, golg 93.41
2j3t_C145 Trafficking protein particle complex subunit 1, tr 92.94
1w63_Q158 Adapter-related protein complex 1 sigma 1A subunit 91.59
2vgl_S142 AP-2 complex subunit sigma-1; cytoplasmic vesicle, 91.37
2j3t_D219 Trafficking protein particle complex subunit 4; tr 91.13
1w63_M 423 Adaptor-related protein complex 1, MU 1 subunit; e 88.79
3cue_A219 Transport protein particle 23 kDa subunit; membran 88.78
2vgl_M 435 AP-2 complex subunit MU-1; cytoplasmic vesicle, al 88.47
3cue_C159 Transport protein particle 18 kDa subunit; membran 87.79
1txp_A28 HnRNP C, heterogeneous nuclear ribonucleoprotein C 83.29
1ccd_A77 Clara cell 17 KD protein; phospholipase A2 inhibit 81.19
>4b93_A Vesicle-associated membrane protein 7; endocytosis, exocytosis, snare; 2.00A {Mus musculus} PDB: 2dmw_A Back     alignment and structure
Probab=100.00  E-value=7.9e-52  Score=307.45  Aligned_cols=155  Identities=34%  Similarity=0.558  Sum_probs=142.5

Q ss_pred             CceEEEEEEeCCeeEeeeeCCCCCHHHHHHHHhccCCCCCCCeeEEEeCCEEEEEEEeCCEEEEEEecCCCCcccHHHHH
Q 031220            1 MAILFSLVARGSVVLAECSATATNASAIARQILDKIPGNNDSHVSYSQDRYIFHVKRTDGLTVLCMADDTAGRRIPFAFL   80 (163)
Q Consensus         1 M~I~Y~~Iar~~~iLae~~~~~~~~~~~~~~vl~~i~~~~~~k~~~~~~~~~~h~l~~~~~~~~~itd~~~~~~~af~fL   80 (163)
                      |||+|+|||||++|||||+..+|||..+++.+|+++|+ .++|.++++|+|.|||+.++|++|+||||++||+++||.||
T Consensus         2 M~ilYa~VArg~~iLae~t~~~gnf~~ia~~iL~kip~-~~~k~s~~~~~y~fHyl~~~gl~yl~i~d~~yp~r~af~fL   80 (189)
T 4b93_A            2 MAILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPS-ENNKLTYSHGNYLFHYICQDRIVYLCITDDDFERSRAFSFL   80 (189)
T ss_dssp             CSEEEEEEEETTEEEEEEESSEECHHHHHHHHHTTCCS-SSEEEEEEETTEEEEEEEETTEEEEEEEETTSCHHHHHHHH
T ss_pred             CceEEEEEEeCCEEEEeCCCCCCCHHHHHHHHHHhCCC-CCCeEEEEECCEEEEEEEeCCeEEEEEEcCccCHHHHHHHH
Confidence            99999999999999999999999999999999999997 68999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhcccccccCCCCchhhhHHHHHHHHHHhcCCchhhHHHHHHHhHHHHHHHHHhcHHHHHhhhhcCCCcc
Q 031220           81 EDIHQRFVKTYGRAVLSAQAYGMNDEFSRVLSQQMEYYSDDPNADRINRIKGEMSQETRSASESRLGVSEAQYGGETSS  159 (163)
Q Consensus        81 ~~i~~~F~~~~~~~~~~~~~~~~~~~F~~~l~~~~~~yn~~~~~dki~~i~~~v~evk~im~~NI~kvle~l~RGe~~~  159 (163)
                      ++|+++|.+.|+..+.++.|++++.+|.+.|+++|++|+++++.|++.+++++|+||++||++|||+||   +|||+|+
T Consensus        81 ~~i~~eF~~~~~~~~~~~~~~~~~~~f~~~l~~~~~~y~d~~~~d~l~~~~~~l~ev~~im~~Ni~~vl---~Rge~l~  156 (189)
T 4b93_A           81 NEVKKRFQTTYGSRAQTALPYAMNSEFSSVLAAQLKHHSENKSLDKVMETQAQVDELKGIMVRNIDLVA---QRGERLE  156 (189)
T ss_dssp             HHHHHHHHHHHGGGGGTCCTTTTHHHHHHHHHHHHHHHHCC-------CCHHHHHTTTTCCEECCCCBC---TTSSBCC
T ss_pred             HHHHHHHHhhccccccccCCccccchhhHHHHHHHHhhhcccchhhHHHHHHHHHHHHHHHHHHHHHHH---HhhhhHH
Confidence            999999999999888888999998899999999999999999999999999999999999999999876   5999975
>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
>4afi_A AP-3 complex subunit delta-1, vesicle-associated protein 7; endocytosis, exocytosis, clathrin adaptor, chimera, fusion P; 2.80A {Homo sapiens} 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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>2fh5_A Signal recognition particle receptor alpha subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Homo sapiens} SCOP: d.110.4.4 PDB: 2go5_1 Back     alignment and structure
>2fz0_A R-snare NYV1P, V-snare component of the vacuolar snare complex involved in vesicle fusion; inhibits...; snare protein, longin domain; NMR {Saccharomyces cerevisiae} Back     alignment and structure
>2j3w_A Sedlin, trafficking protein particle complex protein 2; multisubunit tethering factor, trapp, palmitate, transport, lipoprotein; HET: PLM; 2.1A {Mus musculus} SCOP: d.110.4.3 PDB: 1h3q_A Back     alignment and structure
>3tjz_C Coatomer subunit zeta-1; protein trafficking, golgi membrane, protein transport-prote binding complex; HET: GNP; 2.90A {Bos taurus} PDB: 2hf6_A Back     alignment and structure
>2j3t_C Trafficking protein particle complex subunit 1, trafficking protein particle complex subunit 3; trapp, palmitate, transport, lipoprotein, ER-golgi transport apparatus, protein transport; HET: PLM; 2.4A {Mus musculus} Back     alignment and structure
>1w63_Q Adapter-related protein complex 1 sigma 1A subunit; endocytosis, clathrin adaptor, transport, coated PITS; 4.0A {Mus musculus} SCOP: i.23.1.1 Back     alignment and structure
>2vgl_S AP-2 complex subunit sigma-1; cytoplasmic vesicle, alternative splicing, endocytosis, lipid-binding, golgi apparatus, adaptor, membrane, transport; HET: IHP; 2.59A {Mus musculus} SCOP: i.23.1.1 PDB: 2jkt_I 2jkr_I* 2xa7_S Back     alignment and structure
>2j3t_D Trafficking protein particle complex subunit 4; trapp, palmitate, transport, lipoprotein, ER-golgi transport apparatus, protein transport; HET: PLM; 2.4A {Homo sapiens} PDB: 2zmv_A 2jsn_A Back     alignment and structure
>1w63_M Adaptor-related protein complex 1, MU 1 subunit; endocytosis, clathrin adaptor, transport, coated PITS; 4.0A {Mus musculus} SCOP: i.23.1.1 Back     alignment and structure
>3cue_A Transport protein particle 23 kDa subunit; membrane traffic, GEF, tethering complex, RAB activation, GU nucleotide exchange factor; HET: PLM; 3.70A {Saccharomyces cerevisiae} Back     alignment and structure
>2vgl_M AP-2 complex subunit MU-1; cytoplasmic vesicle, alternative splicing, endocytosis, lipid-binding, golgi apparatus, adaptor, membrane, transport; HET: IHP; 2.59A {Rattus norvegicus} PDB: 2jkr_M 2jkt_M 2bp5_M* 2xa7_M Back     alignment and structure
>3cue_C Transport protein particle 18 kDa subunit; membrane traffic, GEF, tethering complex, RAB activation, GU nucleotide exchange factor; HET: PLM; 3.70A {Saccharomyces cerevisiae} Back     alignment and structure
>1txp_A HnRNP C, heterogeneous nuclear ribonucleoprotein C protein; antiparallel four helix coiled coil tetramer HNRNPC, signaling protein; NMR {Homo sapiens} Back     alignment and structure
>1ccd_A Clara cell 17 KD protein; phospholipase A2 inhibitor; 3.00A {Rattus rattus} SCOP: a.101.1.1 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 163
d1ifqa_127 d.110.4.1 (A:) Sec22b {Mouse (Mus musculus) [TaxId 5e-29
d1ioua_140 d.110.4.1 (A:) Synaptobrevin homolog 1 ykt6 {Baker 2e-21
d2fh5a1129 d.110.4.4 (A:1-129) Signal recognition particle re 0.002
>d1ifqa_ d.110.4.1 (A:) Sec22b {Mouse (Mus musculus) [TaxId: 10090]} Length = 127 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]

 Score =  101 bits (253), Expect = 5e-29
 Identities = 24/127 (18%), Positives = 56/127 (44%), Gaps = 11/127 (8%)

Query: 2   AILFSLVARGSVVLAECSATATNASA---------IARQILDKIPGNNDSHVSYSQDRYI 52
           ++L +++AR +  L   ++   +  +          A+Q+  K+   + +  +       
Sbjct: 1   SVLLTMIARVADGLPLAASMQEDEQSGRDLQQYQSQAKQLFRKLNEQSPTRCTLEAGAMT 60

Query: 53  FHVKRTDGLTVLCMADDTAGRRIPFAFLEDIHQRFVKTYGRAVLSA-QAYGMNDEFSRVL 111
           FH     G+  L + +    +++ FA+LED+H  F + +G+ V +  + Y    EF   +
Sbjct: 61  FHYIIEQGVCYLVLCEAAFPKKLAFAYLEDLHSEFDEQHGKKVPTVSRPYSFI-EFDTFI 119

Query: 112 SQQMEYY 118
            +  + Y
Sbjct: 120 QKTKKLY 126
>d1ioua_ d.110.4.1 (A:) Synaptobrevin homolog 1 ykt6 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 140 Back     information, alignment and structure
>d2fh5a1 d.110.4.4 (A:1-129) Signal recognition particle receptor alpha subunit, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 129 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query163
d1ifqa_127 Sec22b {Mouse (Mus musculus) [TaxId: 10090]} 99.97
d1ioua_140 Synaptobrevin homolog 1 ykt6 {Baker's yeast (Sacch 99.9
d2fh5a1129 Signal recognition particle receptor alpha subunit 98.39
d2vglm2141 Mu2 adaptin (clathrin coat assembly protein AP50) 95.91
d2vgls_142 Sigma2 adaptin (clathrin coat assembly protein AP1 95.23
d2j3wa1140 Sedlin (SEDL) {Mouse (Mus musculus) [TaxId: 10090] 90.79
>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=99.97  E-value=1.2e-29  Score=174.81  Aligned_cols=116  Identities=22%  Similarity=0.456  Sum_probs=104.2

Q ss_pred             ceEEEEEEeCC--eeEeeeeCCCCC-------HHHHHHHHhccCCCCCCCeeEEEeCCEEEEEEEeCCEEEEEEecCCCC
Q 031220            2 AILFSLVARGS--VVLAECSATATN-------ASAIARQILDKIPGNNDSHVSYSQDRYIFHVKRTDGLTVLCMADDTAG   72 (163)
Q Consensus         2 ~I~Y~~Iar~~--~iLae~~~~~~~-------~~~~~~~vl~~i~~~~~~k~~~~~~~~~~h~l~~~~~~~~~itd~~~~   72 (163)
                      ||+|++|||+.  +|||++++.+++       +...++.++++++|+.++|.+++.++|.|||+.++|++|+||||++||
T Consensus         1 sil~t~IaR~~DgL~L~~s~~~~~~~~~~~~~~k~qak~ll~kl~~~~~~r~s~~~~~y~fHy~~~~gi~yl~i~d~~~~   80 (127)
T d1ifqa_           1 SVLLTMIARVADGLPLAASMQEDEQSGRDLQQYQSQAKQLFRKLNEQSPTRCTLEAGAMTFHYIIEQGVCYLVLCEAAFP   80 (127)
T ss_dssp             CCCEEEEEETTTCCEEEEECCCTTCCHHHHHHHHHHHHHHHTTCCTTSCSEEEEEETTEEEEEEEETTEEEEEEEETTSC
T ss_pred             CeEEEEEEEecCCcEEEEEeccccccchhHHHHHHHHHHHHHhCCCCCCCcEEEEECCEEEEEEecCCeEEEEEEccccC
Confidence            69999999974  899999976543       346789999999876689999999999999999999999999999999


Q ss_pred             cccHHHHHHHHHHHHHhhhcccccc-cCCCCchhhhHHHHHHHHHHh
Q 031220           73 RRIPFAFLEDIHQRFVKTYGRAVLS-AQAYGMNDEFSRVLSQQMEYY  118 (163)
Q Consensus        73 ~~~af~fL~~i~~~F~~~~~~~~~~-~~~~~~~~~F~~~l~~~~~~y  118 (163)
                      +++||.||++|+++|.++|+..+.+ .+||+|. +|+..|++.++.|
T Consensus        81 ~~laF~fLeei~~eF~~~y~~~i~~~~rpy~Fi-~Fd~~iqk~k~~y  126 (127)
T d1ifqa_          81 KKLAFAYLEDLHSEFDEQHGKKVPTVSRPYSFI-EFDTFIQKTKKLY  126 (127)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTTTTTCCSTTTTG-GGHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhhhhhhhcccCCcchH-HHHHHHHHHHHhc
Confidence            9999999999999999999876544 5799996 9999999999887
>d1ioua_ d.110.4.1 (A:) Synaptobrevin homolog 1 ykt6 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d2fh5a1 d.110.4.4 (A:1-129) Signal recognition particle receptor alpha subunit, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2j3wa1 d.110.4.3 (A:1-140) Sedlin (SEDL) {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure