Citrus Sinensis ID: 029997

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----
MKITALLVLKCNPDGSDPVVLATAMDVSHFGYFQRSSVKEFILFVARTVGKRTPPGQRQSVQHEEYKVHSYNRNGLCVMGFMDDHYPVRSSFSLLNQVLDEYQKNFGESWRTAQADNMQPWPYLNEALNKYQDPAEADKLLKIQRELDETKIILHKTIDSVLARGEKLDSLVEKSSDLSAASQT
cEEEEEEEEEcccccccccEEEEEEEcccccHHHHHHHHHHHHHHHHHHHccccccccEEEEEccEEEEEEEEccEEEEEEEcccccHHHHHHHHHHHHHHHHHHHcccHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHccc
cEEEEEEEEEccccccccEEEEcHHcHHHccHccccHHHHHHHHHHHHHHHccccccEEEEEcccEEEEEEEEccEEEEEEEccccccHHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccc
MKITALLVLkcnpdgsdpVVLATAmdvshfgyfqrsSVKEFILFVARtvgkrtppgqrqsvqheeykvhsynrnglcvmgfmddhypvrssfSLLNQVLDEYQKNFGESWRTaqadnmqpwpyLNEALNKYQDPAEADKLLKIQRELDETKIILHKTIDSVLARGEKLDSLVEkssdlsaasqt
MKITALLVLKCNPDGSDPVVLATAMDVSHFGYFQRSSVKEFILFVARTvgkrtppgqrqsvqheeykvHSYNRNGLCVMGFMDDHYPVRSSFSLLNQVLDEYQKNFGESWRTAQADNMQPWPYLNEALNKYQDPAEADKLLKIQRELDETKIILHKTIDSVLARGEKLdslvekssdlsaasqt
MKITALLVLKCNPDGSDPVVLATAMDVSHFGYFQRSSVKEFILFVARTVGKRTPPGQRQSVQHEEYKVHSYNRNGLCVMGFMDDHYPVRSSFSLLNQVLDEYQKNFGESWRTAQADNMQPWPYLNEALNKYQDPAEADKLLKIQRELDETKIILHKTIDSVLARGEKLDSLVEKSSDLSAASQT
***TALLVLKCNPDGSDPVVLATAMDVSHFGYFQRSSVKEFILFVARTVG**************EYKVHSYNRNGLCVMGFMDDHYPVRSSFSLLNQVLDEYQKNFGESWRTAQADNMQPWPYLNEALNKYQDPAEADKLLKIQRELDETKIILHKTIDSVLA*********************
MKITALLVLKCNPDGSDPVVLATAMDVSHFGYFQRSSVKEFILFVARTVGKRTPPGQRQSVQHEEYKVHSYNRNGLCVMGFMDDHYPVRSSFSLLNQVLDEYQKNFGESWRTAQADNMQPWPYLNEALNKYQDPAEADKLLKI*RELDETKIILHKTIDSVLARGEKLDSLVE****L******
MKITALLVLKCNPDGSDPVVLATAMDVSHFGYFQRSSVKEFILFVARTVG***************YKVHSYNRNGLCVMGFMDDHYPVRSSFSLLNQVLDEYQKNFGESWRTAQADNMQPWPYLNEALNKYQDPAEADKLLKIQRELDETKIILHKTIDSVLARGEKLDS**************
MKITALLVLKCNPDGSDPVVLATAMDVSHFGYFQRSSVKEFILFVARTVGKRTPPGQRQSVQHEEYKVHSYNRNGLCVMGFMDDHYPVRSSFSLLNQVLDEYQKNFGESWRTAQADNMQPWPYLNEALNKYQDPAEADKLLKIQRELDETKIILHKTIDSVLARGEKLDSLVEKSS********
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MKITALLVLKCNPDGSDPVVLATAMDVSHFGYFQRSSVKEFILFVARTVGKRTPPGQRQSVQHEEYKVHSYNRNGLCVMGFMDDHYPVRSSFSLLNQVLDEYQKNFGESWRTAQADNMQPWPYLNEALNKYQDPAEADKLLKIQRELDETKIILHKTIDSVLARGEKLDSLVEKSSDLSAASQT
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 ?
Query184 2.2.26 [Sep-21-2011]
Q9ZRD6199 VAMP-like protein YKT61 O yes no 0.994 0.919 0.857 6e-93
Q9LVM9199 VAMP-like protein YKT62 O no no 0.983 0.909 0.735 4e-77
Q757A4200 Synaptobrevin homolog YKT yes no 0.983 0.905 0.473 1e-40
Q6FW27205 Synaptobrevin homolog YKT yes no 0.885 0.795 0.493 4e-39
P36015200 Synaptobrevin homolog YKT yes no 0.983 0.905 0.446 6e-39
Q6C537200 Synaptobrevin homolog YKT yes no 0.983 0.905 0.462 7e-39
Q6BSL0200 Synaptobrevin homolog YKT yes no 0.961 0.885 0.442 2e-38
Q6CSA2200 Synaptobrevin homolog YKT yes no 0.983 0.905 0.462 4e-38
O60073197 Synaptobrevin homolog ykt yes no 0.967 0.903 0.473 4e-36
Q3T000198 Synaptobrevin homolog YKT yes no 0.978 0.909 0.454 2e-29
>sp|Q9ZRD6|YKT61_ARATH VAMP-like protein YKT61 OS=Arabidopsis thaliana GN=YKT61 PE=2 SV=1 Back     alignment and function desciption
 Score =  339 bits (870), Expect = 6e-93,   Method: Compositional matrix adjust.
 Identities = 157/183 (85%), Positives = 170/183 (92%)

Query: 1   MKITALLVLKCNPDGSDPVVLATAMDVSHFGYFQRSSVKEFILFVARTVGKRTPPGQRQS 60
           MKITALLVLKC P+ SDPV+L+ A DVSHFGYFQRSSVKEF++FV RTV  RTPP QRQS
Sbjct: 1   MKITALLVLKCAPEASDPVILSNASDVSHFGYFQRSSVKEFVVFVGRTVASRTPPSQRQS 60

Query: 61  VQHEEYKVHSYNRNGLCVMGFMDDHYPVRSSFSLLNQVLDEYQKNFGESWRTAQADNMQP 120
           VQHEEYKVH+YNRNGLC +GFMDDHYPVRS+FSLLNQVLDEYQK+FGESWR+A+ D+ QP
Sbjct: 61  VQHEEYKVHAYNRNGLCAVGFMDDHYPVRSAFSLLNQVLDEYQKSFGESWRSAKEDSNQP 120

Query: 121 WPYLNEALNKYQDPAEADKLLKIQRELDETKIILHKTIDSVLARGEKLDSLVEKSSDLSA 180
           WPYL EALNK+QDPAEADKLLKIQRELDETKIILHKTIDSVLARGEKLDSLVEKSSDLS 
Sbjct: 121 WPYLTEALNKFQDPAEADKLLKIQRELDETKIILHKTIDSVLARGEKLDSLVEKSSDLSM 180

Query: 181 ASQ 183
           ASQ
Sbjct: 181 ASQ 183
May be involved in the secretory pathway.
Arabidopsis thaliana (taxid: 3702)
>sp|Q9LVM9|YKT62_ARATH VAMP-like protein YKT62 OS=Arabidopsis thaliana GN=YKT62 PE=2 SV=1 Back     alignment and function description
>sp|Q757A4|YKT6_ASHGO Synaptobrevin homolog YKT6 OS=Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056) GN=YKT6 PE=3 SV=1 Back     alignment and function description
>sp|Q6FW27|YKT6_CANGA Synaptobrevin homolog YKT6 OS=Candida glabrata (strain ATCC 2001 / CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65) GN=YKT6 PE=3 SV=1 Back     alignment and function description
>sp|P36015|YKT6_YEAST Synaptobrevin homolog YKT6 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=YKT6 PE=1 SV=1 Back     alignment and function description
>sp|Q6C537|YKT6_YARLI Synaptobrevin homolog YKT6 OS=Yarrowia lipolytica (strain CLIB 122 / E 150) GN=YKT6 PE=3 SV=1 Back     alignment and function description
>sp|Q6BSL0|YKT6_DEBHA Synaptobrevin homolog YKT6 OS=Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) GN=YKT6 PE=3 SV=1 Back     alignment and function description
>sp|Q6CSA2|YKT6_KLULA Synaptobrevin homolog YKT6 OS=Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) GN=YKT6 PE=3 SV=1 Back     alignment and function description
>sp|O60073|YKT6_SCHPO Synaptobrevin homolog ykt6 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=ykt6 PE=3 SV=1 Back     alignment and function description
>sp|Q3T000|YKT6_BOVIN Synaptobrevin homolog YKT6 OS=Bos taurus GN=YKT6 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 ?
Query184
224091686199 predicted protein [Populus trichocarpa] 0.994 0.919 0.912 1e-97
359484789199 PREDICTED: VAMP-like protein YKT61-like 0.994 0.919 0.890 7e-95
255565023199 snare protein ykt6, putative [Ricinus co 0.994 0.919 0.901 8e-95
47681462199 putative SNARE protein [Hevea brasiliens 0.994 0.919 0.896 2e-94
4097579199 NTGP1 [Nicotiana tabacum] 0.994 0.919 0.885 3e-94
224142417199 predicted protein [Populus trichocarpa] 0.994 0.919 0.885 8e-94
35187452199 fiber NTGP1-related protein [Gossypium b 0.994 0.919 0.863 4e-93
449457919199 PREDICTED: VAMP-like protein YKT61-like 0.994 0.919 0.874 6e-93
351724751199 uncharacterized protein LOC100499670 [Gl 0.994 0.919 0.868 9e-93
351721724199 uncharacterized protein LOC100306336 [Gl 0.994 0.919 0.863 6e-92
>gi|224091686|ref|XP_002309328.1| predicted protein [Populus trichocarpa] gi|222855304|gb|EEE92851.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
 Score =  360 bits (925), Expect = 1e-97,   Method: Compositional matrix adjust.
 Identities = 167/183 (91%), Positives = 175/183 (95%)

Query: 1   MKITALLVLKCNPDGSDPVVLATAMDVSHFGYFQRSSVKEFILFVARTVGKRTPPGQRQS 60
           MKITALLVLKCNP+GSDPV+LA AMDVSHFGYFQRSSVKEFI FV RTV KRTPPGQRQS
Sbjct: 1   MKITALLVLKCNPEGSDPVILANAMDVSHFGYFQRSSVKEFIFFVGRTVAKRTPPGQRQS 60

Query: 61  VQHEEYKVHSYNRNGLCVMGFMDDHYPVRSSFSLLNQVLDEYQKNFGESWRTAQADNMQP 120
           VQHEEYKVH+YNRNGLC +GFMDDHYPVRS+FSLLNQV+DEYQKNFGESWR AQAD+ QP
Sbjct: 61  VQHEEYKVHTYNRNGLCALGFMDDHYPVRSAFSLLNQVIDEYQKNFGESWRAAQADSTQP 120

Query: 121 WPYLNEALNKYQDPAEADKLLKIQRELDETKIILHKTIDSVLARGEKLDSLVEKSSDLSA 180
           WPYLNEAL K+QDPAEADKLLKIQRELDETKIILHKTIDSVLARGEKLDSLVEKSSDLSA
Sbjct: 121 WPYLNEALTKFQDPAEADKLLKIQRELDETKIILHKTIDSVLARGEKLDSLVEKSSDLSA 180

Query: 181 ASQ 183
           ASQ
Sbjct: 181 ASQ 183

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|359484789|ref|XP_003633163.1| PREDICTED: VAMP-like protein YKT61-like [Vitis vinifera] gi|147820981|emb|CAN67944.1| hypothetical protein VITISV_025333 [Vitis vinifera] gi|297735901|emb|CBI18677.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|255565023|ref|XP_002523504.1| snare protein ykt6, putative [Ricinus communis] gi|223537211|gb|EEF38843.1| snare protein ykt6, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|47681462|gb|AAT37501.1| putative SNARE protein [Hevea brasiliensis] Back     alignment and taxonomy information
>gi|4097579|gb|AAD00116.1| NTGP1 [Nicotiana tabacum] Back     alignment and taxonomy information
>gi|224142417|ref|XP_002324554.1| predicted protein [Populus trichocarpa] gi|118483244|gb|ABK93525.1| unknown [Populus trichocarpa] gi|222865988|gb|EEF03119.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|35187452|gb|AAQ84317.1| fiber NTGP1-related protein [Gossypium barbadense] Back     alignment and taxonomy information
>gi|449457919|ref|XP_004146695.1| PREDICTED: VAMP-like protein YKT61-like [Cucumis sativus] gi|449521884|ref|XP_004167959.1| PREDICTED: VAMP-like protein YKT61-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|351724751|ref|NP_001238092.1| uncharacterized protein LOC100499670 [Glycine max] gi|255625679|gb|ACU13184.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|351721724|ref|NP_001237219.1| uncharacterized protein LOC100306336 [Glycine max] gi|255628233|gb|ACU14461.1| 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 ?
Query184
TAIR|locus:2155826221 YKT61 "AT5G58060" [Arabidopsis 0.630 0.524 0.887 3.2e-79
TAIR|locus:2161288199 ATYKT62 "AT5G58180" [Arabidops 0.983 0.909 0.735 5.5e-70
POMBASE|SPBC13G1.11197 ykt6 "SNARE Ykt6 (predicted)" 0.967 0.903 0.478 8.7e-40
SGD|S000001679200 YKT6 "Vesicle membrane protein 0.918 0.845 0.465 6.3e-37
CGD|CAL0006106200 YKT6 [Candida albicans (taxid: 0.983 0.905 0.440 8e-37
UNIPROTKB|Q5AI79200 YKT6 "Putative uncharacterized 0.983 0.905 0.440 8e-37
UNIPROTKB|Q3T000198 YKT6 "Synaptobrevin homolog YK 0.978 0.909 0.454 4.6e-34
UNIPROTKB|G4N5J2197 MGG_06125 "SNARE Ykt6" [Magnap 0.847 0.791 0.481 1.5e-33
MGI|MGI:1927550198 Ykt6 "YKT6 homolog (S. Cerevis 0.972 0.904 0.451 4.1e-33
UNIPROTKB|O15498198 YKT6 "Synaptobrevin homolog YK 0.978 0.909 0.437 1.4e-32
TAIR|locus:2155826 YKT61 "AT5G58060" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 545 (196.9 bits), Expect = 3.2e-79, Sum P(2) = 3.2e-79
 Identities = 103/116 (88%), Positives = 111/116 (95%)

Query:    68 VHSYNRNGLCVMGFMDDHYPVRSSFSLLNQVLDEYQKNFGESWRTAQADNMQPWPYLNEA 127
             VH+YNRNGLC +GFMDDHYPVRS+FSLLNQVLDEYQK+FGESWR+A+ D+ QPWPYL EA
Sbjct:    90 VHAYNRNGLCAVGFMDDHYPVRSAFSLLNQVLDEYQKSFGESWRSAKEDSNQPWPYLTEA 149

Query:   128 LNKYQDPAEADKLLKIQRELDETKIILHKTIDSVLARGEKLDSLVEKSSDLSAASQ 183
             LNK+QDPAEADKLLKIQRELDETKIILHKTIDSVLARGEKLDSLVEKSSDLS ASQ
Sbjct:   150 LNKFQDPAEADKLLKIQRELDETKIILHKTIDSVLARGEKLDSLVEKSSDLSMASQ 205
GO:0003674 "molecular_function" evidence=ND
GO:0005634 "nucleus" evidence=ISM
GO:0006810 "transport" evidence=IEA
GO:0016192 "vesicle-mediated transport" evidence=IEA;RCA
GO:0005829 "cytosol" evidence=IDA
GO:0005794 "Golgi apparatus" evidence=IDA
GO:0006623 "protein targeting to vacuole" evidence=RCA
GO:0006944 "cellular membrane fusion" evidence=RCA
GO:0007030 "Golgi organization" evidence=RCA
GO:0007033 "vacuole organization" evidence=RCA
GO:0007067 "mitosis" evidence=RCA
GO:0048193 "Golgi vesicle transport" evidence=RCA
TAIR|locus:2161288 ATYKT62 "AT5G58180" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
POMBASE|SPBC13G1.11 ykt6 "SNARE Ykt6 (predicted)" [Schizosaccharomyces pombe (taxid:4896)] Back     alignment and assigned GO terms
SGD|S000001679 YKT6 "Vesicle membrane protein (v-SNARE) with acyltransferase activity" [Saccharomyces cerevisiae (taxid:4932)] Back     alignment and assigned GO terms
CGD|CAL0006106 YKT6 [Candida albicans (taxid:5476)] Back     alignment and assigned GO terms
UNIPROTKB|Q5AI79 YKT6 "Putative uncharacterized protein YKT6" [Candida albicans SC5314 (taxid:237561)] Back     alignment and assigned GO terms
UNIPROTKB|Q3T000 YKT6 "Synaptobrevin homolog YKT6" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|G4N5J2 MGG_06125 "SNARE Ykt6" [Magnaporthe oryzae 70-15 (taxid:242507)] Back     alignment and assigned GO terms
MGI|MGI:1927550 Ykt6 "YKT6 homolog (S. Cerevisiae)" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|O15498 YKT6 "Synaptobrevin homolog YKT6" [Homo sapiens (taxid:9606)] 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) ?
Q757A4YKT6_ASHGO2, ., 3, ., 1, ., -0.47310.98360.905yesno
Q6CSA2YKT6_KLULA2, ., 3, ., 1, ., -0.46230.98360.905yesno
Q54ES8YKT6_DICDI2, ., 3, ., 1, ., -0.40100.98910.9009yesno
P36015YKT6_YEAST2, ., 3, ., 1, ., -0.44620.98360.905yesno
Q9CQW1YKT6_MOUSE2, ., 3, ., 1, ., -0.45160.97280.9040yesno
Q7ZUN8YKT6_DANRE2, ., 3, ., 1, ., -0.42160.97820.9090yesno
Q3T000YKT6_BOVIN2, ., 3, ., 1, ., -0.45400.97820.9090yesno
O60073YKT6_SCHPO2, ., 3, ., 1, ., -0.47310.96730.9035yesno
Q6BSL0YKT6_DEBHA2, ., 3, ., 1, ., -0.44210.96190.885yesno
O15498YKT6_HUMAN2, ., 3, ., 1, ., -0.45500.89130.8282yesno
Q9ZRD6YKT61_ARATHNo assigned EC number0.85790.99450.9195yesno
Q5EGY4YKT6_RAT2, ., 3, ., 1, ., -0.43540.97280.9040yesno
Q6C537YKT6_YARLI2, ., 3, ., 1, ., -0.46230.98360.905yesno
Q9LVM9YKT62_ARATHNo assigned EC number0.73510.98360.9095nono
Q6P816YKT6_XENTR2, ., 3, ., 1, ., -0.43010.97280.9040yesno

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:
eugene3.00061259
hypothetical protein (200 aa)
(Populus trichocarpa)
Predicted Functional Partners:
estExt_fgenesh4_pg.C_LG_XVII0427
SubName- Full=Putative uncharacterized protein; (221 aa)
    ••• 0.829
estExt_fgenesh4_pm.C_LG_X0632
SubName- Full=Putative uncharacterized protein; (223 aa)
    ••• 0.820
eugene3.00041088
annotation not avaliable (50 aa)
     •  0.800

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 ?
Query184
COG5143190 COG5143, SNC1, Synaptobrevin/VAMP-like protein [In 1e-29
pfam1377482 pfam13774, Longin, Regulated-SNARE-like domain 2e-18
pfam0095789 pfam00957, Synaptobrevin, Synaptobrevin 4e-14
>gnl|CDD|227472 COG5143, SNC1, Synaptobrevin/VAMP-like protein [Intracellular trafficking and secretion] Back     alignment and domain information 
 Score =  107 bits (268), Expect = 1e-29
 Identities = 56/187 (29%), Positives = 91/187 (48%), Gaps = 17/187 (9%)

Query: 1   MKITALLVLKCNPDGSDPVVLATAMDVSHFGYFQRSSVKEFILFVARTVGKRTPPGQRQS 60
           +   +L  +K  P       L+ A  +S F +F RS VKE + F+++T   R       S
Sbjct: 1   IASISLFRVKGEPLR----TLSDAESLSSFSFFHRSKVKEVLRFLSKTSASR------AS 50

Query: 61  VQHEEYKVHSYNRN-GLCVMGFMDDHYPVRSSFSLLNQVLDEYQKNFGESWRTAQADNMQ 119
           ++  +Y  H    + G+  +   D  YP + ++  LN +  E+ K+          D+  
Sbjct: 51  IESGDYFFHYLKMSSGIVYVPISDKEYPNKLAYGYLNSIATEFLKSSA---LEQLIDDTV 107

Query: 120 PWPY---LNEALNKYQDPAEADKLLKIQRELDETKIILHKTIDSVLARGEKLDSLVEKSS 176
                         Y+DP+  DKL ++Q+EL+ETK +L+K I+ VL R EKLD LV+ SS
Sbjct: 108 GIMRVNIDKVIEKGYRDPSIQDKLDQLQQELEETKRVLNKNIEKVLYRDEKLDLLVDLSS 167

Query: 177 DLSAASQ 183
            L  +S+
Sbjct: 168 ILLLSSK 174

Length = 190
>gnl|CDD|222370 pfam13774, Longin, Regulated-SNARE-like domain Back     alignment and domain information
>gnl|CDD|201526 pfam00957, Synaptobrevin, Synaptobrevin Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 184
KOG0861198 consensus SNARE protein YKT6, synaptobrevin/VAMP s 100.0
KOG0859217 consensus Synaptobrevin/VAMP-like protein [Intrace 100.0
KOG0862216 consensus Synaptobrevin/VAMP-like protein SEC22 [I 100.0
COG5143190 SNC1 Synaptobrevin/VAMP-like protein [Intracellula 99.97
PF1377483 Longin: Regulated-SNARE-like domain; PDB: 1IOU_A 3 99.78
KOG0860116 consensus Synaptobrevin/VAMP-like protein [Intrace 99.52
PF0095789 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 99.42
PF04099142 Sybindin: Sybindin-like family ; InterPro: IPR0072 95.06
PF04086 279 SRP-alpha_N: Signal recognition particle, alpha su 94.35
PF09426141 Nyv1_N: Vacuolar R-SNARE Nyv1 N terminal; InterPro 93.95
KOG3368140 consensus Transport protein particle (TRAPP) compl 91.95
COG5143190 SNC1 Synaptobrevin/VAMP-like protein [Intracellula 91.31
PF01217141 Clat_adaptor_s: Clathrin adaptor complex small cha 90.48
PF08923119 MAPKK1_Int: Mitogen-activated protein kinase kinas 89.96
KOG0938 446 consensus Adaptor complexes medium subunit family 88.21
COG5122134 TRS23 Transport protein particle (TRAPP) complex s 86.79
KOG3369199 consensus Transport protein particle (TRAPP) compl 80.06
>KOG0861 consensus SNARE protein YKT6, synaptobrevin/VAMP syperfamily [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information 
Probab=100.00  E-value=9.5e-51  Score=296.97  Aligned_cols=181  Identities=59%  Similarity=0.890  Sum_probs=170.3

Q ss_pred             CeEEEEEEEeeCCCCCCcceeeeeeecCCCchhhHhhHHHHHHHHHHHHhccCCCCCceeEeeccEEEEEEee-CCEEEE
Q 029997            1 MKITALLVLKCNPDGSDPVVLATAMDVSHFGYFQRSSVKEFILFVARTVGKRTPPGQRQSVQHEEYKVHSYNR-NGLCVM   79 (184)
Q Consensus         1 M~i~~~~v~r~~~~~~d~~~L~~~~d~~~~~~~~r~~~ke~~~~i~~~il~~i~~~~k~~~~~~~~~~h~l~~-~~~~~~   79 (184)
                      ||||+++|+|+++  +++.+|+.+.|+++||||+|++++|+|.|+++++++|.+|++|+++++++|.+|++++ ||++++
T Consensus         1 Mki~sl~V~~~~~--~~~~ll~~a~dls~FsfFqRssV~Efm~F~sktvaeRt~~g~rqsvk~~~Y~~h~yvrndgL~~V   78 (198)
T KOG0861|consen    1 MKIYSLSVLHKGT--SDVKLLKTASDLSSFSFFQRSSVQEFMTFISKTVAERTGPGQRQSVKHEEYLVHVYVRNDGLCGV   78 (198)
T ss_pred             CceEEEEEEeeCC--cchhhhhhhcccccccceeeccHHHHHHHHHHHHHHhcCcccccccccceeEEEEEEecCCeeEE
Confidence            9999999999954  7999999999999999999999999999999999999999999999999999999999 599999


Q ss_pred             EEecCCCChHHHHHHHHHHHHHHHhhcccc-hhhhhcCCCCCchHHHHHHhhcCCChhhHHHHHHHHHHHHHHHHHHHhH
Q 029997           80 GFMDDHYPVRSSFSLLNQVLDEYQKNFGES-WRTAQADNMQPWPYLNEALNKYQDPAEADKLLKIQRELDETKIILHKTI  158 (184)
Q Consensus        80 ~vtd~~~~~~~af~fL~ei~~~f~~~~~~~-~~~~~~~~~~~~~~l~~~m~~y~~~~~~d~l~~i~~~l~evk~im~~Ni  158 (184)
                      +++|.+||.|+||.+|.+|.++|....+.. |+ +.......++.|+.++.+|+||..+|+|.++|+||+|+|.||+++|
T Consensus        79 ~~~D~eYP~rvA~tLL~kvld~~~~k~~~~~W~-~~~~~~~~~~~L~~~l~kyqdP~ead~l~kvQ~EldETKiiLhkTi  157 (198)
T KOG0861|consen   79 LIADDEYPVRVAFTLLNKVLDEFTTKVPATQWP-VGETADLSYPYLDTLLSKYQDPAEADPLLKVQNELDETKIILHKTI  157 (198)
T ss_pred             EEecCcCchhHHHHHHHHHHHHHhhcCcccccC-cCCCcCCCchhHHHHHHHhcChhhhChHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999997765554 87 3333446789999999999999999999999999999999999999


Q ss_pred             HHHHhchhchHHHHHhhHHhhhhhcC
Q 029997          159 DSVLARGEKLDSLVEKSSDLSAASQT  184 (184)
Q Consensus       159 ~~iL~Rge~Le~L~~ks~~L~~~sk~  184 (184)
                      +.+|+||||||+||+||++|+.+|||
T Consensus       158 esVL~RgEKLDdLV~KSe~Ls~qSKm  183 (198)
T KOG0861|consen  158 ESVLERGEKLDDLVSKSENLSLQSKM  183 (198)
T ss_pred             HHHHHccchHHHHHHHHHhhhHHHHH
Confidence            99999999999999999999999986

>KOG0859 consensus Synaptobrevin/VAMP-like protein [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
>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
>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
>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
>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
>KOG3368 consensus Transport protein particle (TRAPP) complex subunit [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
>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
>PF08923 MAPKK1_Int: Mitogen-activated protein kinase kinase 1 interacting; InterPro: IPR015019 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases Back     alignment and domain information
>KOG0938 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>COG5122 TRS23 Transport protein particle (TRAPP) complex subunit [Intracellular trafficking and secretion] Back     alignment and domain information
>KOG3369 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query184
3kyq_A199 Lipid-Induced Conformational Switch Controls Fusion 1e-27
3bw6_A144 Crystal Structure Of The Longin Domain Of Yeast Ykt 1e-21
1iou_A140 Solution Structure Of Ykt6p (1-140) Length = 140 2e-21
4b93_A189 Complex Of Vamp7 Cytoplasmic Domain With 2nd Ankyri 4e-10
1gl2_A65 Crystal Structure Of An Endosomal Snare Core Comple 5e-04
>pdb|3KYQ|A Chain A, Lipid-Induced Conformational Switch Controls Fusion Activity Of Longin Domain Snare Ykt6 Length = 199 Back     alignment and structure 
Iteration: 1

 Score =  119 bits (297), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 81/186 (43%), Positives = 112/186 (60%), Gaps = 7/186 (3%)
Query: 1   MKITALLVL-KCNPDGSDPVVLATAMDVSHFGYFQRSSVKEFILFVARTVGKRTPPGQRQ 59
           MK+ +L V  K  P     V+L  A DVS F +FQRSSV+EF+ F ++ + +R+  G R 
Sbjct: 2   MKLYSLSVFYKGEPKA---VLLKAAYDVSSFSFFQRSSVQEFMTFTSQLIVERSAKGSRA 58
Query: 60  SVQHEEYKVHSYNR-NGLCVMGFMDDHYPVRSSFSLLNQVLDEYQKNFGE-SWRTAQADN 117
           SV+ +EY  H Y R + L  +   D  YP R +F+LL +VLDE+ K      W       
Sbjct: 59  SVKEQEYLCHVYVRSDSLAGVVIADSEYPSRVAFTLLEKVLDEFSKQVDRIDWPVGSPAT 118
Query: 118 MQPWPYLNEALNKYQDPAEADKLLKIQRELDETKIILHKTIDSVLARGEKLDSLVEKSSD 177
           +  +  L+  L++YQ+P EAD + K+Q ELDETKIILH T++S+L RGEKLD LV KS  
Sbjct: 119 IH-YTALDGHLSRYQNPREADPMSKVQAELDETKIILHNTMESLLERGEKLDDLVSKSEV 177
Query: 178 LSAASQ 183
           L   S+
Sbjct: 178 LGTQSK 183
>pdb|3BW6|A Chain A, Crystal Structure Of The Longin Domain Of Yeast Ykt6 Length = 144 Back     alignment and structure
>pdb|1IOU|A Chain A, Solution Structure Of Ykt6p (1-140) Length = 140 Back     alignment and structure
>pdb|4B93|A Chain A, Complex Of Vamp7 Cytoplasmic Domain With 2nd Ankyrin Repeat Domain Of Varp Length = 189 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 ?
Query184
3bw6_A144 Synaptobrevin homolog YKT6; YKT6P, farnesylation, 3e-53
3kyq_A199 YKT6, synaptobrevin homolog YKT6; V-snare homolog, 4e-51
2nut_C196 Vesicle-trafficking protein SEC22B; human copii SE 8e-31
1n7s_A63 Vesicle-associated membrane protein 2; neuronal sn 1e-15
3b5n_A61 Synaptobrevin homolog 1; snare complex, syntaxin, 1e-15
1gl2_A65 Endobrevin; membrane protein, membrane fusion prot 2e-15
1l4a_A80 Synaptobrevin; snare, snare complex, membrane fusi 1e-13
2nps_A74 VAMP-4, vesicle-associated membrane protein 4; ves 4e-13
1sfc_A96 VAMP 2, protein (synaptobrevin 2); membrane fusion 1e-12
2kog_A119 Vesicle-associated membrane protein 2; synaptobrev 3e-12
3hd7_A91 Vesicle-associated membrane protein 2; membrane pr 5e-12
>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
 Score =  165 bits (419), Expect = 3e-53
 Identities = 53/141 (37%), Positives = 81/141 (57%), Gaps = 5/141 (3%)

Query: 1   MKITALLVLKCNPDGSDPVVLATAMDVSHFGYFQRSSVKEFILFVARTVGKRTPPGQRQS 60
           M+I  + V +   +    + L+   D+S FG+F+RSSV +F+ F A TV  RT  GQRQS
Sbjct: 5   MRIYYIGVFRSGGE--KALELSEVKDLSQFGFFERSSVGQFMTFFAETVASRTGAGQRQS 62

Query: 61  VQHEEYKVHSYNR-NGLCVMGFMDDHYPVRSSFSLLNQVLDEYQKNF-GESWRTA-QADN 117
           ++   Y  H Y R  G+C +   D  YPVR +++LLN++LDEY      E W    + ++
Sbjct: 63  IEEGNYIGHVYARSEGICGVLITDKEYPVRPAYTLLNKILDEYLVAHPKEEWADVTETND 122

Query: 118 MQPWPYLNEALNKYQDPAEAD 138
                 L+  ++KYQDP++AD
Sbjct: 123 ALKMKQLDTYISKYQDPSQAD 143
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query184
3kyq_A199 YKT6, synaptobrevin homolog YKT6; V-snare homolog, 100.0
2nut_C196 Vesicle-trafficking protein SEC22B; human copii SE 100.0
4b93_A189 Vesicle-associated membrane protein 7; endocytosis 100.0
3bw6_A144 Synaptobrevin homolog YKT6; YKT6P, farnesylation, 100.0
4afi_A173 AP-3 complex subunit delta-1, vesicle-associated p 99.95
2vx8_A169 Nucleoporin-like protein RIP, vesicle-associated m 99.91
1gl2_A65 Endobrevin; membrane protein, membrane fusion prot 99.7
3b5n_A61 Synaptobrevin homolog 1; snare complex, syntaxin, 99.66
1n7s_A63 Vesicle-associated membrane protein 2; neuronal sn 99.66
2nps_A74 VAMP-4, vesicle-associated membrane protein 4; ves 99.66
1l4a_A80 Synaptobrevin; snare, snare complex, membrane fusi 99.65
1sfc_A96 VAMP 2, protein (synaptobrevin 2); membrane fusion 99.6
3hd7_A91 Vesicle-associated membrane protein 2; membrane pr 99.6
1urq_A63 M-tomosyn isoform; transport protein, tomosyn-snar 99.49
2kog_A119 Vesicle-associated membrane protein 2; synaptobrev 99.46
3zym_A310 Phosphatidylinositol-binding clathrin assembly PR 98.51
3fie_C38 Fragment of vesicle-associated membrane protein 2; 98.47
2j3t_C145 Trafficking protein particle complex subunit 1, tr 96.36
2fz0_A149 R-snare NYV1P, V-snare component of the vacuolar s 94.91
3cue_A219 Transport protein particle 23 kDa subunit; membran 94.76
2fh5_A185 Signal recognition particle receptor alpha subunit 94.64
3cue_C159 Transport protein particle 18 kDa subunit; membran 92.97
2j3w_A142 Sedlin, trafficking protein particle complex prote 92.91
3tjz_C153 Coatomer subunit zeta-1; protein trafficking, golg 91.78
1w63_Q158 Adapter-related protein complex 1 sigma 1A subunit 91.19
2vgl_S142 AP-2 complex subunit sigma-1; cytoplasmic vesicle, 90.88
2j3t_D219 Trafficking protein particle complex subunit 4; tr 89.0
2vgl_M 435 AP-2 complex subunit MU-1; cytoplasmic vesicle, al 84.51
1w63_M 423 Adaptor-related protein complex 1, MU 1 subunit; e 84.24
>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
Probab=100.00  E-value=9.8e-53  Score=323.25  Aligned_cols=180  Identities=43%  Similarity=0.678  Sum_probs=168.2

Q ss_pred             CeEEEEEEEeeCCCCCCcceeeeeeecCCCchhhHhhHHHHHHHHHHHHhccCCCCCceeEeeccEEEE-EEeeCCEEEE
Q 029997            1 MKITALLVLKCNPDGSDPVVLATAMDVSHFGYFQRSSVKEFILFVARTVGKRTPPGQRQSVQHEEYKVH-SYNRNGLCVM   79 (184)
Q Consensus         1 M~i~~~~v~r~~~~~~d~~~L~~~~d~~~~~~~~r~~~ke~~~~i~~~il~~i~~~~k~~~~~~~~~~h-~l~~~~~~~~   79 (184)
                      |||||++|+|+++  +++++|++++|+|+||+|+|++++|.+.|+++.++++++|++|+++++|+|.|| |+..+|++|+
T Consensus         2 mk~~~~~v~~~~~--~~~~~l~~~~dlssf~~f~r~sv~ef~~f~~r~il~r~~~~~r~s~~~~~y~fH~y~~~~gl~yl   79 (199)
T 3kyq_A            2 MKLYSLSVFYKGE--PKAVLLKAAYDVSSFSFFQRSSVQEFMTFTSQLIVERSAKGSRASVKEQEYLCHVYVRSDSLAGV   79 (199)
T ss_dssp             CCEEEEEEEEECS--SCEEEEEEEECCTTSCTTTHHHHHHHHHHHHHHHHHTSCTTEEEEEECSSEEEEEEECTTSEEEE
T ss_pred             ceEEEEEEEEcCC--CCceEEeeecccccccceehHhHHHHHHHHHHHHHhcCCCCCeEEEEeCCEEEEEEEecCCEEEE
Confidence            9999999999864  689999999999999999999999999999999999999999999999999999 7777999999


Q ss_pred             EEecCCCChHHHHHHHHHHHHHHHhhcccc-hhhhhcCCCCCchHHHHHHhhcCCChhhHHHHHHHHHHHHHHHHHHHhH
Q 029997           80 GFMDDHYPVRSSFSLLNQVLDEYQKNFGES-WRTAQADNMQPWPYLNEALNKYQDPAEADKLLKIQRELDETKIILHKTI  158 (184)
Q Consensus        80 ~vtd~~~~~~~af~fL~ei~~~f~~~~~~~-~~~~~~~~~~~~~~l~~~m~~y~~~~~~d~l~~i~~~l~evk~im~~Ni  158 (184)
                      |+||++||+|+||.||++|+++|...|+.. |... +..++.++.|+++|++|+||+..|++.+++.+|+||++||++||
T Consensus        80 ~itd~~yp~r~AF~fL~ei~~eF~~~~~~~~~~~~-~~~~~~f~~l~~~m~~Y~dp~~~d~l~~~q~el~evk~iM~~NI  158 (199)
T 3kyq_A           80 VIADSEYPSRVAFTLLEKVLDEFSKQVDRIDWPVG-SPATIHYTALDGHLSRYQNPREADPMSKVQAELDETKIILHNTM  158 (199)
T ss_dssp             EEEETTSCHHHHHHHHHHHHHHHHHHSCGGGSTTC-CTTTCCCCTHHHHHHHTTSGGGCCCCHHHHHHHHTCCCEEESSG
T ss_pred             EEECCCCCHHHHHHHHHHHHHHHHHhccchhhhcc-cccccccHHHHHHHHHhCCchhhhhHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999854 5432 23555568999999999999999999999999999999999999


Q ss_pred             HHHHhchhchHHHHHhhHHhhhhhc
Q 029997          159 DSVLARGEKLDSLVEKSSDLSAASQ  183 (184)
Q Consensus       159 ~~iL~Rge~Le~L~~ks~~L~~~sk  183 (184)
                      +++|+|||+||+|++||++|+++|+
T Consensus       159 ~~vl~RgekLd~L~~ks~~L~~~s~  183 (199)
T 3kyq_A          159 ESLLERGEKLDDLVSKSEVLGTQSK  183 (199)
T ss_dssp             GGTSCTTCCHHHHHHHCSSSCHHHH
T ss_pred             HHHHHccchHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999986
>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
>4b93_A Vesicle-associated membrane protein 7; endocytosis, exocytosis, snare; 2.00A {Mus musculus} 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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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

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 184
d1ioua_140 d.110.4.1 (A:) Synaptobrevin homolog 1 ykt6 {Baker 8e-58
d1ifqa_127 d.110.4.1 (A:) Sec22b {Mouse (Mus musculus) [TaxId 2e-15
>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 =  175 bits (446), Expect = 8e-58
 Identities = 50/141 (35%), Positives = 80/141 (56%), Gaps = 5/141 (3%)

Query: 1   MKITALLVLKCNPDGSDPVVLATAMDVSHFGYFQRSSVKEFILFVARTVGKRTPPGQRQS 60
           M+I  + V +   +    + L+   D+S FG+F+RSSV +F+ F A TV  RT  G+RQS
Sbjct: 1   MRIYYIGVFRSGGE--KALELSEVKDLSQFGFFERSSVGQFMTFFAETVASRTGAGERQS 58

Query: 61  VQHEEYKVHSYNR-NGLCVMGFMDDHYPVRSSFSLLNQVLDEYQKNFGESWRT--AQADN 117
           ++   Y  H Y R  G+C +   D  YPVR +++LLN++LDEY     +       + ++
Sbjct: 59  IEEGNYIGHVYARSEGICGVLITDKQYPVRPAYTLLNKILDEYLVAHPKEEWADVTETND 118

Query: 118 MQPWPYLNEALNKYQDPAEAD 138
                 L+  ++KYQDP++AD
Sbjct: 119 ALKMKQLDTYISKYQDPSQAD 139
>d1ifqa_ d.110.4.1 (A:) Sec22b {Mouse (Mus musculus) [TaxId: 10090]} Length = 127 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 ?
Query184
d1ioua_140 Synaptobrevin homolog 1 ykt6 {Baker's yeast (Sacch 100.0
d1ifqa_127 Sec22b {Mouse (Mus musculus) [TaxId: 10090]} 99.94
d2vgls_142 Sigma2 adaptin (clathrin coat assembly protein AP1 95.96
d2vglm2141 Mu2 adaptin (clathrin coat assembly protein AP50) 95.77
d2fh5a1129 Signal recognition particle receptor alpha subunit 93.38
d3cpta1116 MEK binding partner 1, MP1 {Human (Homo sapiens) [ 89.87
d2j3wa1140 Sedlin (SEDL) {Mouse (Mus musculus) [TaxId: 10090] 82.77
>d1ioua_ d.110.4.1 (A:) Synaptobrevin homolog 1 ykt6 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} 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]

Probab=100.00  E-value=1.6e-37  Score=224.82  Aligned_cols=136  Identities=38%  Similarity=0.695  Sum_probs=125.7

Q ss_pred             CeEEEEEEEeeCCCCCCcceeeeeeecCCCchhhHhhHHHHHHHHHHHHhccCCCCCceeEeeccEEEEEEee-CCEEEE
Q 029997            1 MKITALLVLKCNPDGSDPVVLATAMDVSHFGYFQRSSVKEFILFVARTVGKRTPPGQRQSVQHEEYKVHSYNR-NGLCVM   79 (184)
Q Consensus         1 M~i~~~~v~r~~~~~~d~~~L~~~~d~~~~~~~~r~~~ke~~~~i~~~il~~i~~~~k~~~~~~~~~~h~l~~-~~~~~~   79 (184)
                      |||++++|+|+++  +++++|++++|+|++++|||++++|.|.|++|++++|+++|+|+++++++|.||+++. +|++|+
T Consensus         1 Mkl~~~~v~~~~~--~~~~~L~~a~Dlssf~ffqR~svkE~~~f~sr~i~~Rt~~g~r~sv~~~~y~~h~yv~~~gl~~l   78 (140)
T d1ioua_           1 MRIYYIGVFRSGG--EKALELSEVKDLSQFGFFERSSVGQFMTFFAETVASRTGAGERQSIEEGNYIGHVYARSEGICGV   78 (140)
T ss_dssp             CCCCEEEEEEEET--TEEEEEEEEECCSSCCTTHHHHHHHHHHHHHHHHHHHCCSSSEEEEEETTEEEEEECCSSSCEEE
T ss_pred             CeEEEEEEEEcCC--CCcEEEeeeccccccceeehHhHHHHHHHHHHHHhhcCCCCceEEEEcCCeEEEEEEeeCCEEEE
Confidence            9999999999754  5899999999999999999999999999999999999999999999999999996655 899999


Q ss_pred             EEecCCCChHHHHHHHHHHHHHHHhhcccc-hhhhh-cCCCCCchHHHHHHhhcCCChhhH
Q 029997           80 GFMDDHYPVRSSFSLLNQVLDEYQKNFGES-WRTAQ-ADNMQPWPYLNEALNKYQDPAEAD  138 (184)
Q Consensus        80 ~vtd~~~~~~~af~fL~ei~~~f~~~~~~~-~~~~~-~~~~~~~~~l~~~m~~y~~~~~~d  138 (184)
                      |+||.+||+|+||.||++|.++|...|+.. |.++. +.++.+++.|+++|++|+||+++|
T Consensus        79 ~i~d~~Yp~r~AF~~L~~i~~eF~~~~~~~~~~~i~~~~~~~~~~~l~~~l~kYQdP~~aD  139 (140)
T d1ioua_          79 LITDKQYPVRPAYTLLNKILDEYLVAHPKEEWADVTETNDALKMKQLDTYISKYQDPSQAD  139 (140)
T ss_dssp             EEBCTTSCHHHHHHHHHHHHHHHHHSSCHHHHTTCSCCCTTTSCHHHHHHHHHTTSSCGGG
T ss_pred             EEECCCcchHHHHHHHHHHHHHHHHHcChHhhhhhhccccccchHHHHHHHHHhCchhhcc
Confidence            999999999999999999999999999876 65543 457889999999999999998876
>d1ifqa_ d.110.4.1 (A:) Sec22b {Mouse (Mus musculus) [TaxId: 10090]} 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
>d3cpta1 d.110.7.1 (A:3-118) MEK binding partner 1, MP1 {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