Citrus Sinensis ID: 029478

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190--
Protein Sequence
MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFSIAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKVRVFFLKNGIGIIYMYIWYCSF
Secondary Structure (PSIPRED)
cccccEEEEEEEcccEEEEEEccccccHHHHHHHHHHccccccccEEEEEccEEEEEEEEccEEEEEEEccccccccHHHHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
ccccEEEEEEEEcccEEEEEEccccccHHHHHHHHHHHcccccccEEEEcccEEEEEEEcccEEEEEEEccccccccHHHHHHHHHHHHHHHHccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccEEEEEEEEEEccc
Coil and Loop (DISEMBL)
MNQKGLIYSFVSKGTVVLAEhtsysgnfSTIAIQCLQklpassskytyscdghtfnflLDSGFVFLVVAdesvgrsvpfVFLERVKDDFKQRygasiqneeshpladddedddLFEDRFSIAYNldrefgprlKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKVRVFFLKNGIGIIYMYIWYCSF
Flexible Loop (DISEMBL)
MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGasiqneeshpladdDEDDDLFEDRFSIAYnldrefgpRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKVRVFFLKNGIGIIYMYIWYCSF
Low Complexity Region (SEG)
MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLAdddedddlfedRFSIAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKVRVFFLKNGIGIIYMYIWYCSF
Disordered region (IsUnstruct)
****GLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFVFLVVADESVGRSVPFVFLERVKDDFKQRY*********************FEDRFSIAYNLDREFGPRLKEHMQYC************LKAQITEVKGIMMDNIEKVRVFFLKNGIGIIYMYIWYC**
Disordered Region (DISOPRED)
**QKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFSIAYNLDREFGPRLK********************AQITEVKGIMMDNIEKVRVFFLKNGIGIIYMYIWYCSF
Disordered Region (DISEMBL)
MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFSIAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKVRVFFLKNGIGIIYMYIWYCSF
Disordered Region (DISPRO)
**QKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGAS*Q*********DDEDDDLFEDRFSIAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKVRVFFLKNGIGIIYMYIWYCSF
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFSIAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKVRVFFLKNGIGIIYMYIWYCSF
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	192	2.2.26 [Sep-21-2011]
Q9M376	240	Vesicle-associated membra	yes	no	0.890	0.712	0.888	3e-83
Q9MAS5	220	Putative vesicle-associat	no	no	0.791	0.690	0.561	6e-54
O48850	285	Vesicle-associated membra	no	no	0.791	0.533	0.555	8e-54
P47192	221	Vesicle-associated membra	no	no	0.791	0.687	0.543	2e-52
Q9ZTW3	219	Vesicle-associated membra	no	no	0.791	0.694	0.543	6e-52
Q8VY69	217	Vesicle-associated membra	no	no	0.791	0.700	0.508	6e-46
O23429	222	Vesicle-associated membra	no	no	0.791	0.684	0.494	4e-44
O49377	219	Vesicle-associated membra	no	no	0.760	0.666	0.315	6e-21
Q9LFP1	221	Vesicle-associated membra	no	no	0.760	0.660	0.313	2e-20
Q9SIQ9	219	Vesicle-associated membra	no	no	0.755	0.662	0.317	3e-19

>sp|Q9M376|VA727_ARATH Vesicle-associated membrane protein 727 OS=Arabidopsis thaliana GN=VAMP727 PE=2 SV=1

 Score =  307 bits (786), Expect = 3e-83,   Method: Compositional matrix adjust.
 Identities = 152/171 (88%), Positives = 164/171 (95%)

Query: 1   MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLD 60
           M+QKGLIYSFV+KGTVVLAEHT YSGNFSTIA+QCLQKLP +SSKYTYSCDGHTFNFL+D
Sbjct: 1   MSQKGLIYSFVAKGTVVLAEHTPYSGNFSTIAVQCLQKLPTNSSKYTYSCDGHTFNFLVD 60

Query: 61  SGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFS 120
           +GFVFLVVADES GRSVPFVFLERVK+DFK+RY ASI+N+E HPLAD+DEDDDLF DRFS
Sbjct: 61  NGFVFLVVADESTGRSVPFVFLERVKEDFKKRYEASIKNDERHPLADEDEDDDLFGDRFS 120

Query: 121 IAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
           +AYNLDREFGP LKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV
Sbjct: 121 VAYNLDREFGPILKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171

Involved in the targeting and/or fusion of transport vesicles to their target membrane.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9MAS5|VA726_ARATH Putative vesicle-associated membrane protein 726 OS=Arabidopsis thaliana GN=VAMP726 PE=3 SV=2

 Score =  209 bits (533), Expect = 6e-54,   Method: Compositional matrix adjust.
 Identities = 96/171 (56%), Positives = 127/171 (74%), Gaps = 19/171 (11%)

Query: 1   MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLD 60
           M Q+ LIYSFV++GTV+LAE+T + GNF+++A QCLQKLP+S++K+TY+CDGHTFN+L D
Sbjct: 1   MGQQSLIYSFVARGTVILAEYTEFKGNFTSVAAQCLQKLPSSNNKFTYNCDGHTFNYLAD 60

Query: 61  SGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFS 120
           +GF + VV  ES GR +P  FLERVK+DF +RYG                     +   +
Sbjct: 61  NGFTYCVVVIESAGRQIPMAFLERVKEDFNKRYGGG-------------------KASTA 101

Query: 121 IAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
            A +L++EFG +LKEHMQYC  HPEE+SKLSK+KAQ+TEVKG+MM+NIEKV
Sbjct: 102 KANSLNKEFGSKLKEHMQYCADHPEEISKLSKVKAQVTEVKGVMMENIEKV 152

Involved in the targeting and/or fusion of transport vesicles to their target membrane.

Arabidopsis thaliana (taxid: 3702)

>sp|O48850|VA725_ARATH Vesicle-associated membrane protein 725 OS=Arabidopsis thaliana GN=VAMP725 PE=2 SV=2

 Score =  209 bits (532), Expect = 8e-54,   Method: Compositional matrix adjust.
 Identities = 95/171 (55%), Positives = 129/171 (75%), Gaps = 19/171 (11%)

Query: 1   MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLD 60
           M Q+ LIYSFV++GTV+L E+T + GNF+ +A QCLQKLP+S++K+TY+CDGHTFN+L++
Sbjct: 66  MGQQNLIYSFVARGTVILVEYTEFKGNFTAVAAQCLQKLPSSNNKFTYNCDGHTFNYLVE 125

Query: 61  SGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFS 120
           +GF + VVA ESVGR +P  FLERVK+DF +RYG                     +   +
Sbjct: 126 NGFTYCVVAVESVGRQIPMAFLERVKEDFNKRYGGG-------------------KATTA 166

Query: 121 IAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
            A +L+REFG +LKEHMQYC+ HP+E+SKL+K+KAQ+TEVKG+MM+NIEKV
Sbjct: 167 QANSLNREFGSKLKEHMQYCVDHPDEISKLAKVKAQVTEVKGVMMENIEKV 217

Involved in the targeting and/or fusion of transport vesicles to their target membrane.

Arabidopsis thaliana (taxid: 3702)

>sp|P47192|VA722_ARATH Vesicle-associated membrane protein 722 OS=Arabidopsis thaliana GN=VAMP722 PE=2 SV=2

 Score =  204 bits (520), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 93/171 (54%), Positives = 128/171 (74%), Gaps = 19/171 (11%)

Query: 1   MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLD 60
           M Q+ LIYSFV++GTV+L E T + GNF++IA QCLQKLP+S++K+TY+CDGHTFN+L++
Sbjct: 1   MAQQSLIYSFVARGTVILVEFTDFKGNFTSIAAQCLQKLPSSNNKFTYNCDGHTFNYLVE 60

Query: 61  SGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFS 120
           +GF + VVA +S GR +P  FLERVK+DF +RYG                     +   +
Sbjct: 61  NGFTYCVVAVDSAGRQIPMAFLERVKEDFNKRYGGG-------------------KAATA 101

Query: 121 IAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
            A +L++EFG +LKEHMQYCM HP+E+SKL+K+KAQ++EVKG+MM+NIEKV
Sbjct: 102 QANSLNKEFGSKLKEHMQYCMDHPDEISKLAKVKAQVSEVKGVMMENIEKV 152

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

 Score =  203 bits (516), Expect = 6e-52,   Method: Compositional matrix adjust.
 Identities = 93/171 (54%), Positives = 127/171 (74%), Gaps = 19/171 (11%)

Query: 1   MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLD 60
           M Q+ LIYSFV++GTV+L E T + GNF++IA QCLQKLP+S++K+TY+CDGHTFN+L++
Sbjct: 1   MAQQSLIYSFVARGTVILVEFTDFKGNFTSIAAQCLQKLPSSNNKFTYNCDGHTFNYLVE 60

Query: 61  SGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFS 120
            GF + VVA +S GR +P  FLERVK+DF +RYG                     +   +
Sbjct: 61  DGFTYCVVAVDSAGRQIPMSFLERVKEDFNKRYGGG-------------------KAATA 101

Query: 121 IAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
            A +L++EFG +LKEHMQYCM HP+E+SKL+K+KAQ++EVKG+MM+NIEKV
Sbjct: 102 QANSLNKEFGSKLKEHMQYCMDHPDEISKLAKVKAQVSEVKGVMMENIEKV 152

Involved in the targeting and/or fusion of transport vesicles to their target membrane.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8VY69|VA723_ARATH Vesicle-associated membrane protein 723 OS=Arabidopsis thaliana GN=VAMP723 PE=2 SV=1

 Score =  183 bits (464), Expect = 6e-46,   Method: Compositional matrix adjust.
 Identities = 87/171 (50%), Positives = 120/171 (70%), Gaps = 19/171 (11%)

Query: 1   MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLD 60
           M Q+ L YSF+++GTV+L E T + GNF+++A Q L+ LP+S++K+TY+CDGHTFN L++
Sbjct: 1   MAQQSLFYSFIARGTVILVEFTDFKGNFTSVAAQYLENLPSSNNKFTYNCDGHTFNDLVE 60

Query: 61  SGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFS 120
           +GF + VVA +S GR +P  FLERVK+DF +RYG           A D            
Sbjct: 61  NGFTYCVVAVDSAGREIPMAFLERVKEDFYKRYGG-------EKAATDQ----------- 102

Query: 121 IAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
            A +L++EFG  LKEHMQYCM HP+E+S L+K KAQ++EVK +MM+NIEKV
Sbjct: 103 -ANSLNKEFGSNLKEHMQYCMDHPDEISNLAKAKAQVSEVKSLMMENIEKV 152

Involved in the targeting and/or fusion of transport vesicles to their target membrane.

Arabidopsis thaliana (taxid: 3702)

>sp|O23429|VA724_ARATH Vesicle-associated membrane protein 724 OS=Arabidopsis thaliana GN=VAMP724 PE=2 SV=2

 Score =  177 bits (449), Expect = 4e-44,   Method: Compositional matrix adjust.
 Identities = 85/172 (49%), Positives = 120/172 (69%), Gaps = 20/172 (11%)

Query: 1   MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASS-SKYTYSCDGHTFNFLL 59
           M Q+  IYSFV++GT++LAE+T ++GNF +IA QCLQKLP+SS SK+TY+CD HTFNFL+
Sbjct: 1   MGQESFIYSFVARGTMILAEYTEFTGNFPSIAAQCLQKLPSSSNSKFTYNCDHHTFNFLV 60

Query: 60  DSGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRF 119
           + G+ + VVA +S+ + +   FLERVK DFK+RYG                     +   
Sbjct: 61  EDGYAYCVVAKDSLSKQISIAFLERVKADFKKRYGGG-------------------KAST 101

Query: 120 SIAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
           +IA +L++EFGP +KEHM Y + H EE+ KL K+KAQ++EVK IM++NI+K 
Sbjct: 102 AIAKSLNKEFGPVMKEHMNYIVDHAEEIEKLIKVKAQVSEVKSIMLENIDKA 153

Involved in the targeting and/or fusion of transport vesicles to their target membrane.

Arabidopsis thaliana (taxid: 3702)

>sp|O49377|VA711_ARATH Vesicle-associated membrane protein 711 OS=Arabidopsis thaliana GN=VAMP711 PE=2 SV=2

 Score =  100 bits (249), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 53/168 (31%), Positives = 94/168 (55%), Gaps = 22/168 (13%)

Query: 5   GLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASS-SKYTYSCDGHTFNFLLDSGF 63
            ++Y+ V++GTVVL+E T+ S N STIA Q L+K+P  + S  +YS D + F+     G 
Sbjct: 2   AILYALVARGTVVLSEFTATSTNASTIAKQILEKVPGDNDSNVSYSQDRYVFHVKRTDGL 61

Query: 64  VFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFSIAY 123
             L +A+E+ GR +PF FLE +   F + YG ++                      ++AY
Sbjct: 62  TVLCMAEETAGRRIPFAFLEDIHQRFVRTYGRAVHT--------------------ALAY 101

Query: 124 NLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
            ++ EF   L + + Y  + P    +++++K ++ +V+G+M++NI+KV
Sbjct: 102 AMNEEFSRVLSQQIDYYSNDPNA-DRINRIKGEMNQVRGVMIENIDKV 148

Involved in the targeting and/or fusion of transport vesicles to their target membrane.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFP1|VA713_ARATH Vesicle-associated membrane protein 713 OS=Arabidopsis thaliana GN=VAMP713 PE=2 SV=1

 Score = 98.6 bits (244), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 53/169 (31%), Positives = 97/169 (57%), Gaps = 23/169 (13%)

Query: 5   GLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPA--SSSKYTYSCDGHTFNFLLDSG 62
            +I++ V++GTVVL+E ++ S N S+I+ Q L+KLP   S S  +YS D + F+     G
Sbjct: 2   AIIFALVARGTVVLSEFSATSTNASSISKQILEKLPGNDSDSHMSYSQDRYIFHVKRTDG 61

Query: 63  FVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFSIA 122
              L +ADE+ GR++PF FL+ +   F + YG +I + +                    A
Sbjct: 62  LTVLCMADETAGRNIPFAFLDDIHQRFVKTYGRAIHSAQ--------------------A 101

Query: 123 YNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
           Y+++ EF   L + M++  + P    ++S++K ++++V+ +M++NI+KV
Sbjct: 102 YSMNDEFSRVLSQQMEFYSNDPNA-DRMSRIKGEMSQVRNVMIENIDKV 149

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

 Score = 95.1 bits (235), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 53/167 (31%), Positives = 91/167 (54%), Gaps = 22/167 (13%)

Query: 6   LIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASS-SKYTYSCDGHTFNFLLDSGFV 64
           ++Y+ V++GTVVLAE ++ S N STIA Q L+K+P +  S  +YS D + F+     G  
Sbjct: 3   ILYALVARGTVVLAELSTTSTNASTIAKQILEKIPGNGDSHVSYSQDRYVFHVKRTDGLT 62

Query: 65  FLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFSIAYN 124
            L +ADE  GR +PF FLE +   F + YG +I + +                    AY 
Sbjct: 63  VLCMADEDAGRRIPFSFLEDIHQRFVRTYGRAIHSAQ--------------------AYA 102

Query: 125 LDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
           ++ EF   L + ++Y  + P     +S++K ++ +V+ +M++NI+ +
Sbjct: 103 MNDEFSRVLNQQIEYYSNDP-NADTISRIKGEMNQVRDVMIENIDNI 148

Involved in the targeting and/or fusion of transport vesicles to their target membrane.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	192
356575504	238	PREDICTED: vesicle-associated membrane p	0.890	0.718	0.894	5e-83
255549412	237	Vesicle-associated membrane protein, put	0.885	0.717	0.906	3e-82
255646155	238	unknown [Glycine max]	0.890	0.718	0.883	3e-82
297820170	240	ATVAMP727 [Arabidopsis lyrata subsp. lyr	0.890	0.712	0.894	1e-81
15232475	240	vesicle-associated membrane protein 727	0.890	0.712	0.888	2e-81
356536340	238	PREDICTED: vesicle-associated membrane p	0.890	0.718	0.883	9e-80
224097602	238	predicted protein [Populus trichocarpa]	0.880	0.710	0.864	1e-79
224110150	238	predicted protein [Populus trichocarpa]	0.880	0.710	0.882	4e-79
255648150	238	unknown [Glycine max]	0.890	0.718	0.871	1e-78
449526985	175	PREDICTED: vesicle-associated membrane p	0.906	0.994	0.856	6e-78

>gi|356575504|ref|XP_003555880.1| PREDICTED: vesicle-associated membrane protein 727-like [Glycine max]

 Score =  312 bits (799), Expect = 5e-83,   Method: Compositional matrix adjust.
 Identities = 153/171 (89%), Positives = 166/171 (97%)

Query: 1   MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLD 60
           M+Q+GLIYSFV+KGTVVLAEHT Y+GNFSTIA+QCLQKLP++SSKYTYSCDGHTFNFLLD
Sbjct: 1   MSQRGLIYSFVAKGTVVLAEHTQYTGNFSTIAVQCLQKLPSNSSKYTYSCDGHTFNFLLD 60

Query: 61  SGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFS 120
           +GFVFLVVADES GRSVPFVFLERVKDDF +RYGASI+NE +HPLADDD+DDDLFEDRFS
Sbjct: 61  TGFVFLVVADESAGRSVPFVFLERVKDDFMKRYGASIKNEGAHPLADDDDDDDLFEDRFS 120

Query: 121 IAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
           IAYNLDREFGP LKEHMQYCM+HPEEMSKLSKLKAQITEVKGIMMDNIEKV
Sbjct: 121 IAYNLDREFGPALKEHMQYCMNHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255549412|ref|XP_002515759.1| Vesicle-associated membrane protein, putative [Ricinus communis] gi|223545087|gb|EEF46598.1| Vesicle-associated membrane protein, putative [Ricinus communis]

 Score =  310 bits (793), Expect = 3e-82,   Method: Compositional matrix adjust.
 Identities = 155/171 (90%), Positives = 165/171 (96%), Gaps = 1/171 (0%)

Query: 1   MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLD 60
           M+QKGLIYSFV+KGTVVLAEHT YSGNFSTIA+QCLQKLP++SSKYTYSCDGHTFNFL+D
Sbjct: 1   MSQKGLIYSFVAKGTVVLAEHTPYSGNFSTIAVQCLQKLPSNSSKYTYSCDGHTFNFLID 60

Query: 61  SGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFS 120
           SGFVFLVVADES GRSVPFVFLERVKDDFKQRYGA I N E+HPLADDD+DDDLF DRFS
Sbjct: 61  SGFVFLVVADESTGRSVPFVFLERVKDDFKQRYGAGI-NNEAHPLADDDDDDDLFADRFS 119

Query: 121 IAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
           IAYNLDR+FGPRLKEHMQYCMSHPEE+SKLSKLKAQITEVKGIMMDNIEKV
Sbjct: 120 IAYNLDRDFGPRLKEHMQYCMSHPEEISKLSKLKAQITEVKGIMMDNIEKV 170

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255646155|gb|ACU23563.1| unknown [Glycine max]

 Score =  310 bits (793), Expect = 3e-82,   Method: Compositional matrix adjust.
 Identities = 151/171 (88%), Positives = 165/171 (96%)

Query: 1   MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLD 60
           M+Q+GLIYSFV+KGTVVLAEHT Y+GNFSTIA+QCLQKLP++SSKYTYSCDGHTFNFLLD
Sbjct: 1   MSQRGLIYSFVAKGTVVLAEHTQYTGNFSTIAVQCLQKLPSNSSKYTYSCDGHTFNFLLD 60

Query: 61  SGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFS 120
           +GFVFLVVADES GRSVPFVFLERVKDDF +RYG SI+NE +HPLADDD+DDDLFEDRFS
Sbjct: 61  TGFVFLVVADESAGRSVPFVFLERVKDDFMKRYGVSIKNEGAHPLADDDDDDDLFEDRFS 120

Query: 121 IAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
           IAYNLDREFGP LKEHMQYCM+HPEEMSKLSKLKAQITEVKG+MMDNIEKV
Sbjct: 121 IAYNLDREFGPALKEHMQYCMNHPEEMSKLSKLKAQITEVKGVMMDNIEKV 171

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297820170|ref|XP_002877968.1| ATVAMP727 [Arabidopsis lyrata subsp. lyrata] gi|297323806|gb|EFH54227.1| ATVAMP727 [Arabidopsis lyrata subsp. lyrata]

 Score =  308 bits (788), Expect = 1e-81,   Method: Compositional matrix adjust.
 Identities = 153/171 (89%), Positives = 164/171 (95%)

Query: 1   MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLD 60
           M+QKGLIYSFV+KGTVVLAEHT YSGNFSTIA+QCLQKLP +SSKYTYSCDGHTFNFL+D
Sbjct: 1   MSQKGLIYSFVAKGTVVLAEHTPYSGNFSTIAVQCLQKLPTNSSKYTYSCDGHTFNFLVD 60

Query: 61  SGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFS 120
           +GFVFLVVADES GRSVPFVFLERVK+DFK+RY ASI+N+E HPLAD+DEDDDLF DRFS
Sbjct: 61  NGFVFLVVADESTGRSVPFVFLERVKEDFKKRYEASIKNDERHPLADEDEDDDLFGDRFS 120

Query: 121 IAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
           IAYNLDREFGP LKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV
Sbjct: 121 IAYNLDREFGPILKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15232475|ref|NP_190998.1| vesicle-associated membrane protein 727 [Arabidopsis thaliana] gi|145332835|ref|NP_001078283.1| vesicle-associated membrane protein 727 [Arabidopsis thaliana] gi|27805764|sp|Q9M376.1|VA727_ARATH RecName: Full=Vesicle-associated membrane protein 727; Short=AtVAMP727 gi|6822076|emb|CAB71004.1| synaptobrevin-like protein [Arabidopsis thaliana] gi|44681344|gb|AAS47612.1| At3g54300 [Arabidopsis thaliana] gi|45773850|gb|AAS76729.1| At3g54300 [Arabidopsis thaliana] gi|110738122|dbj|BAF00993.1| synaptobrevin -like protein [Arabidopsis thaliana] gi|332645689|gb|AEE79210.1| vesicle-associated membrane protein 727 [Arabidopsis thaliana] gi|332645690|gb|AEE79211.1| vesicle-associated membrane protein 727 [Arabidopsis thaliana]

 Score =  307 bits (786), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 152/171 (88%), Positives = 164/171 (95%)

Query: 1   MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLD 60
           M+QKGLIYSFV+KGTVVLAEHT YSGNFSTIA+QCLQKLP +SSKYTYSCDGHTFNFL+D
Sbjct: 1   MSQKGLIYSFVAKGTVVLAEHTPYSGNFSTIAVQCLQKLPTNSSKYTYSCDGHTFNFLVD 60

Query: 61  SGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFS 120
           +GFVFLVVADES GRSVPFVFLERVK+DFK+RY ASI+N+E HPLAD+DEDDDLF DRFS
Sbjct: 61  NGFVFLVVADESTGRSVPFVFLERVKEDFKKRYEASIKNDERHPLADEDEDDDLFGDRFS 120

Query: 121 IAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
           +AYNLDREFGP LKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV
Sbjct: 121 VAYNLDREFGPILKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356536340|ref|XP_003536697.1| PREDICTED: vesicle-associated membrane protein 727-like [Glycine max]

 Score =  301 bits (771), Expect = 9e-80,   Method: Compositional matrix adjust.
 Identities = 151/171 (88%), Positives = 167/171 (97%)

Query: 1   MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLD 60
           M+Q+GLIYSFV+KGTVVLAEHT Y+GNFSTIA+QCLQKLP++SSKYTYSCDGHTFNFLLD
Sbjct: 1   MSQRGLIYSFVAKGTVVLAEHTQYTGNFSTIAVQCLQKLPSNSSKYTYSCDGHTFNFLLD 60

Query: 61  SGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFS 120
           +GFVFLVVADES+GRSVPFVFLERVKDDF +RYGASI+N+ +HPLADD++DDDLFEDRFS
Sbjct: 61  NGFVFLVVADESIGRSVPFVFLERVKDDFMKRYGASIKNDGAHPLADDEDDDDLFEDRFS 120

Query: 121 IAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
           IAYNLDREFGP LKEHMQYCM+HPEEMSKLSKLKAQITEVKGIMMDNIEKV
Sbjct: 121 IAYNLDREFGPALKEHMQYCMNHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224097602|ref|XP_002311006.1| predicted protein [Populus trichocarpa] gi|222850826|gb|EEE88373.1| predicted protein [Populus trichocarpa]

 Score =  301 bits (770), Expect = 1e-79,   Method: Compositional matrix adjust.
 Identities = 147/170 (86%), Positives = 164/170 (96%), Gaps = 1/170 (0%)

Query: 2   NQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDS 61
           +Q+GLIYSFV+KG VVLAEHTSYSGNFST+A+QCLQKLP++SSKYTYSCDGHTFNFL+D+
Sbjct: 3   SQRGLIYSFVAKGNVVLAEHTSYSGNFSTVAVQCLQKLPSNSSKYTYSCDGHTFNFLIDN 62

Query: 62  GFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFSI 121
           GFVFL VADES GR +PFVFLERVKDDFKQRY ASI+N E+HPLADDD+DDDLFEDRFS+
Sbjct: 63  GFVFLAVADESAGRGLPFVFLERVKDDFKQRYSASIKN-EAHPLADDDDDDDLFEDRFSV 121

Query: 122 AYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
           AYNLDREFGPRLKEHMQYC++HPEE+SKLSKLKAQITEVKGIMMDNIEKV
Sbjct: 122 AYNLDREFGPRLKEHMQYCLNHPEEISKLSKLKAQITEVKGIMMDNIEKV 171

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224110150|ref|XP_002315429.1| predicted protein [Populus trichocarpa] gi|118487155|gb|ABK95406.1| unknown [Populus trichocarpa] gi|222864469|gb|EEF01600.1| predicted protein [Populus trichocarpa]

 Score =  299 bits (765), Expect = 4e-79,   Method: Compositional matrix adjust.
 Identities = 150/170 (88%), Positives = 164/170 (96%), Gaps = 1/170 (0%)

Query: 2   NQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDS 61
           +QKGLIYSFV+KG VVLAEHTSYSGNFSTIA+QCLQKLP++SSKYTYS DGHTFNFL+D+
Sbjct: 3   SQKGLIYSFVAKGNVVLAEHTSYSGNFSTIAVQCLQKLPSNSSKYTYSSDGHTFNFLIDN 62

Query: 62  GFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFSI 121
           GFVFLVVADESVGR V FVFLERVKDDF QRYGASI+N E+HPLADDD+DDDLFEDRFSI
Sbjct: 63  GFVFLVVADESVGRGVSFVFLERVKDDFNQRYGASIKN-EAHPLADDDDDDDLFEDRFSI 121

Query: 122 AYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
           AYNLDREFGPRLKEHMQYC++HPEE+SKLSKLKAQITEVKGIMMDNI+KV
Sbjct: 122 AYNLDREFGPRLKEHMQYCVNHPEEISKLSKLKAQITEVKGIMMDNIDKV 171

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255648150|gb|ACU24529.1| unknown [Glycine max]

 Score =  297 bits (761), Expect = 1e-78,   Method: Compositional matrix adjust.
 Identities = 149/171 (87%), Positives = 165/171 (96%)

Query: 1   MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLD 60
           M+Q+GLIYSFV+KGTVVLAEHT Y+GNFSTIA+QCLQKLP++SSKYTYSCDGHTFNFLLD
Sbjct: 1   MSQRGLIYSFVAKGTVVLAEHTQYTGNFSTIAVQCLQKLPSNSSKYTYSCDGHTFNFLLD 60

Query: 61  SGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFS 120
           +GFVF VV DES+GRSVPFVFLERVKDDF +RYGASI+N+ +HPLADD++DDDLFEDRFS
Sbjct: 61  NGFVFFVVTDESIGRSVPFVFLERVKDDFMKRYGASIKNDGAHPLADDEDDDDLFEDRFS 120

Query: 121 IAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
           IAYNLDREFGP LKEHMQYCM+HPEEMSKLSKLKAQITEVKGIMMDNIEKV
Sbjct: 121 IAYNLDREFGPALKEHMQYCMNHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449526985|ref|XP_004170493.1| PREDICTED: vesicle-associated membrane protein 727-like [Cucumis sativus]

 Score =  295 bits (755), Expect = 6e-78,   Method: Compositional matrix adjust.
 Identities = 149/174 (85%), Positives = 168/174 (96%)

Query: 1   MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLD 60
           M+QKGLIYSFV+KG+VVLAEHTS+SGNFSTIA+QCLQ+LP++SSK TYSCDGHTFNFLLD
Sbjct: 1   MSQKGLIYSFVAKGSVVLAEHTSFSGNFSTIAVQCLQRLPSNSSKCTYSCDGHTFNFLLD 60

Query: 61  SGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFS 120
           SGFVFL VADESVGR++PFVFL+RVKDDFKQRYG+SI++E  HPLADD++DDDLF DRFS
Sbjct: 61  SGFVFLAVADESVGRNMPFVFLDRVKDDFKQRYGSSIKDENPHPLADDEDDDDLFLDRFS 120

Query: 121 IAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKVRVF 174
           +AY LDREFGP+LKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKVR+F
Sbjct: 121 VAYTLDREFGPKLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKVRLF 174

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	192
TAIR|locus:2080340	240	VAMP727 "AT3G54300" [Arabidops	0.890	0.712	0.836	6.5e-74
TAIR|locus:2046367	285	VAMP725 "AT2G32670" [Arabidops	0.489	0.329	0.627	1.6e-51
TAIR|locus:2010627	220	VAMP726 "AT1G04760" [Arabidops	0.489	0.427	0.627	1.6e-51
TAIR|locus:2010642	219	VAMP721 "AT1G04750" [Arabidops	0.489	0.429	0.617	7.7e-50
TAIR|locus:2046490	217	VAMP723 "AT2G33110" [Arabidops	0.489	0.433	0.553	5.3e-45
TAIR|locus:2046595	229	SAR1 "AT2G33120" [Arabidopsis	0.791	0.663	0.519	6.4e-44
TAIR|locus:2116672	219	VAMP711 "vesicle-associated me	0.479	0.420	0.408	1.1e-22
TAIR|locus:2147952	221	VAMP713 "AT5G11150" [Arabidops	0.520	0.452	0.372	2.3e-22
TAIR|locus:2059591	219	VAMP712 "vesicle-associated me	0.520	0.456	0.386	1.6e-21
DICTYBASE|DDB_G0277173	260	vamp7B "vesicle-associated mem	0.463	0.342	0.426	3.2e-21

TAIR|locus:2080340 VAMP727 "AT3G54300" [Arabidopsis thaliana (taxid:3702)]

 Score = 746 (267.7 bits), Expect = 6.5e-74, P = 6.5e-74
 Identities = 143/171 (83%), Positives = 154/171 (90%)

Query:     1 MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLD 60
             M+QKGLIYSFV+KGTVVLAEHT YSGNFSTIA+QCLQKLP +SSKYTYSCDGHTFNFL+D
Sbjct:     1 MSQKGLIYSFVAKGTVVLAEHTPYSGNFSTIAVQCLQKLPTNSSKYTYSCDGHTFNFLVD 60

Query:    61 SGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLAXXXXXXXXXXXRFS 120
             +GFVFLVVADES GRSVPFVFLERVK+DFK+RY ASI+N+E HPLA           RFS
Sbjct:    61 NGFVFLVVADESTGRSVPFVFLERVKEDFKKRYEASIKNDERHPLADEDEDDDLFGDRFS 120

Query:   121 IAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
             +AYNLDREFGP LKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV
Sbjct:   121 VAYNLDREFGPILKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171

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:0006623 "protein targeting to vacuole" evidence=RCA;IMP

GO:0007033 "vacuole organization" evidence=RCA;IMP

GO:0031201 "SNARE complex" evidence=IPI

TAIR|locus:2046367 VAMP725 "AT2G32670" [Arabidopsis thaliana (taxid:3702)]

 Score = 348 (127.6 bits), Expect = 1.6e-51, Sum P(2) = 1.6e-51
 Identities = 59/94 (62%), Positives = 80/94 (85%)

Query:     1 MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLD 60
             M Q+ LIYSFV++GTV+L E+T + GNF+ +A QCLQKLP+S++K+TY+CDGHTFN+L++
Sbjct:    66 MGQQNLIYSFVARGTVILVEYTEFKGNFTAVAAQCLQKLPSSNNKFTYNCDGHTFNYLVE 125

Query:    61 SGFVFLVVADESVGRSVPFVFLERVKDDFKQRYG 94
             +GF + VVA ESVGR +P  FLERVK+DF +RYG
Sbjct:   126 NGFTYCVVAVESVGRQIPMAFLERVKEDFNKRYG 159

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:0005768 "endosome" evidence=TAS

GO:0005886 "plasma membrane" evidence=TAS

TAIR|locus:2010627 VAMP726 "AT1G04760" [Arabidopsis thaliana (taxid:3702)]

 Score = 347 (127.2 bits), Expect = 1.6e-51, Sum P(2) = 1.6e-51
 Identities = 59/94 (62%), Positives = 79/94 (84%)

Query:     1 MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLD 60
             M Q+ LIYSFV++GTV+LAE+T + GNF+++A QCLQKLP+S++K+TY+CDGHTFN+L D
Sbjct:     1 MGQQSLIYSFVARGTVILAEYTEFKGNFTSVAAQCLQKLPSSNNKFTYNCDGHTFNYLAD 60

Query:    61 SGFVFLVVADESVGRSVPFVFLERVKDDFKQRYG 94
             +GF + VV  ES GR +P  FLERVK+DF +RYG
Sbjct:    61 NGFTYCVVVIESAGRQIPMAFLERVKEDFNKRYG 94

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:0009507 "chloroplast" evidence=IDA

GO:0005768 "endosome" evidence=TAS

GO:0005886 "plasma membrane" evidence=TAS

GO:0048451 "petal formation" evidence=RCA

GO:0048453 "sepal formation" evidence=RCA

TAIR|locus:2010642 VAMP721 "AT1G04750" [Arabidopsis thaliana (taxid:3702)]

 Score = 335 (123.0 bits), Expect = 7.7e-50, Sum P(2) = 7.7e-50
 Identities = 58/94 (61%), Positives = 78/94 (82%)

Query:     1 MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLD 60
             M Q+ LIYSFV++GTV+L E T + GNF++IA QCLQKLP+S++K+TY+CDGHTFN+L++
Sbjct:     1 MAQQSLIYSFVARGTVILVEFTDFKGNFTSIAAQCLQKLPSSNNKFTYNCDGHTFNYLVE 60

Query:    61 SGFVFLVVADESVGRSVPFVFLERVKDDFKQRYG 94
              GF + VVA +S GR +P  FLERVK+DF +RYG
Sbjct:    61 DGFTYCVVAVDSAGRQIPMSFLERVKEDFNKRYG 94

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:2046490 VAMP723 "AT2G33110" [Arabidopsis thaliana (taxid:3702)]

 Score = 305 (112.4 bits), Expect = 5.3e-45, Sum P(2) = 5.3e-45
 Identities = 52/94 (55%), Positives = 75/94 (79%)

Query:     1 MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLD 60
             M Q+ L YSF+++GTV+L E T + GNF+++A Q L+ LP+S++K+TY+CDGHTFN L++
Sbjct:     1 MAQQSLFYSFIARGTVILVEFTDFKGNFTSVAAQYLENLPSSNNKFTYNCDGHTFNDLVE 60

Query:    61 SGFVFLVVADESVGRSVPFVFLERVKDDFKQRYG 94
             +GF + VVA +S GR +P  FLERVK+DF +RYG
Sbjct:    61 NGFTYCVVAVDSAGREIPMAFLERVKEDFYKRYG 94

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:0005783 "endoplasmic reticulum" evidence=TAS

TAIR|locus:2046595 SAR1 "AT2G33120" [Arabidopsis thaliana (taxid:3702)]

 Score = 463 (168.0 bits), Expect = 6.4e-44, P = 6.4e-44
 Identities = 93/179 (51%), Positives = 127/179 (70%)

Query:     1 MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLD 60
             M Q+ LIYSFV++GTV+L E T + GNF++IA QCLQKLP+S++K+TY+CDGHTFN+L++
Sbjct:     1 MAQQSLIYSFVARGTVILVEFTDFKGNFTSIAAQCLQKLPSSNNKFTYNCDGHTFNYLVE 60

Query:    61 SGFV--------FLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLAXXXXXX 112
             +GF         + VVA +S GR +P  FLERVK+DF +RYG                  
Sbjct:    61 NGFSESKYCSISYCVVAVDSAGRQIPMAFLERVKEDFNKRYGGG---------------- 104

Query:   113 XXXXXRFSIAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
                    + A +L++EFG +LKEHMQYCM HP+E+SKL+K+KAQ++EVKG+MM+NIEKV
Sbjct:   105 ---KAATAQANSLNKEFGSKLKEHMQYCMDHPDEISKLAKVKAQVSEVKGVMMENIEKV 160

GO:0003674 "molecular_function" evidence=ND

GO:0006810 "transport" evidence=IEA

GO:0016020 "membrane" evidence=ISS

GO:0016192 "vesicle-mediated transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA;TAS

GO:0005768 "endosome" evidence=IDA;TAS

GO:0005774 "vacuolar membrane" evidence=IDA

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:2116672 VAMP711 "vesicle-associated membrane protein 711" [Arabidopsis thaliana (taxid:3702)]

 Score = 185 (70.2 bits), Expect = 1.1e-22, Sum P(2) = 1.1e-22
 Identities = 38/93 (40%), Positives = 59/93 (63%)

Query:     6 LIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASS-SKYTYSCDGHTFNFLLDSGFV 64
             ++Y+ V++GTVVL+E T+ S N STIA Q L+K+P  + S  +YS D + F+     G  
Sbjct:     3 ILYALVARGTVVLSEFTATSTNASTIAKQILEKVPGDNDSNVSYSQDRYVFHVKRTDGLT 62

Query:    65 FLVVADESVGRSVPFVFLERVKDDFKQRYGASI 97
              L +A+E+ GR +PF FLE +   F + YG ++
Sbjct:    63 VLCMAEETAGRRIPFAFLEDIHQRFVRTYGRAV 95

GO:0006810 "transport" evidence=IEA

GO:0016020 "membrane" evidence=ISS

GO:0016192 "vesicle-mediated transport" evidence=IEA

GO:0005773 "vacuole" evidence=IDA

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0006944 "cellular membrane fusion" evidence=RCA;TAS

GO:0046909 "intermembrane transport" evidence=TAS

GO:0009651 "response to salt stress" evidence=RCA;IMP

GO:0005886 "plasma membrane" evidence=IDA

GO:0009737 "response to abscisic acid stimulus" evidence=IMP

GO:0010118 "stomatal movement" evidence=IMP

GO:0006598 "polyamine catabolic process" evidence=RCA

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0006816 "calcium ion transport" evidence=RCA

GO:0006970 "response to osmotic stress" evidence=RCA

GO:0007030 "Golgi organization" evidence=RCA

GO:0009698 "phenylpropanoid metabolic process" evidence=RCA

GO:0009963 "positive regulation of flavonoid biosynthetic process" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

GO:0042398 "cellular modified amino acid biosynthetic process" evidence=RCA

GO:0046686 "response to cadmium ion" evidence=RCA

GO:0048193 "Golgi vesicle transport" evidence=RCA

TAIR|locus:2147952 VAMP713 "AT5G11150" [Arabidopsis thaliana (taxid:3702)]

 Score = 184 (69.8 bits), Expect = 2.3e-22, Sum P(2) = 2.3e-22
 Identities = 38/102 (37%), Positives = 65/102 (63%)

Query:     6 LIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPA--SSSKYTYSCDGHTFNFLLDSGF 63
             +I++ V++GTVVL+E ++ S N S+I+ Q L+KLP   S S  +YS D + F+     G 
Sbjct:     3 IIFALVARGTVVLSEFSATSTNASSISKQILEKLPGNDSDSHMSYSQDRYIFHVKRTDGL 62

Query:    64 VFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPL 105
               L +ADE+ GR++PF FL+ +   F + YG +I + +++ +
Sbjct:    63 TVLCMADETAGRNIPFAFLDDIHQRFVKTYGRAIHSAQAYSM 104

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)]

 Score = 190 (71.9 bits), Expect = 1.6e-21, Sum P(2) = 1.6e-21
 Identities = 39/101 (38%), Positives = 63/101 (62%)

Query:     6 LIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKY-TYSCDGHTFNFLLDSGFV 64
             ++Y+ V++GTVVLAE ++ S N STIA Q L+K+P +   + +YS D + F+     G  
Sbjct:     3 ILYALVARGTVVLAELSTTSTNASTIAKQILEKIPGNGDSHVSYSQDRYVFHVKRTDGLT 62

Query:    65 FLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPL 105
              L +ADE  GR +PF FLE +   F + YG +I + +++ +
Sbjct:    63 VLCMADEDAGRRIPFSFLEDIHQRFVRTYGRAIHSAQAYAM 103

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:0005774 "vacuolar membrane" evidence=TAS

DICTYBASE|DDB_G0277173 vamp7B "vesicle-associated membrane protein 7B" [Dictyostelium discoideum (taxid:44689)]

 Score = 197 (74.4 bits), Expect = 3.2e-21, Sum P(2) = 3.2e-21
 Identities = 38/89 (42%), Positives = 58/89 (65%)

Query:     6 LIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFVF 65
             +IYS V++G+ VLAE TS +GNF TI  + L  +P + +K +Y  + + F++L+     +
Sbjct:     3 IIYSLVARGSSVLAEFTSTNGNFVTITRRILDLIPPNDTKMSYVYEKYIFHYLVSDTLTY 62

Query:    66 LVVADESVGRSVPFVFLERVKDDFKQRYG 94
             L +ADE  GR +PF FL+ VK+ FK  YG
Sbjct:    63 LCMADEEFGRRIPFTFLDDVKNRFKSMYG 91

GO:0005768 "endosome" evidence=IEA;IDA

GO:0005515 "protein binding" evidence=IPI

GO:0000331 "contractile vacuole" evidence=IDA

GO:0006906 "vesicle fusion" evidence=ISS

GO:0005765 "lysosomal membrane" evidence=IEA;ISS

GO:0031902 "late endosome membrane" evidence=IEA;ISS

GO:0031201 "SNARE complex" evidence=ISS

GO:0008333 "endosome to lysosome transport" evidence=ISS

GO:0006810 "transport" evidence=IEA

GO:0016192 "vesicle-mediated transport" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005783 "endoplasmic reticulum" evidence=IEA

GO:0005764 "lysosome" evidence=IEA

GO:0031410 "cytoplasmic vesicle" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005789 "endoplasmic reticulum membrane" evidence=IEA;ISS

GO:0030670 "phagocytic vesicle membrane" evidence=IEA

GO:0030658 "transport vesicle membrane" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

---

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)
Q9M376	VA727_ARATH	No assigned EC number	0.8888	0.8906	0.7125	yes	no

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: scaffold_502542.1 annotation not avaliable (240 aa) (Arabidopsis lyrata)

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	Length	Definition	E-value
Query	192
pfam13774	82	pfam13774, Longin, Regulated-SNARE-like domain	6e-22
pfam00957	89	pfam00957, Synaptobrevin, Synaptobrevin	7e-06

>gnl|CDD|222370 pfam13774, Longin, Regulated-SNARE-like domain

 Score = 84.5 bits (210), Expect = 6e-22
 Identities = 25/67 (37%), Positives = 43/67 (64%)

Query: 31 IAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFVFLVVADESVGRSVPFVFLERVKDDFK 90
          +A   L+KLP +S + +Y    +TF++L++ G  +L +AD+   R + F FLE +KD+F 
Sbjct: 1  VAKTILEKLPPNSPRQSYEEGNYTFHYLVEDGLCYLCIADKEYPRRLAFAFLEEIKDEFL 60

Query: 91 QRYGASI 97
          ++YG S 
Sbjct: 61 KKYGGSQ 67

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

>gnl|CDD|201526 pfam00957, Synaptobrevin, Synaptobrevin

 Score = 42.5 bits (101), Expect = 7e-06
 Identities = 14/26 (53%), Positives = 20/26 (76%)

Query: 146 EMSKLSKLKAQITEVKGIMMDNIEKV 171
              KL+K++AQ+ EVK IM +NI+KV
Sbjct: 1   SNDKLNKIQAQVDEVKDIMTENIDKV 26

Length = 89

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	192
KOG0859	217	consensus Synaptobrevin/VAMP-like protein [Intrace	100.0
KOG0862	216	consensus Synaptobrevin/VAMP-like protein SEC22 [I	99.94
KOG0861	198	consensus SNARE protein YKT6, synaptobrevin/VAMP s	99.91
PF13774	83	Longin: Regulated-SNARE-like domain; PDB: 1IOU_A 3	99.8
COG5143	190	SNC1 Synaptobrevin/VAMP-like protein [Intracellula	99.65
KOG0860	116	consensus Synaptobrevin/VAMP-like protein [Intrace	97.9
PF00957	89	Synaptobrevin: Synaptobrevin; InterPro: IPR001388	97.58
PF04086	279	SRP-alpha_N: Signal recognition particle, alpha su	91.56
PF04099	142	Sybindin: Sybindin-like family ; InterPro: IPR0072	91.36
KOG0781	587	consensus Signal recognition particle receptor, al	89.82
PF01217	141	Clat_adaptor_s: Clathrin adaptor complex small cha	86.39
KOG0938	446	consensus Adaptor complexes medium subunit family	84.4

>KOG0859 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=8.4e-46  Score=302.49  Aligned_cols=150  Identities=60%  Similarity=1.051  Sum_probs=142.5

Q ss_pred             ccEEEEEEEeCCeeeeeeecCcccHHHHHHHHHhcCCCC-CCeeEEEECCeEEEEEeeCCEEEEEEecCCCCcccHHHHH
Q 029478            4 KGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPAS-SSKYTYSCDGHTFNFLLDSGFVFLVVADESVGRSVPFVFL   82 (192)
Q Consensus         4 m~I~Ya~Var~~~iLae~~~~~~nf~~ia~~iL~ki~~~-~~k~s~~~~~~~fh~l~~~gl~ylcitd~~yp~rvaF~fL   82 (192)
                      |+|+||+||||++|||||++.+|||.++|+++|+|+|++ ++|.+|.+|+|+|||+++||++|+||+|++.+|++||.||
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            789999999999999999999999999999999999998 5699999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhccccccccCCCCCCCCCCchhhhhhhhhccccccchhHHHHHHHHHhcCCchhhhHHHHHHHHHHHHHH
Q 029478           83 ERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFSIAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKG  162 (192)
Q Consensus        83 ~ei~~~F~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~i~~~~~~~F~~~Lk~lm~~yn~~p~~~Dkl~klq~ei~eVk~  162 (192)
                      ++|+.+|.++||..+.+                    +++|+++.+|++.|++.|+||.++|+ .|+|++++.|++|||+
T Consensus        81 e~Ik~~F~k~YG~~a~t--------------------a~AysmN~EFs~vL~qqm~y~s~~p~-id~lskvkaqv~evk~  139 (217)
T KOG0859|consen   81 ERIKEDFKKRYGGGAHT--------------------AVAYSMNKEFSSVLKQQMQYCSEHPE-ISKLAKVKAQVTEVKG  139 (217)
T ss_pred             HHHHHHHHHHhccchhH--------------------HHHhHhHHHHHHHHHHHHHHHHcCcc-hhHHHHHHHHHHHHHH
Confidence            99999999999877543                    45677799999999999999999997 7999999999999999


Q ss_pred             HHHHhHHHHHHH
Q 029478          163 IMMDNIEKVRVF  174 (192)
Q Consensus       163 IM~~NIdkiL~~  174 (192)
                      ||++||||+|+|
T Consensus       140 vM~eNIekvldR  151 (217)
T KOG0859|consen  140 VMMENIEKVLDR  151 (217)
T ss_pred             HHHHHHHHHHhc
Confidence            999999999986

>KOG0862 consensus Synaptobrevin/VAMP-like protein SEC22 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.94  E-value=2.3e-26  Score=190.85  Aligned_cols=150  Identities=26%  Similarity=0.467  Sum_probs=136.1

Q ss_pred             cEEEEEEEeC--Ceeeeeeec---Cccc----HHHHHHHHHhcCCCC-CCeeEEEECCeEEEEEeeCCEEEEEEecCCCC
Q 029478            5 GLIYSFVSKG--TVVLAEHTS---YSGN----FSTIAIQCLQKLPAS-SSKYTYSCDGHTFNFLLDSGFVFLVVADESVG   74 (192)
Q Consensus         5 ~I~Ya~Var~--~~iLae~~~---~~~n----f~~ia~~iL~ki~~~-~~k~s~~~~~~~fh~l~~~gl~ylcitd~~yp   74 (192)
                      ||++++|+|.  ..+||...+   .+++    .+..++.+++|+.+. +.|.|++.+.|+|||++++|+||+||||+.||
T Consensus         1 mi~~T~I~RV~DGLPLa~s~d~~e~~~~s~~e~r~q~K~L~kkLs~~s~~r~Sietg~f~fHfli~~~Vcylvicd~~yP   80 (216)
T KOG0862|consen    1 MILLTLIARVRDGLPLAASTDDNEQSGDSLLEYRQQAKSLFKKLSQQSPTRCSIETGPFVFHFLIESGVCYLVICDKSYP   80 (216)
T ss_pred             CceeEEEEEecCCcccccccCcccCCCchHHHHHHHHHHHHHhccCCCCcccccccCCeEEEEEecCCEEEEEEecCCCc
Confidence            6899999995  599998765   1333    456999999999988 78999999999999999999999999999999


Q ss_pred             cccHHHHHHHHHHHHHhhhccccccccCCCCCCCCCCchhhhhhhhhccccccchhHHHHHHHHHhcCCchhhhHHHHHH
Q 029478           75 RSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFSIAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLK  154 (192)
Q Consensus        75 ~rvaF~fL~ei~~~F~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~i~~~~~~~F~~~Lk~lm~~yn~~p~~~Dkl~klq  154 (192)
                      +++||.||+++.++|.+.|+....+...+|++                   +-+|.+.|++.-+.|| |++..+++.++.
T Consensus        81 ~kLAF~YLedL~~EF~~~~~~~~~~~~~RPY~-------------------FieFD~~IQk~Kk~yn-d~r~~~n~~~~n  140 (216)
T KOG0862|consen   81 RKLAFSYLEDLAQEFDKSYGKNIIQPASRPYA-------------------FIEFDTFIQKTKKRYN-DTRSQRNLLKLN  140 (216)
T ss_pred             HHHHHHHHHHHHHHHHHhcccccCCccCCCee-------------------EEehhHHHHHHHHHhc-CcHHHHHHHHHH
Confidence            99999999999999999999988887788987                   7899999999999996 787779999999


Q ss_pred             HHHHHHHHHHHHhHHHHHHH
Q 029478          155 AQITEVKGIMMDNIEKVRVF  174 (192)
Q Consensus       155 ~ei~eVk~IM~~NIdkiL~~  174 (192)
                      .++.+|+.||.+||+++|++
T Consensus       141 ~el~~v~~im~~niedvl~r  160 (216)
T KOG0862|consen  141 QELQDVQRIMVENLEDVLQR  160 (216)
T ss_pred             HHHHHHHHHHHHhHHHHHhh
Confidence            99999999999999999985

>KOG0861 consensus SNARE protein YKT6, synaptobrevin/VAMP syperfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.91  E-value=1.5e-23  Score=169.06  Aligned_cols=146  Identities=21%  Similarity=0.254  Sum_probs=118.4

Q ss_pred             ccEEEEEEEeCC----eeeeeeecCc----------ccHHH-HHHHHHhcCCCCCCeeEEEECCeEEEEEee-CCEEEEE
Q 029478            4 KGLIYSFVSKGT----VVLAEHTSYS----------GNFST-IAIQCLQKLPASSSKYTYSCDGHTFNFLLD-SGFVFLV   67 (192)
Q Consensus         4 m~I~Ya~Var~~----~iLae~~~~~----------~nf~~-ia~~iL~ki~~~~~k~s~~~~~~~fh~l~~-~gl~ylc   67 (192)
                      |.|++-.|.+..    ++|+.-++.+          ++|.. +++++.+|++|+ +|++++++.|.+|.... +|+++++
T Consensus         1 Mki~sl~V~~~~~~~~~ll~~a~dls~FsfFqRssV~Efm~F~sktvaeRt~~g-~rqsvk~~~Y~~h~yvrndgL~~V~   79 (198)
T KOG0861|consen    1 MKIYSLSVLHKGTSDVKLLKTASDLSSFSFFQRSSVQEFMTFISKTVAERTGPG-QRQSVKHEEYLVHVYVRNDGLCGVL   79 (198)
T ss_pred             CceEEEEEEeeCCcchhhhhhhcccccccceeeccHHHHHHHHHHHHHHhcCcc-cccccccceeEEEEEEecCCeeEEE
Confidence            567777777762    5777655422          34544 889999999994 79999999999997766 5999999


Q ss_pred             EecCCCCcccHHHHHHHHHHHHHhhhcc-ccccccCCCCCCCCCCchhhhhhhhhccccccchhHHHHHHHHHhcCCchh
Q 029478           68 VADESVGRSVPFVFLERVKDDFKQRYGA-SIQNEESHPLADDDEDDDLFEDRFSIAYNLDREFGPRLKEHMQYCMSHPEE  146 (192)
Q Consensus        68 itd~~yp~rvaF~fL~ei~~~F~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~~~i~~~~~~~F~~~Lk~lm~~yn~~p~~  146 (192)
                      ++|.+||.|+||.+|+++.++|..+.+. +|......                      +.. .|.|..++..| |||.+
T Consensus        80 ~~D~eYP~rvA~tLL~kvld~~~~k~~~~~W~~~~~~----------------------~~~-~~~L~~~l~ky-qdP~e  135 (198)
T KOG0861|consen   80 IADDEYPVRVAFTLLNKVLDEFTTKVPATQWPVGETA----------------------DLS-YPYLDTLLSKY-QDPAE  135 (198)
T ss_pred             EecCcCchhHHHHHHHHHHHHHhhcCcccccCcCCCc----------------------CCC-chhHHHHHHHh-cChhh
Confidence            9999999999999999999999777654 44321111                      122 48899999777 89999


Q ss_pred             hhHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 029478          147 MSKLSKLKAQITEVKGIMMDNIEKVRVF  174 (192)
Q Consensus       147 ~Dkl~klq~ei~eVk~IM~~NIdkiL~~  174 (192)
                      +|+|.++|+|+||+|.||+++|+.+|+|
T Consensus       136 ad~l~kvQ~EldETKiiLhkTiesVL~R  163 (198)
T KOG0861|consen  136 ADPLLKVQNELDETKIILHKTIESVLER  163 (198)
T ss_pred             hChHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            9999999999999999999999999986

>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

Probab=99.80  E-value=4.9e-19  Score=127.06  Aligned_cols=71  Identities=32%  Similarity=0.688  Sum_probs=63.3

Q ss_pred             HHHHHHhcCCCCC-CeeEEEECCeEEEEEeeCCEEEEEEecCCCCcccHHHHHHHHHHHHHhhhc-ccccccc
Q 029478           31 IAIQCLQKLPASS-SKYTYSCDGHTFNFLLDSGFVFLVVADESVGRSVPFVFLERVKDDFKQRYG-ASIQNEE  101 (192)
Q Consensus        31 ia~~iL~ki~~~~-~k~s~~~~~~~fh~l~~~gl~ylcitd~~yp~rvaF~fL~ei~~~F~~~~~-~~~~~~~  101 (192)
                      +|++||+|+++.+ +|.+++.++|+||+++++|++|+||||++||+|+||.||++|+++|.++|+ .++..+.
T Consensus         1 ~a~~il~~i~~~~~~k~s~~~~~~~fh~~~~~~i~~~citd~~~~~r~aF~fL~~i~~~F~~~~~~~~~~~a~   73 (83)
T PF13774_consen    1 QARKILKRIPPNGNSKMSYESGNYVFHYLVEDGIAYLCITDKSYPKRVAFAFLEEIKQEFIQTYGGDQIKSAS   73 (83)
T ss_dssp             HHHHHHHTS-TTSESEEEEEETTEEEEEEEETTEEEEEEEETTS-HHHHHHHHHHHHHHHHHHCTTTTTTTST
T ss_pred             CHHHHHHhcCCCCCCeEEEEECCEEEEEEEcCCeEEEEEEcCCCCcchHHHHHHHHHHHHHHHcCcchhcccC
Confidence            6899999999765 899999999999999999999999999999999999999999999999998 4555444

...

>COG5143 SNC1 Synaptobrevin/VAMP-like protein [Intracellular trafficking and secretion]

Probab=99.65  E-value=1.8e-15  Score=124.18  Aligned_cols=147  Identities=20%  Similarity=0.294  Sum_probs=111.9

Q ss_pred             cEEEEEEEeCC--eeeeeee-cCcccHH--HHHHHHHhcCCCC-CCeeEEEECCeEEEEEeeC-CEEEEEEecCCCCccc
Q 029478            5 GLIYSFVSKGT--VVLAEHT-SYSGNFS--TIAIQCLQKLPAS-SSKYTYSCDGHTFNFLLDS-GFVFLVVADESVGRSV   77 (192)
Q Consensus         5 ~I~Ya~Var~~--~iLae~~-~~~~nf~--~ia~~iL~ki~~~-~~k~s~~~~~~~fh~l~~~-gl~ylcitd~~yp~rv   77 (192)
                      .++|..+.++.  .+|++-. ..+..|.  ..++.+|.++.|. ..+.+++.++|.|||...+ |++|+|+|+++||+++
T Consensus         2 ~s~~~~~~~~~~~~~~~~~~s~~~~~ff~~~~v~~~l~~~~~~~a~~~~ies~~~~~~~~~~s~gi~y~~~~~~e~p~~l   81 (190)
T COG5143           2 ASISLFRVKGEPLRTLSDAESLSSFSFFHRSKVKEVLRFLSKTSASRASIESGDYFFHYLKMSSGIVYVPISDKEYPNKL   81 (190)
T ss_pred             ceEEEEeecCCcceeeccccccCcccccccchHHHHHHHhcccccchhccccCceEEEEEecCCCceeEEecccccchhh
Confidence            45666666664  4555433 2233333  3788888888765 4578899999999998765 9999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhccccccccCCCCCCCCCCchhhhhhhhhccccccchhHHHHHHHHHhcCCchhhhHHHHHHHHH
Q 029478           78 PFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFSIAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQI  157 (192)
Q Consensus        78 aF~fL~ei~~~F~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~i~~~~~~~F~~~Lk~lm~~yn~~p~~~Dkl~klq~ei  157 (192)
                      ||+.++++..+|....+.+.+....+++.                   ...|.+.+++  . | ++|...|++.+++.++
T Consensus        82 a~~~~~~~~~~~~~s~~~~~~~d~~~~~~-------------------~~~~d~~~e~--~-y-~d~s~~D~~d~l~~el  138 (190)
T COG5143          82 AYGYLNSIATEFLKSSALEQLIDDTVGIM-------------------RVNIDKVIEK--G-Y-RDPSIQDKLDQLQQEL  138 (190)
T ss_pred             hhHHHHhhccHhhhhhhHhhcccCccchh-------------------hhhHHHHHHh--h-c-CCchhhhHHHHHHHHH
Confidence            99999999999988876554433333421                   3455666654  2 5 6898889999999999


Q ss_pred             HHHHHHHHHhHHHHHHH
Q 029478          158 TEVKGIMMDNIEKVRVF  174 (192)
Q Consensus       158 ~eVk~IM~~NIdkiL~~  174 (192)
                      ++||.+|++||+++|++
T Consensus       139 ~e~K~~l~k~ie~~l~R  155 (190)
T COG5143         139 EETKRVLNKNIEKVLYR  155 (190)
T ss_pred             HHHHHHHHHHHHHHHHc
Confidence            99999999999999985

>KOG0860 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.90  E-value=1.6e-05  Score=60.83  Aligned_cols=28  Identities=43%  Similarity=0.478  Sum_probs=26.8

Q ss_pred             hhHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 029478          147 MSKLSKLKAQITEVKGIMMDNIEKVRVF  174 (192)
Q Consensus       147 ~Dkl~klq~ei~eVk~IM~~NIdkiL~~  174 (192)
                      .+++.++|+|+|+|++||.+||+|+|+|
T Consensus        28 ~~k~~~tq~QvdeVv~IMr~NV~KVlER   55 (116)
T KOG0860|consen   28 NDKLQQTQAQVDEVVDIMRENVEKVLER   55 (116)
T ss_pred             hHHHHHHHHHHHHHHHHHHHhHHHHHHh
Confidence            4899999999999999999999999996

>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

Probab=97.58  E-value=9.3e-05  Score=53.53  Aligned_cols=28  Identities=39%  Similarity=0.540  Sum_probs=26.6

Q ss_pred             hhHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 029478          147 MSKLSKLKAQITEVKGIMMDNIEKVRVF  174 (192)
Q Consensus       147 ~Dkl~klq~ei~eVk~IM~~NIdkiL~~  174 (192)
                      .|++.++++++++|+++|.+||++++++
T Consensus         2 ~dkl~~i~~~v~~v~~im~~Ni~~ll~R   29 (89)
T PF00957_consen    2 NDKLEQIQEQVEEVKNIMRENIDKLLER   29 (89)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            3899999999999999999999999986

Vesicle function is mediated by proteins in their membranes, although the precise nature of the protein-protein interactions underlying this are still uncertain []. Synaptobrevin may play a role in the molecular events underlying neurotransmitter release and vesicle recycling and may be involved in the regulation of membrane flow in the nerve terminal, a process mediated by interaction with low molecular weight GTP-binding proteins []. Synaptic vesicle-associated membrane proteins (VAMPs) from Torpedo californica (Pacific electric ray) and SNC1 from yeast are related to synaptobrevin.; GO: 0016192 vesicle-mediated transport, 0016021 integral to membrane; PDB: 3EGX_C 2NUP_C 3EGD_C 2NUT_C 1IOU_A 1H8M_A 3B5N_A 3ZYM_A 2NPS_A 1SFC_E ....

>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 [, ]

Probab=91.56  E-value=0.33  Score=41.78  Aligned_cols=66  Identities=23%  Similarity=0.395  Sum_probs=42.3

Q ss_pred             HHHHHHHhcCCCCCCeeEEEECCeEEEEEeeC--CEEEEEEecCCCCcccHHHHHHHHHHHHHhhhcccc
Q 029478           30 TIAIQCLQKLPASSSKYTYSCDGHTFNFLLDS--GFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASI   97 (192)
Q Consensus        30 ~ia~~iL~ki~~~~~k~s~~~~~~~fh~l~~~--gl~ylcitd~~yp~rvaF~fL~ei~~~F~~~~~~~~   97 (192)
                      .+++.||=.=..  ...+|++++|+.+|...+  ||+|+||-..-.+-.-.=.||+.|+..|...|+...
T Consensus         6 ~LI~~vlleeR~--~~~~~~~d~y~lkw~~~Ne~~LvfVvvYq~il~l~yvd~LL~~v~~~F~~~y~~~l   73 (279)
T PF04086_consen    6 ALIRDVLLEERS--GNSSFTYDNYTLKWTLDNELGLVFVVVYQKILQLTYVDKLLDDVKKEFVKLYKNQL   73 (279)
T ss_dssp             HHHHHTGGG---------------EEEEEEETTTTEEEEEEES-GGGHHHHHHHHHHHHHHHHHHTHHHH
T ss_pred             HHHHHhheeecc--CCCceeEcCEEEEEEEeccCCEEEeeeecccccchHHHHHHHHHHHHHHHHHhHHh
Confidence            455555533112  345689999999999886  799999999888877777899999999999997653

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. This entry represents the alpha subunit of the SR receptor.; GO: 0003924 GTPase activity, 0005047 signal recognition particle binding, 0005525 GTP binding, 0006184 GTP catabolic process, 0006886 intracellular protein transport, 0005785 signal recognition particle receptor complex; PDB: 2FH5_A 2GO5_1.

>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

Probab=91.36  E-value=3  Score=32.69  Aligned_cols=58  Identities=17%  Similarity=0.228  Sum_probs=34.9

Q ss_pred             HHHHhcCCC---------CCCeeEEEECCeEEEEEee-CCEEEEEEecCCCCcccHHHHHHHHHHHHHh
Q 029478           33 IQCLQKLPA---------SSSKYTYSCDGHTFNFLLD-SGFVFLVVADESVGRSVPFVFLERVKDDFKQ   91 (192)
Q Consensus        33 ~~iL~ki~~---------~~~k~s~~~~~~~fh~l~~-~gl~ylcitd~~yp~rvaF~fL~ei~~~F~~   91 (192)
                      +.+..++.|         .+.-.+++-+.|..|+.-. .|+-|+++||+..+. ..-.++..+.+-|..
T Consensus        46 ~~i~~klsp~~~~~~~~~~~g~~~~~T~~yklh~~eT~TGlKFvl~td~~~~~-~~~~l~~~~~~lY~d  113 (142)
T PF04099_consen   46 KAIASKLSPVDSKPNEPGSSGFESFETDTYKLHCFETPTGLKFVLITDPNVPS-LRDELLRIYYELYVD  113 (142)
T ss_dssp             HHHHHHT-SSSSSS-SSS--SEEEEEESS-EEEEEE-TTS-EEEEEE-TTCCH-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCcccccccceeEEEEEeCCEEEEEEEcCcCcEEEEEecCCCcc-HHHHHHHHHHHHHHH
Confidence            455555555         1356788899999998854 899999999999863 333344444444433

Syndecan-2 induces spine formation by recruiting intracellular vesicles toward postsynaptic sites through the interaction with synbindin []. ; GO: 0006888 ER to Golgi vesicle-mediated transport, 0005801 cis-Golgi network; PDB: 3CUE_C 2J3T_C 2ZMV_B 2JSN_A.

>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.82  E-value=0.73  Score=43.64  Aligned_cols=87  Identities=20%  Similarity=0.327  Sum_probs=65.6

Q ss_pred             EEEEEEeCCeeeeeeecCcccHHH----HHHHHHhcCCCCCCeeEEEECCeEEEEEeeC--CEEEEEEecCCCCcccHHH
Q 029478            7 IYSFVSKGTVVLAEHTSYSGNFST----IAIQCLQKLPASSSKYTYSCDGHTFNFLLDS--GFVFLVVADESVGRSVPFV   80 (192)
Q Consensus         7 ~Ya~Var~~~iLae~~~~~~nf~~----ia~~iL~ki~~~~~k~s~~~~~~~fh~l~~~--gl~ylcitd~~yp~rvaF~   80 (192)
                      .++.+.+|..||..|.....+|..    +.+.+|-. .+ +.-.+++.+.|+..|-.++  +++|+|+-.+-.-..-+-.
T Consensus         4 ~faIFtkgG~vLw~~~~~~~~~~~~in~lI~~~ll~-er-~~~~~~~~~~yTlk~q~~N~~~lvfvvvfqki~~L~yv~~   81 (587)
T KOG0781|consen    4 QFAIFTKGGLVLWCYQEVGDNLKGPINALIRSVLLS-ER-GGVNSFTFEAYTLKYQLDNQYSLVFVVVFQKILTLTYVDK   81 (587)
T ss_pred             eeeeecCCcEEEEEecccchhccchHHHHHHHHHHH-hh-cCcccCchhheeEeeeecCCccEEEEEEEeccchhhhHHH
Confidence            578889999999999875545443    44444432 11 2233478888998887764  8999999988888888889


Q ss_pred             HHHHHHHHHHhhhcc
Q 029478           81 FLERVKDDFKQRYGA   95 (192)
Q Consensus        81 fL~ei~~~F~~~~~~   95 (192)
                      +|+++.+-|+..|..
T Consensus        82 ll~~v~~~f~e~~~~   96 (587)
T KOG0781|consen   82 LLNDVLNLFREKYDT   96 (587)
T ss_pred             HHHHHHHHHHHHhcc
Confidence            999999999999965

>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

Probab=86.39  E-value=13  Score=28.53  Aligned_cols=87  Identities=17%  Similarity=0.238  Sum_probs=61.3

Q ss_pred             EEEEEEEe--CCeeeeeeecC-c-----ccHHHHHHHHHhcCCCCCCeeEEEECCeEEEEEeeCCEEEEEEecCCCCccc
Q 029478            6 LIYSFVSK--GTVVLAEHTSY-S-----GNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFVFLVVADESVGRSV   77 (192)
Q Consensus         6 I~Ya~Var--~~~iLae~~~~-~-----~nf~~ia~~iL~ki~~~~~k~s~~~~~~~fh~l~~~gl~ylcitd~~yp~rv   77 (192)
                      |..-+|.-  |+++++-|... +     .-++...+.+..+-+.  .--.+..+++.+-|..-+++.++++++.+...-.
T Consensus         2 I~~i~i~n~~G~~i~~k~y~~~~~~~~~~~~~~~~~~~~~~~~~--~~~i~~~~~~~~vy~~~~dl~~~~v~~~~eNel~   79 (141)
T PF01217_consen    2 IKAILILNSQGKRILSKYYRDVSEEERQKLFEKFIKKKSSRNSK--QSPIFEHDNYRIVYKRYSDLYFVVVGDENENELL   79 (141)
T ss_dssp             EEEEEEEETTSEEEEEEESSTSTSHHHHHHHHHHHHHHHTSSSS--STSEEEETTEEEEEEEETTEEEEEEESSTSBHHH
T ss_pred             EEEEEEEcCCCCEEEehhcCCccHHHHHHHHHHHHHHHHhcccc--cceeeecccceeeeEeeccEEEEEEeecccchHH
Confidence            34444443  45788877632 2     1234444555555322  1344678899999988999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhc
Q 029478           78 PFVFLERVKDDFKQRYG   94 (192)
Q Consensus        78 aF~fL~ei~~~F~~~~~   94 (192)
                      ...||..+.+-+..-++
T Consensus        80 ~~e~l~~~v~~l~~~~~   96 (141)
T PF01217_consen   80 LLEFLHRLVEVLDDYFG   96 (141)
T ss_dssp             HHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHhhhhhhhhhc
Confidence            99999999999888765

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the small sigma and mu subunits of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and the zeta and delta subunits of various coatomer (COP) adaptors. The small sigma subunit of AP proteins have been characterised in several species [, , , ]. The sigma subunit plays a role in protein sorting in the late-Golgi/trans-Golgi network (TGN) and/or endosomes. The zeta subunit of coatomers (zeta-COP) is required for coatomer binding to Golgi membranes and for coat-vesicle assembly [, ]. More information about these proteins can be found at Protein of the Month: Clathrin [].; PDB: 1W63_W 2JKR_I 2VGL_S 2JKT_I 2XA7_S 2HF6_A 3TJZ_C.

>KOG0938 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.40  E-value=22  Score=32.49  Aligned_cols=87  Identities=14%  Similarity=0.292  Sum_probs=64.3

Q ss_pred             EEEEEEeCCeeeeeee--cCcccHHHHHHH-HHhcCCCCCCeeEEEECCeEEEEEeeCCEEEEEEecCCCCcccHHHHHH
Q 029478            7 IYSFVSKGTVVLAEHT--SYSGNFSTIAIQ-CLQKLPASSSKYTYSCDGHTFNFLLDSGFVFLVVADESVGRSVPFVFLE   83 (192)
Q Consensus         7 ~Ya~Var~~~iLae~~--~~~~nf~~ia~~-iL~ki~~~~~k~s~~~~~~~fh~l~~~gl~ylcitd~~yp~rvaF~fL~   83 (192)
                      +|..=.||+++++-.-  +-.++...+-|- |+..+.-..  -..+.++-+||++..+++--++||.........|.||.
T Consensus         5 lfi~n~rGevlink~fr~dlkrs~~diFRv~vi~n~d~r~--PV~~igsttf~~~r~~nl~lvaitksN~Nva~v~eFl~   82 (446)
T KOG0938|consen    5 LFIYNLRGEVLINKTFRDDLKRSIVDIFRVQVINNLDVRS--PVLTIGSTTFHHIRSSNLWLVAITKSNANVAAVFEFLY   82 (446)
T ss_pred             EEEEeccCcEEEehhhhhhhhhhHHHHHHHhhhhccccCC--CeeEecceeEEEEeeccEEEEEEecCCCchhhHHHHHH
Confidence            4555678999998654  335666664442 333322211  23467899999999999999999999999999999999


Q ss_pred             HHHHHHHhhhcc
Q 029478           84 RVKDDFKQRYGA   95 (192)
Q Consensus        84 ei~~~F~~~~~~   95 (192)
                      ++...+..-||.
T Consensus        83 kl~avm~aYfgk   94 (446)
T KOG0938|consen   83 KLDAVMNAYFGK   94 (446)
T ss_pred             HHHHHHHHHhcc
Confidence            999999887774

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	192
4b93_A	189	Complex Of Vamp7 Cytoplasmic Domain With 2nd Ankyri		1e-17
4afi_A	173	Complex Between Vamp7 Longin Domain And Fragment Of		1e-12
2vx8_A	169	Vamp7 Longin Domain Hrb Peptide Complex Length = 16		2e-12
2dmw_A	131	Solution Structure Of The Longin Domain Of Synaptob		5e-12

>pdb|4B93|A Chain A, Complex Of Vamp7 Cytoplasmic Domain With 2nd Ankyrin Repeat Domain Of Varp Length = 189

Iteration: 1
 Score = 85.9 bits (211), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 48/167 (28%), Positives = 86/167 (51%), Gaps = 21/167 (12%)
Query: 5   GLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFV 64
            ++++ V++GT +LA+H    GNF  +  Q L K+P+ ++K TYS   + F+++     V
Sbjct: 3   AILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIV 62
Query: 65  FLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLAXXXXXXXXXXXRFSIAYN 124
           +L + D+   RS  F FL  VK  F+  YG+  Q                     ++ Y 
Sbjct: 63  YLCITDDDFERSRAFSFLNEVKKRFQTTYGSRAQT--------------------ALPYA 102
Query: 125 LDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
           ++ EF   L   +++  S  + + K+ + +AQ+ E+KGIM+ NI+ V
Sbjct: 103 MNSEFSSVLAAQLKH-HSENKSLDKVMETQAQVDELKGIMVRNIDLV 148

>pdb|4AFI|A Chain A, Complex Between Vamp7 Longin Domain And Fragment Of Delta- Adaptin From Ap3 Length = 173

Iteration: 1
 Score = 69.3 bits (168), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 32/95 (33%), Positives = 54/95 (56%)
Query: 5   GLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFV 64
            ++++ V++GT +LA+H    GNF  +  Q L K+P+ ++K TYS   + F+++     V
Sbjct: 55  AILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIV 114
Query: 65  FLVVADESVGRSVPFVFLERVKDDFKQRYGASIQN 99
           +L + D+   RS  F FL  VK  F+  YG+  Q 
Sbjct: 115 YLCITDDDFERSRAFSFLNEVKKRFQTTYGSRAQT 149

>pdb|2VX8|A Chain A, Vamp7 Longin Domain Hrb Peptide Complex Length = 169

Iteration: 1
 Score = 68.9 bits (167), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 32/94 (34%), Positives = 54/94 (57%)
Query: 5   GLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFV 64
            ++++ V++GT +LA+H    GNF  +  Q L K+P+ ++K TYS   + F+++     V
Sbjct: 45  AILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIV 104
Query: 65  FLVVADESVGRSVPFVFLERVKDDFKQRYGASIQ 98
           +L + D+   RS  F FL  VK  F+  YG+  Q
Sbjct: 105 YLCITDDDFERSRAFSFLNEVKKRFQTTYGSRAQ 138

>pdb|2DMW|A Chain A, Solution Structure Of The Longin Domain Of Synaptobrevin- Like Protein 1 Length = 131

Iteration: 1
 Score = 67.4 bits (163), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 31/94 (32%), Positives = 54/94 (57%)
Query: 5   GLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFV 64
            ++++ V++GT +LA+H    GNF  +  Q L K+P+ ++K TYS   + F+++     V
Sbjct: 9   AILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIV 68
Query: 65  FLVVADESVGRSVPFVFLERVKDDFKQRYGASIQ 98
           +L + D+   RS  F FL  +K  F+  YG+  Q
Sbjct: 69  YLCITDDDFERSRAFNFLNEIKKRFQTTYGSRAQ 102

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	192
4afi_A	173	AP-3 complex subunit delta-1, vesicle-associated p	2e-37
2vx8_A	169	Nucleoporin-like protein RIP, vesicle-associated m	9e-36
2nut_C	196	Vesicle-trafficking protein SEC22B; human copii SE	3e-19
3kyq_A	199	YKT6, synaptobrevin homolog YKT6; V-snare homolog,	7e-18
1l4a_A	80	Synaptobrevin; snare, snare complex, membrane fusi	6e-07
3b5n_A	61	Synaptobrevin homolog 1; snare complex, syntaxin,	2e-06
1n7s_A	63	Vesicle-associated membrane protein 2; neuronal sn	3e-06
2nps_A	74	VAMP-4, vesicle-associated membrane protein 4; ves	2e-05
1gl2_A	65	Endobrevin; membrane protein, membrane fusion prot	3e-05
1sfc_A	96	VAMP 2, protein (synaptobrevin 2); membrane fusion	3e-05
3hd7_A	91	Vesicle-associated membrane protein 2; membrane pr	4e-05
2kog_A	119	Vesicle-associated membrane protein 2; synaptobrev	6e-05
2fh5_A	185	Signal recognition particle receptor alpha subunit	8e-04

>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

 Score =  126 bits (318), Expect = 2e-37
 Identities = 36/143 (25%), Positives = 66/143 (46%), Gaps = 20/143 (13%)

Query: 1   MNQKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLD 60
                ++++ V++GT +LA+H    GNF  +  Q L K+P+ ++K TYS   + F+++  
Sbjct: 51  EEAMAILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQ 110

Query: 61  SGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFS 120
              V+L + D+   RS  F FL  VK  F+  YG+  Q                     +
Sbjct: 111 DRIVYLCITDDDFERSRAFSFLNEVKKRFQTTYGSRAQT--------------------A 150

Query: 121 IAYNLDREFGPRLKEHMQYCMSH 143
           + Y ++ EF   L   +++   +
Sbjct: 151 LPYAMNSEFSSVLAAQLKHHSEN 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

 Score =  122 bits (306), Expect = 9e-36
 Identities = 36/141 (25%), Positives = 66/141 (46%), Gaps = 20/141 (14%)

Query: 6   LIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFVF 65
           ++++ V++GT +LA+H    GNF  +  Q L K+P+ ++K TYS   + F+++     V+
Sbjct: 46  ILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIVY 105

Query: 66  LVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFSIAYNL 125
           L + D+   RS  F FL  VK  F+  YG+  Q                     ++ Y +
Sbjct: 106 LCITDDDFERSRAFSFLNEVKKRFQTTYGSRAQT--------------------ALPYAM 145

Query: 126 DREFGPRLKEHMQYCMSHPEE 146
           + EF   L   +++   +   
Sbjct: 146 NSEFSSVLAAQLKHHSENHHH 166

>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

 Score = 80.3 bits (197), Expect = 3e-19
 Identities = 28/175 (16%), Positives = 68/175 (38%), Gaps = 31/175 (17%)

Query: 7   IYSFVSKGTVVLAEHTSYSG---------NFSTIAIQCLQKLPA-SSSKYTYSCDGHTFN 56
           + + +++    L    S             + + A Q  +KL   S ++ T      TF+
Sbjct: 4   LLTMIARVADGLPLAASMQEDEQSGRDLQQYQSQAKQLFRKLNEQSPTRCTLEAGAMTFH 63

Query: 57  FLLDSGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFE 116
           ++++ G  +LV+ + +  + + F +LE +  +F +++G  +                   
Sbjct: 64  YIIEQGVCYLVLCEAAFPKKLAFAYLEDLHSEFDEQHGKKVPTVS--------------- 108

Query: 117 DRFSIAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
                      EF   +++  +  +        L  +  ++ +V+ IM+ NIE+V
Sbjct: 109 -----RPYSFIEFDTFIQKTKKLYIDSR-ARRNLGSINTELQDVQRIMVANIEEV 157

>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

 Score = 76.8 bits (188), Expect = 7e-18
 Identities = 28/165 (16%), Positives = 58/165 (35%), Gaps = 33/165 (20%)

Query: 8   YSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLL-DSGFVFL 66
           +SF  + +V           F T   Q + +  A  S+ +     +  +  +       +
Sbjct: 29  FSFFQRSSV---------QEFMTFTSQLIVERSAKGSRASVKEQEYLCHVYVRSDSLAGV 79

Query: 67  VVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFSIAYNLD 126
           V+AD      V F  LE+V D+F ++                          + +     
Sbjct: 80  VIADSEYPSRVAFTLLEKVLDEFSKQVDRI---------------------DWPVGSPAT 118

Query: 127 REFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
             +        +Y   +P E   +SK++A++ E K I+ + +E +
Sbjct: 119 IHYTALDGHLSRYQ--NPREADPMSKVQAELDETKIILHNTMESL 161

>1l4a_A Synaptobrevin; snare, snare complex, membrane fusion, neurotransmission, endocytosis/exocytosis complex; 2.95A {Loligo pealei} SCOP: h.1.15.1 Length = 80

 Score = 44.5 bits (105), Expect = 6e-07
 Identities = 10/30 (33%), Positives = 18/30 (60%)

Query: 142 SHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
              ++  +L + +AQ+ EV  IM  N++KV
Sbjct: 9   QPVQQSKRLQQTQAQVEEVVDIMRVNVDKV 38

>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

 Score = 42.8 bits (101), Expect = 2e-06
 Identities = 12/24 (50%), Positives = 18/24 (75%)

Query: 148 SKLSKLKAQITEVKGIMMDNIEKV 171
           S+ ++L+A+I +  GIM DNI KV
Sbjct: 2   SRTAELQAEIDDTVGIMRDNINKV 25

>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

 Score = 42.0 bits (99), Expect = 3e-06
 Identities = 10/24 (41%), Positives = 16/24 (66%)

Query: 148 SKLSKLKAQITEVKGIMMDNIEKV 171
            +L + +AQ+ EV  IM  N++KV
Sbjct: 4   RRLQQTQAQVDEVVDIMRVNVDKV 27

>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

 Score = 40.2 bits (94), Expect = 2e-05
 Identities = 10/30 (33%), Positives = 16/30 (53%)

Query: 142 SHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
           S      K+  ++ Q+ EV  +M +NI KV
Sbjct: 2   SMGPRNDKIKHVQNQVDEVIDVMQENITKV 31

>1gl2_A Endobrevin; membrane protein, membrane fusion protein complex, coiled coil, transmembrane; 1.9A {Rattus norvegicus} SCOP: h.1.15.1 Length = 65

 Score = 39.4 bits (92), Expect = 3e-05
 Identities = 7/24 (29%), Positives = 16/24 (66%)

Query: 148 SKLSKLKAQITEVKGIMMDNIEKV 171
            ++  L++++  VK IM  N+E++
Sbjct: 9   DRVRNLQSEVEGVKNIMTQNVERI 32

>1sfc_A VAMP 2, protein (synaptobrevin 2); membrane fusion protein complex, transport protein; 2.40A {Rattus norvegicus} SCOP: h.1.15.1 Length = 96

 Score = 40.1 bits (93), Expect = 3e-05
 Identities = 13/50 (26%), Positives = 19/50 (38%), Gaps = 6/50 (12%)

Query: 122 AYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
                 E GP                 +L + +AQ+ EV  IM  N++KV
Sbjct: 10  PAAPAGEGGPPAPPPN------LTSNRRLQQTQAQVDEVVDIMRVNVDKV 53

>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

 Score = 39.9 bits (93), Expect = 4e-05
 Identities = 11/27 (40%), Positives = 17/27 (62%)

Query: 145 EEMSKLSKLKAQITEVKGIMMDNIEKV 171
             M +L + +AQ+ EV  IM  N++KV
Sbjct: 2   SHMRRLQQTQAQVDEVVDIMRVNVDKV 28

>2kog_A Vesicle-associated membrane protein 2; synaptobrevin, VAMP2, DPC micelle, snare, coiled coil, membrane fusion, transmembrane; NMR {Rattus norvegicus} Length = 119

 Score = 40.1 bits (93), Expect = 6e-05
 Identities = 13/50 (26%), Positives = 19/50 (38%), Gaps = 6/50 (12%)

Query: 122 AYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
                 E GP                 +L + +AQ+ EV  IM  N++KV
Sbjct: 13  PAAPAGEGGPPAPPPN------LTSNRRLQQTQAQVDEVVDIMRVNVDKV 56

>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 Length = 185

 Score = 37.8 bits (87), Expect = 8e-04
 Identities = 33/159 (20%), Positives = 61/159 (38%), Gaps = 12/159 (7%)

Query: 9   SFVSKGTVVLAEHTSYSGNFSTIAIQCLQK---LPASSSKYTYSCDGHTFNFLLDS--GF 63
           +  SKG +VL      S + +   +  L +   L       +++ +  T  + LD+    
Sbjct: 15  TIFSKGGLVLWCFQGVSDSCTGP-VNALIRSVLLQERGGNNSFTHEALTLKYKLDNQFEL 73

Query: 64  VFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFSIAY 123
           VF+V   + +  +     ++ V   F+ +Y   IQ + +  L +   D   F++ F    
Sbjct: 74  VFVVGFQKILTLTYVDKLIDDVHRLFRDKYRTEIQQQSALSLLNGTFD---FQNDFL--- 127

Query: 124 NLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKG 162
            L RE     K      M   E+  K  K    + E +G
Sbjct: 128 RLLREAEESSKIRAPTTMKKFEDSEKAKKPVRSMIETRG 166

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	192
4b93_A	189	Vesicle-associated membrane protein 7; endocytosis	100.0
2nut_C	196	Vesicle-trafficking protein SEC22B; human copii SE	100.0
4afi_A	173	AP-3 complex subunit delta-1, vesicle-associated p	100.0
2vx8_A	169	Nucleoporin-like protein RIP, vesicle-associated m	99.97
3kyq_A	199	YKT6, synaptobrevin homolog YKT6; V-snare homolog,	99.96
3bw6_A	144	Synaptobrevin homolog YKT6; YKT6P, farnesylation,	99.94
1gl2_A	65	Endobrevin; membrane protein, membrane fusion prot	98.45
2nps_A	74	VAMP-4, vesicle-associated membrane protein 4; ves	98.34
1n7s_A	63	Vesicle-associated membrane protein 2; neuronal sn	98.32
1l4a_A	80	Synaptobrevin; snare, snare complex, membrane fusi	98.3
3b5n_A	61	Synaptobrevin homolog 1; snare complex, syntaxin,	98.24
1sfc_A	96	VAMP 2, protein (synaptobrevin 2); membrane fusion	98.1
3hd7_A	91	Vesicle-associated membrane protein 2; membrane pr	98.08
2kog_A	119	Vesicle-associated membrane protein 2; synaptobrev	97.77
3fie_C	38	Fragment of vesicle-associated membrane protein 2;	97.77
3zym_A	310	Phosphatidylinositol-binding clathrin assembly PR	97.66
1urq_A	63	M-tomosyn isoform; transport protein, tomosyn-snar	97.4
2fh5_A	185	Signal recognition particle receptor alpha subunit	97.2
3tjz_C	153	Coatomer subunit zeta-1; protein trafficking, golg	91.48
2vgl_S	142	AP-2 complex subunit sigma-1; cytoplasmic vesicle,	89.41
1w63_Q	158	Adapter-related protein complex 1 sigma 1A subunit	89.28
1w63_M	423	Adaptor-related protein complex 1, MU 1 subunit; e	88.52
2vgl_M	435	AP-2 complex subunit MU-1; cytoplasmic vesicle, al	82.42

>4b93_A Vesicle-associated membrane protein 7; endocytosis, exocytosis, snare; 2.00A {Mus musculus} PDB: 2dmw_A

Probab=100.00  E-value=3e-44  Score=294.00  Aligned_cols=150  Identities=31%  Similarity=0.555  Sum_probs=133.7

Q ss_pred             ccEEEEEEEeCCeeeeeeecCcccHHHHHHHHHhcCCCCCCeeEEEECCeEEEEEeeCCEEEEEEecCCCCcccHHHHHH
Q 029478            4 KGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFVFLVVADESVGRSVPFVFLE   83 (192)
Q Consensus         4 m~I~Ya~Var~~~iLae~~~~~~nf~~ia~~iL~ki~~~~~k~s~~~~~~~fh~l~~~gl~ylcitd~~yp~rvaF~fL~   83 (192)
                      |||+|||||||++|||||+..+|||..+|+++|+++|+.++|.++++|+|+|||++++|++|+||||++||+|+||.||+
T Consensus         2 M~ilYa~VArg~~iLae~t~~~gnf~~ia~~iL~kip~~~~k~s~~~~~y~fHyl~~~gl~yl~i~d~~yp~r~af~fL~   81 (189)
T 4b93_A            2 MAILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIVYLCITDDDFERSRAFSFLN   81 (189)
T ss_dssp             CSEEEEEEEETTEEEEEEESSEECHHHHHHHHHTTCCSSSEEEEEEETTEEEEEEEETTEEEEEEEETTSCHHHHHHHHH
T ss_pred             CceEEEEEEeCCEEEEeCCCCCCCHHHHHHHHHHhCCCCCCeEEEEECCEEEEEEEeCCeEEEEEEcCccCHHHHHHHHH
Confidence            89999999999999999999999999999999999999889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhhccccccccCCCCCCCCCCchhhhhhhhhccccccchhHHHHHHHHHhcCCchhhhHHHHHHHHHHHHHHH
Q 029478           84 RVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFSIAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGI  163 (192)
Q Consensus        84 ei~~~F~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~i~~~~~~~F~~~Lk~lm~~yn~~p~~~Dkl~klq~ei~eVk~I  163 (192)
                      +|+++|.+.|+.++.++.+++                    ++.+|.+.|+++|++|+ +|.+.|+|.+++++|+|||+|
T Consensus        82 ~i~~eF~~~~~~~~~~~~~~~--------------------~~~~f~~~l~~~~~~y~-d~~~~d~l~~~~~~l~ev~~i  140 (189)
T 4b93_A           82 EVKKRFQTTYGSRAQTALPYA--------------------MNSEFSSVLAAQLKHHS-ENKSLDKVMETQAQVDELKGI  140 (189)
T ss_dssp             HHHHHHHHHHGGGGGTCCTTT--------------------THHHHHHHHHHHHHHHH-CC-------CCHHHHHTTTTC
T ss_pred             HHHHHHHhhccccccccCCcc--------------------ccchhhHHHHHHHHhhh-cccchhhHHHHHHHHHHHHHH
Confidence            999999999988766554333                    36789999999999996 677779999999999999999


Q ss_pred             HHHhHHHHHHH
Q 029478          164 MMDNIEKVRVF  174 (192)
Q Consensus       164 M~~NIdkiL~~  174 (192)
                      |++|||+||++
T Consensus       141 m~~Ni~~vl~R  151 (189)
T 4b93_A          141 MVRNIDLVAQR  151 (189)
T ss_dssp             CEECCCCBCTT
T ss_pred             HHHHHHHHHHh
Confidence            99999999875

>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

Probab=100.00  E-value=7e-37  Score=250.91  Aligned_cols=149  Identities=21%  Similarity=0.451  Sum_probs=113.8

Q ss_pred             cEEEEEEEeC--CeeeeeeecCc---cc----HHHHHHHHHhcCCC-CCCeeEEEECCeEEEEEeeCCEEEEEEecCCCC
Q 029478            5 GLIYSFVSKG--TVVLAEHTSYS---GN----FSTIAIQCLQKLPA-SSSKYTYSCDGHTFNFLLDSGFVFLVVADESVG   74 (192)
Q Consensus         5 ~I~Ya~Var~--~~iLae~~~~~---~n----f~~ia~~iL~ki~~-~~~k~s~~~~~~~fh~l~~~gl~ylcitd~~yp   74 (192)
                      ||+|++|||+  .+|||++++.+   |+    |.++++.+++++|+ .++|.+++.++|+|||+.++|++|+||||++||
T Consensus         2 Mi~ya~IaR~~d~~iLa~~~d~~~~~~~~~~~~~~~a~~il~ki~~~~~~r~s~~~~~y~fhy~~~~gl~~l~i~d~~yp   81 (196)
T 2nut_C            2 MVLLTMIARVADGLPLAASMQEDEQSGRDLQQYQSQAKQLFRKLNEQSPTRCTLEAGAMTFHYIIEQGVCYLVLCEAAFP   81 (196)
T ss_dssp             CCCCEEEEETTTCCEEEEECCCC-----CHHHHHHHHHHHHHHCCTTSCSEEEEEETTEEEEEEEETTEEEEEEEETTSC
T ss_pred             ceEEEEEEEcCCCcEEEEeecccccccccHHHHHHHHHHHHHhcCCCCCCeEEEEeCCEEEEEEeCCCeEEEEEEcCCcc
Confidence            7999999999  79999998643   44    89999999999997 578999999999999999999999999999999


Q ss_pred             cccHHHHHHHHHHHHHhhhccccccccCCCCCCCCCCchhhhhhhhhccccccchhHHHHHHHHHhcCCchhhhHHHHHH
Q 029478           75 RSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFSIAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLK  154 (192)
Q Consensus        75 ~rvaF~fL~ei~~~F~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~i~~~~~~~F~~~Lk~lm~~yn~~p~~~Dkl~klq  154 (192)
                      +++||.||++|+++|...|+..+.+ ...|+                  ++ .+|.+.|+++|++|| +|.+.|+|.+++
T Consensus        82 ~r~af~fL~~i~~~F~~~~~~~~~~-~~~~~------------------~~-~~f~~~l~~~~~~y~-~~~~~d~l~~~~  140 (196)
T 2nut_C           82 KKLAFAYLEDLHSEFDEQHGKKVPT-VSRPY------------------SF-IEFDTFIQKTKKLYI-DSRARRNLGSIN  140 (196)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTTTTT-CCSTT------------------TT-GGGHHHHHHHHTTTS-CCC---------
T ss_pred             hHHHHHHHHHHHHHHHHhccchhcc-ccCCC------------------ch-HHHHHHHHHHHHHhc-CccchhHHHHHH
Confidence            9999999999999999999865432 22333                  33 489999999999995 787789999999


Q ss_pred             HHHHHHHHHHHHhHHHHHHH
Q 029478          155 AQITEVKGIMMDNIEKVRVF  174 (192)
Q Consensus       155 ~ei~eVk~IM~~NIdkiL~~  174 (192)
                      .+|+|||+||++||++||++
T Consensus       141 ~~l~ev~~im~~ni~~vl~R  160 (196)
T 2nut_C          141 TELQDVQRIMVANIEEVLQR  160 (196)
T ss_dssp             --------CCEEEHHHHC--
T ss_pred             HHHHHHHHHHHHHHHHHHHc
Confidence            99999999999999999986

>4afi_A AP-3 complex subunit delta-1, vesicle-associated protein 7; endocytosis, exocytosis, clathrin adaptor, chimera, fusion P; 2.80A {Homo sapiens}

Probab=100.00  E-value=9.9e-35  Score=235.10  Aligned_cols=119  Identities=30%  Similarity=0.590  Sum_probs=110.8

Q ss_pred             ccEEEEEEEeCCeeeeeeecCcccHHHHHHHHHhcCCCCCCeeEEEECCeEEEEEeeCCEEEEEEecCCCCcccHHHHHH
Q 029478            4 KGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFVFLVVADESVGRSVPFVFLE   83 (192)
Q Consensus         4 m~I~Ya~Var~~~iLae~~~~~~nf~~ia~~iL~ki~~~~~k~s~~~~~~~fh~l~~~gl~ylcitd~~yp~rvaF~fL~   83 (192)
                      |+|+|||||||++|||||+..+|||..+|+++|+|+|+.++|.+++.++|+|||++++|++|+||||++||+++||+||+
T Consensus        54 M~I~Ya~VArg~tiLAE~t~~~gnf~~va~~iL~kip~~~~r~t~~~~~y~fHyl~~dgl~yl~i~D~~~~rr~aF~FLe  133 (173)
T 4afi_A           54 MAILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIVYLCITDDDFERSRAFSFLN  133 (173)
T ss_dssp             CCEEEEEEEETTEEEEEEESSCCCHHHHHHHHHTTSCSSSEEEEEEETTEEEEEEEETTEEEEEEEETTSCHHHHHHHHH
T ss_pred             ccEEEEEEECCCEEEEEccCCCCCHHHHHHHHHHhCCCCCCeEEEEECCEEEEEEEECCEEEEEEECCccChhHHHHHHH
Confidence            68999999999999999999999999999999999999888999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhhccccccccCCCCCCCCCCchhhhhhhhhccccccchhHHHHHHHHHhcC
Q 029478           84 RVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFSIAYNLDREFGPRLKEHMQYCMS  142 (192)
Q Consensus        84 ei~~~F~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~i~~~~~~~F~~~Lk~lm~~yn~  142 (192)
                      +|+++|.++|+.++.++.+                    |+++.+|++.|+++|++||+
T Consensus       134 dI~~eF~~~yg~~~~ta~p--------------------ya~~~eF~~~L~~~M~~yn~  172 (173)
T 4afi_A          134 EVKKRFQTTYGSRAQTALP--------------------YAMNSEFSSVLAAQLKHHSE  172 (173)
T ss_dssp             HHHHHHHHHHGGGGGTCCT--------------------TTTHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhchhhhhccC--------------------cchhHHHHHHHHHHHHHhcC
Confidence            9999999999876654433                    45588999999999999984

>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

Probab=99.97  E-value=2e-30  Score=209.09  Aligned_cols=121  Identities=31%  Similarity=0.603  Sum_probs=104.8

Q ss_pred             CccEEEEEEEeCCeeeeeeecCcccHHHHHHHHHhcCCCCCCeeEEEECCeEEEEEeeCCEEEEEEecCCCCcccHHHHH
Q 029478            3 QKGLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFVFLVVADESVGRSVPFVFL   82 (192)
Q Consensus         3 qm~I~Ya~Var~~~iLae~~~~~~nf~~ia~~iL~ki~~~~~k~s~~~~~~~fh~l~~~gl~ylcitd~~yp~rvaF~fL   82 (192)
                      +|+|+|++|+||++|||||++.++||..+++++++|+++.++|.+++.++|+|||++++|++|+||||++||+++||.||
T Consensus        43 ~M~ilYa~VaRG~~VLae~t~~~gnf~~iak~ll~kl~~~~~r~s~~~~~y~fHyl~~ngl~yl~I~D~~yp~r~AF~fL  122 (169)
T 2vx8_A           43 GMAILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIVYLCITDDDFERSRAFSFL  122 (169)
T ss_dssp             SSCCCEEEEEETTEEEEEEESSCBSHHHHHHHHHTTSCSSCEEEEEEETTEEEEEEEETTEEEEEEEETTSCHHHHHHHH
T ss_pred             CCceEEEEEEcCCEEEEEeccCCCCHHHHHHHHHhhCCCCCCceEEEECCEEEEEEEECCEEEEEEEccccchHHHHHHH
Confidence            48999999999999999999999999999999999999977899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhccccccccCCCCCCCCCCchhhhhhhhhccccccchhHHHHHHHHHhcCC
Q 029478           83 ERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFSIAYNLDREFGPRLKEHMQYCMSH  143 (192)
Q Consensus        83 ~ei~~~F~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~i~~~~~~~F~~~Lk~lm~~yn~~  143 (192)
                      ++|+++|.++|+..+.++  .|                  |+++.+|.+.|++.|++||++
T Consensus       123 edI~~eF~~~y~~~~~~a--~p------------------ysf~~eF~~~Lk~~~~~~~~~  163 (169)
T 2vx8_A          123 NEVKKRFQTTYGSRAQTA--LP------------------YAMNSEFSSVLAAQLKHHSEN  163 (169)
T ss_dssp             HHHHHHHHHHHTTGGGTC--CT------------------TTTHHHHHHHHSCC-------
T ss_pred             HHHHHHHHHHhhhhhhcc--CC------------------cchhHHHHHHHHHHHHHhcCc
Confidence            999999999998765443  23                  334679999999999999754

>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}

Probab=99.96  E-value=5.2e-31  Score=217.44  Aligned_cols=147  Identities=20%  Similarity=0.240  Sum_probs=123.8

Q ss_pred             CccEEEEEEEeCC----eeeeeeecCc----------ccHHH-HHHHHHhcCCCCCCeeEEEECCeEEE-EEeeCCEEEE
Q 029478            3 QKGLIYSFVSKGT----VVLAEHTSYS----------GNFST-IAIQCLQKLPASSSKYTYSCDGHTFN-FLLDSGFVFL   66 (192)
Q Consensus         3 qm~I~Ya~Var~~----~iLae~~~~~----------~nf~~-ia~~iL~ki~~~~~k~s~~~~~~~fh-~l~~~gl~yl   66 (192)
                      +|.|++-+|.+..    ++|+...+.+          ++|.. +++.+++|+++ ++|.++++++|.|| |+.++|++|+
T Consensus         1 ~mk~~~~~v~~~~~~~~~~l~~~~dlssf~~f~r~sv~ef~~f~~r~il~r~~~-~~r~s~~~~~y~fH~y~~~~gl~yl   79 (199)
T 3kyq_A            1 LMKLYSLSVFYKGEPKAVLLKAAYDVSSFSFFQRSSVQEFMTFTSQLIVERSAK-GSRASVKEQEYLCHVYVRSDSLAGV   79 (199)
T ss_dssp             CCCEEEEEEEEECSSCEEEEEEEECCTTSCTTTHHHHHHHHHHHHHHHHHTSCT-TEEEEEECSSEEEEEEECTTSEEEE
T ss_pred             CceEEEEEEEEcCCCCceEEeeecccccccceehHhHHHHHHHHHHHHHhcCCC-CCeEEEEeCCEEEEEEEecCCEEEE
Confidence            5778898998853    5777665532          56776 56799999988 57999999999999 8999999999


Q ss_pred             EEecCCCCcccHHHHHHHHHHHHHhhhccccc-cccCCCCCCCCCCchhhhhhhhhccccccchhHHHHHHHHHhcCCch
Q 029478           67 VVADESVGRSVPFVFLERVKDDFKQRYGASIQ-NEESHPLADDDEDDDLFEDRFSIAYNLDREFGPRLKEHMQYCMSHPE  145 (192)
Q Consensus        67 citd~~yp~rvaF~fL~ei~~~F~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~~~i~~~~~~~F~~~Lk~lm~~yn~~p~  145 (192)
                      ||||++||+|+||.||++|+++|.+.|+...+ .....|+                      .| +.|+++|++|| ||.
T Consensus        80 ~itd~~yp~r~AF~fL~ei~~eF~~~~~~~~~~~~~~~~~----------------------~f-~~l~~~m~~Y~-dp~  135 (199)
T 3kyq_A           80 VIADSEYPSRVAFTLLEKVLDEFSKQVDRIDWPVGSPATI----------------------HY-TALDGHLSRYQ-NPR  135 (199)
T ss_dssp             EEEETTSCHHHHHHHHHHHHHHHHHHSCGGGSTTCCTTTC----------------------CC-CTHHHHHHHTT-SGG
T ss_pred             EEECCCCCHHHHHHHHHHHHHHHHHhccchhhhccccccc----------------------cc-HHHHHHHHHhC-Cch
Confidence            99999999999999999999999999985433 2222332                      35 68999998895 898


Q ss_pred             hhhHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 029478          146 EMSKLSKLKAQITEVKGIMMDNIEKVRVF  174 (192)
Q Consensus       146 ~~Dkl~klq~ei~eVk~IM~~NIdkiL~~  174 (192)
                      ++|+|.++|.||+|||+||++|||++|+|
T Consensus       136 ~~d~l~~~q~el~evk~iM~~NI~~vl~R  164 (199)
T 3kyq_A          136 EADPMSKVQAELDETKIILHNTMESLLER  164 (199)
T ss_dssp             GCCCCHHHHHHHHTCCCEEESSGGGTSCT
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            88999999999999999999999999874

>3bw6_A Synaptobrevin homolog YKT6; YKT6P, farnesylation, vacuole fusion, snare, coiled coil, lipoprotein, membrane, phosphoprotein; 2.50A {Saccharomyces cerevisiae} PDB: 1h8m_A 1iou_A

Probab=99.94  E-value=2e-26  Score=180.97  Aligned_cols=124  Identities=12%  Similarity=0.164  Sum_probs=98.5

Q ss_pred             ccEEEEEEEeC----CeeeeeeecCc----------ccH-HHHHHHHHhcCCCCCCeeEEEECCeEEEEE-eeCCEEEEE
Q 029478            4 KGLIYSFVSKG----TVVLAEHTSYS----------GNF-STIAIQCLQKLPASSSKYTYSCDGHTFNFL-LDSGFVFLV   67 (192)
Q Consensus         4 m~I~Ya~Var~----~~iLae~~~~~----------~nf-~~ia~~iL~ki~~~~~k~s~~~~~~~fh~l-~~~gl~ylc   67 (192)
                      |.|+|.+|+|+    .++|+++++.+          ++| ..++++|++|+|++ +|.++++++|+|||+ .++|++|+|
T Consensus         5 Mkl~~~~v~r~~~~~~~~L~~~~d~s~f~ffqr~sv~ef~~~~ar~i~~r~~~~-~R~sv~~~~y~fH~~~~~~gl~~l~   83 (144)
T 3bw6_A            5 MRIYYIGVFRSGGEKALELSEVKDLSQFGFFERSSVGQFMTFFAETVASRTGAG-QRQSIEEGNYIGHVYARSEGICGVL   83 (144)
T ss_dssp             CCEEEEEEEECCSSSCEEEEEEECCTTSCTTTTTHHHHHHHHHHHHHHHHCCTT-EEEEEEETTEEEEEEECTTSEEEEE
T ss_pred             EEEEEEEEEecCCCCCeEeEeeecccccChhhhhhHHHHHHHHHHHHHhhCCCC-ceEEEEeCCEEEEEEEecCCEEEEE
Confidence            45777779998    58999999866          666 67999999999995 899999999999999 889999999


Q ss_pred             EecCCCCcccHHHHHHHHHHHHHhhhccccccccCCCCCCCCCCchhhhhhhhhccccccchhHHHHHHHHHhcCCchhh
Q 029478           68 VADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFSIAYNLDREFGPRLKEHMQYCMSHPEEM  147 (192)
Q Consensus        68 itd~~yp~rvaF~fL~ei~~~F~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~i~~~~~~~F~~~Lk~lm~~yn~~p~~~  147 (192)
                      |||++||+|+||.||++|+++|.++|+...+.....+.                  + ...| +.|++.|++| |||.++
T Consensus        84 i~D~~yp~rvAF~~L~~i~~eF~~~y~~~~~~~~~~~~------------------~-~~~f-~~l~~~i~kY-qdp~~a  142 (144)
T 3bw6_A           84 ITDKEYPVRPAYTLLNKILDEYLVAHPKEEWADVTETN------------------D-ALKM-KQLDTYISKY-QDPSQA  142 (144)
T ss_dssp             EEETTSCHHHHHHHHHHHHHHHHHHSCGGGTTTCSSCC------------------G-GGCC-THHHHHHHHT-SCC---
T ss_pred             EECCCCChhHHHHHHHHHHHHHHHHccchhhhhccccc------------------C-Ccch-HHHHHHHHHh-Cchhhc
Confidence            99999999999999999999999999876232222211                  0 1245 7899999889 689887


Q ss_pred             hH
Q 029478          148 SK  149 (192)
Q Consensus       148 Dk  149 (192)
                      |+
T Consensus       143 D~  144 (144)
T 3bw6_A          143 DA  144 (144)
T ss_dssp             --
T ss_pred             CC
Confidence            75

>1gl2_A Endobrevin; membrane protein, membrane fusion protein complex, coiled coil, transmembrane; 1.9A {Rattus norvegicus} SCOP: h.1.15.1

Probab=98.45  E-value=1.2e-07  Score=64.63  Aligned_cols=32  Identities=22%  Similarity=0.405  Sum_probs=25.4

Q ss_pred             CchhhhHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 029478          143 HPEEMSKLSKLKAQITEVKGIMMDNIEKVRVF  174 (192)
Q Consensus       143 ~p~~~Dkl~klq~ei~eVk~IM~~NIdkiL~~  174 (192)
                      +|.+.|+|.+++.+|+||+.||++||++||++
T Consensus         4 ~~~~~d~l~~vq~~l~evk~iM~~NI~~vL~R   35 (65)
T 1gl2_A            4 MSAGNDRVRNLQSEVEGVKNIMTQNVERILAR   35 (65)
T ss_dssp             ------CHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CchhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45567999999999999999999999999985

>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}

Probab=98.34  E-value=1.4e-07  Score=65.79  Aligned_cols=32  Identities=28%  Similarity=0.332  Sum_probs=27.8

Q ss_pred             CchhhhHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 029478          143 HPEEMSKLSKLKAQITEVKGIMMDNIEKVRVF  174 (192)
Q Consensus       143 ~p~~~Dkl~klq~ei~eVk~IM~~NIdkiL~~  174 (192)
                      +|.+.|+|.+++.+|+||++||++||++||++
T Consensus         3 ~~~~~d~l~~vq~el~ev~~iM~~NI~~vL~R   34 (74)
T 2nps_A            3 MGPRNDKIKHVQNQVDEVIDVMQENITKVIER   34 (74)
T ss_dssp             ---CCSSSHHHHTTHHHHHHHHHHHHHHHHHH
T ss_pred             CchhhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            56667999999999999999999999999996

>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

Probab=98.32  E-value=5.4e-07  Score=60.79  Aligned_cols=28  Identities=36%  Similarity=0.387  Sum_probs=26.7

Q ss_pred             hhHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 029478          147 MSKLSKLKAQITEVKGIMMDNIEKVRVF  174 (192)
Q Consensus       147 ~Dkl~klq~ei~eVk~IM~~NIdkiL~~  174 (192)
                      .|+|.+++.+|++|++||++||++||++
T Consensus         3 ~d~l~~v~~~l~ev~~iM~~NI~~vl~R   30 (63)
T 1n7s_A            3 NRRLQQTQAQVDEVVDIMRVNVDKVLER   30 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4999999999999999999999999986

>1l4a_A Synaptobrevin; snare, snare complex, membrane fusion, neurotransmission, endocytosis/exocytosis complex; 2.95A {Loligo pealei} SCOP: h.1.15.1

Probab=98.30  E-value=5.1e-07  Score=63.82  Aligned_cols=32  Identities=31%  Similarity=0.355  Sum_probs=29.3

Q ss_pred             CchhhhHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 029478          143 HPEEMSKLSKLKAQITEVKGIMMDNIEKVRVF  174 (192)
Q Consensus       143 ~p~~~Dkl~klq~ei~eVk~IM~~NIdkiL~~  174 (192)
                      +|.+.|+|.+++.+|+||++||++||++||++
T Consensus        10 ~~~~~d~l~~vq~el~ev~~iM~~NI~~vLeR   41 (80)
T 1l4a_A           10 PVQQSKRLQQTQAQVEEVVDIMRVNVDKVLER   41 (80)
T ss_dssp             CCCCSCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcccccHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            45566999999999999999999999999996

>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

Probab=98.24  E-value=1e-06  Score=59.19  Aligned_cols=27  Identities=44%  Similarity=0.593  Sum_probs=26.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 029478          148 SKLSKLKAQITEVKGIMMDNIEKVRVF  174 (192)
Q Consensus       148 Dkl~klq~ei~eVk~IM~~NIdkiL~~  174 (192)
                      |+|.+++.+|+||++||++||++||++
T Consensus         2 d~l~~vq~~l~evk~iM~~NI~~vl~R   28 (61)
T 3b5n_A            2 SRTAELQAEIDDTVGIMRDNINKVAER   28 (61)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            799999999999999999999999985

>1sfc_A VAMP 2, protein (synaptobrevin 2); membrane fusion protein complex, transport protein; 2.40A {Rattus norvegicus} SCOP: h.1.15.1

Probab=98.10  E-value=2.7e-06  Score=62.16  Aligned_cols=29  Identities=34%  Similarity=0.376  Sum_probs=27.3

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 029478          146 EMSKLSKLKAQITEVKGIMMDNIEKVRVF  174 (192)
Q Consensus       146 ~~Dkl~klq~ei~eVk~IM~~NIdkiL~~  174 (192)
                      +.|+|.+++.+|+||++||++||++||++
T Consensus        28 ~~d~l~~vq~eldeVk~IM~~NI~kvLeR   56 (96)
T 1sfc_A           28 SNRRLQQTQAQVDEVVDIMRVNVDKVLER   56 (96)
T ss_dssp             CSHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            35999999999999999999999999996

>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

Probab=98.08  E-value=3e-06  Score=61.25  Aligned_cols=28  Identities=39%  Similarity=0.464  Sum_probs=26.7

Q ss_pred             hhHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 029478          147 MSKLSKLKAQITEVKGIMMDNIEKVRVF  174 (192)
Q Consensus       147 ~Dkl~klq~ei~eVk~IM~~NIdkiL~~  174 (192)
                      .|++.++|+||+||++||++|||++|++
T Consensus         4 ~d~l~~vq~ev~evk~iM~~NI~kvL~R   31 (91)
T 3hd7_A            4 MRRLQQTQAQVDEVVDIMRVNVDKVLER   31 (91)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            4999999999999999999999999986

>2kog_A Vesicle-associated membrane protein 2; synaptobrevin, VAMP2, DPC micelle, snare, coiled coil, membrane fusion, transmembrane; NMR {Rattus norvegicus}

Probab=97.77  E-value=5.7e-06  Score=62.66  Aligned_cols=29  Identities=34%  Similarity=0.376  Sum_probs=27.0

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 029478          146 EMSKLSKLKAQITEVKGIMMDNIEKVRVF  174 (192)
Q Consensus       146 ~~Dkl~klq~ei~eVk~IM~~NIdkiL~~  174 (192)
                      +.|+|.++|.||+||++||++||+++|+|
T Consensus        31 ~~d~l~~vq~evdeVk~IM~~NIdkvLeR   59 (119)
T 2kog_A           31 SNRRLQQTQAQVDEVVDIMRVNVDKVLER   59 (119)
T ss_dssp             SCSHHHHSSHHHHHHHHHHHHHHHHHHCC
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            45999999999999999999999999975

>3fie_C Fragment of vesicle-associated membrane protein 2; BONT F, VAMP, inhibitor, complex structure, acetylation, cell junction, hydrolase; 2.10A {Clostridium botulinum}

Probab=97.77  E-value=1.3e-08  Score=62.51  Aligned_cols=29  Identities=34%  Similarity=0.376  Sum_probs=26.5

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 029478          146 EMSKLSKLKAQITEVKGIMMDNIEKVRVF  174 (192)
Q Consensus       146 ~~Dkl~klq~ei~eVk~IM~~NIdkiL~~  174 (192)
                      +.|++.++|.||+||++||++||+++|+|
T Consensus         7 ~~d~l~~vq~qvdeVk~IM~~NIdkvLeR   35 (38)
T 3fie_C            7 SNRRLQQTQAQVDEVVDIMRVNVDKVLER   35 (38)
T ss_dssp             CCCSSCEESCCCCCSCCCCTTTHHHHSCC
T ss_pred             chhHHHHHHHHHHHHHHHHHHhHHHHHHc
Confidence            34899999999999999999999999874

>3zym_A Phosphatidylinositol-binding clathrin assembly PR vesicle-associated membrane protein...; endocytosis, synaptobrevin, VAMP2, VAMP3, AP180; HET: PO4; 2.03A {Rattus norvegicus}

Probab=97.66  E-value=1.5e-05  Score=69.19  Aligned_cols=49  Identities=20%  Similarity=0.387  Sum_probs=31.9

Q ss_pred             ccchhHHHHHHHHHhcC--------------CchhhhHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 029478          126 DREFGPRLKEHMQYCMS--------------HPEEMSKLSKLKAQITEVKGIMMDNIEKVRVF  174 (192)
Q Consensus       126 ~~~F~~~Lk~lm~~yn~--------------~p~~~Dkl~klq~ei~eVk~IM~~NIdkiL~~  174 (192)
                      ...|..+..++.++|..              .+...|++.++|+||+||++||++|||++|++
T Consensus       244 ykrf~~Q~e~L~~Fy~~ck~l~l~~~~iP~L~~~p~d~l~~lq~~i~ev~~im~~ni~~vl~r  306 (310)
T 3zym_A          244 YKKFLTRMTRISEFLKVAEQVGIDRGDISGSGSGHMDRVRNLQSEVEGVKNIMTQNVERILAR  306 (310)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTC------------------CHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCCCCCCCCCCcccchHHHHHHHHHHHHHHHHHHhHHHHHhc
Confidence            34566666666666531              01234899999999999999999999999986

>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

Probab=97.40  E-value=0.00011  Score=49.70  Aligned_cols=29  Identities=10%  Similarity=-0.026  Sum_probs=25.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 029478          148 SKLSKLKAQITEVKGIMMDNIEKVRVFFL  176 (192)
Q Consensus       148 Dkl~klq~ei~eVk~IM~~NIdkiL~~~~  176 (192)
                      .+|.+++.++++|++||.+||++|+++--
T Consensus         4 ~~i~~v~~qv~ev~~iM~~ni~kvlERGe   32 (63)
T 1urq_A            4 GGIEGVKGAASGVVGELARARLALDERGQ   32 (63)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            48899999999999999999999999753

>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

Probab=97.20  E-value=0.00069  Score=54.84  Aligned_cols=88  Identities=18%  Similarity=0.308  Sum_probs=63.7

Q ss_pred             EEEEEEeCCeeeeeeecCcc----cHHHHHHHHHhcCCCCCCeeEEEECCeEEEEEeeC--CEEEEEEecCCCCcccHHH
Q 029478            7 IYSFVSKGTVVLAEHTSYSG----NFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDS--GFVFLVVADESVGRSVPFV   80 (192)
Q Consensus         7 ~Ya~Var~~~iLae~~~~~~----nf~~ia~~iL~ki~~~~~k~s~~~~~~~fh~l~~~--gl~ylcitd~~yp~rvaF~   80 (192)
                      +.+.+.+|.+||..++....    ....+++.+|=.=..  ...++.+++|..+|..++  |++|+++-.+-.+-.-.=.
T Consensus        13 ~~~IfTkGGvVLWs~~~~~~~~~~~IN~LIr~VlLEER~--~~~~y~~d~ytlkW~l~NEl~LVFVvVYQ~iL~L~YiD~   90 (185)
T 2fh5_A           13 FFTIFSKGGLVLWCFQGVSDSCTGPVNALIRSVLLQERG--GNNSFTHEALTLKYKLDNQFELVFVVGFQKILTLTYVDK   90 (185)
T ss_dssp             EEEEEETTSBEEEEEBTTTBSCCCHHHHHHHHTGGGC---------CCCCCEEEEEEETTTTEEEEEEESCGGGHHHHHH
T ss_pred             EEEEEeCCeEEEEeecCCcccccchHHHHHHHhhhcccc--CCCceeEcCeEEEEEEeccCCEEEEEEEcccccchHHHH
Confidence            57889999999999864332    345566666543222  234688899999999876  8999999877777777778


Q ss_pred             HHHHHHHHHHhhhccc
Q 029478           81 FLERVKDDFKQRYGAS   96 (192)
Q Consensus        81 fL~ei~~~F~~~~~~~   96 (192)
                      ||++++..|...|+..
T Consensus        91 LL~~v~~~Fv~~Y~~~  106 (185)
T 2fh5_A           91 LIDDVHRLFRDKYRTE  106 (185)
T ss_dssp             HHHHHHHHHHHHTHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            9999999999999654

>3tjz_C Coatomer subunit zeta-1; protein trafficking, golgi membrane, protein transport-prote binding complex; HET: GNP; 2.90A {Bos taurus} PDB: 2hf6_A

Probab=91.48  E-value=3.7  Score=31.48  Aligned_cols=88  Identities=11%  Similarity=0.099  Sum_probs=62.6

Q ss_pred             cEEEEEEE--eCCeeeeeeecCc-cc---HHHHHHHHHhcCCCCCCeeEEEECCeEEEEEeeCCEEEEEEecCCCCcccH
Q 029478            5 GLIYSFVS--KGTVVLAEHTSYS-GN---FSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFVFLVVADESVGRSVP   78 (192)
Q Consensus         5 ~I~Ya~Va--r~~~iLae~~~~~-~n---f~~ia~~iL~ki~~~~~k~s~~~~~~~fh~l~~~gl~ylcitd~~yp~rva   78 (192)
                      ||..-+|.  +|.++|+-+-... .+   -..+.+.+.+++.+.+ .-.+..+++.+.|....++.|+++++.+.+.-..
T Consensus        12 mI~~ililn~~Gk~~lsK~Y~~~~~~~~~~~~~e~~i~~~~~r~~-~~i~~~~~~~~vy~~~~~Lyfv~~~~~~eNel~i   90 (153)
T 3tjz_C           12 TVKAILILDNDGDRLFAKYYDDTYPSVKEQKAFEKNIFNKTHRTD-SEIALLEGLTVVYKSSIDLYFYVIGSSYENELML   90 (153)
T ss_dssp             CEEEEEEECTTSCEEEEEECSSSSCSHHHHHHHHHHHHHHHSSCC-CCEEEETTEEEEEEECSSCEEEEEEETTSCHHHH
T ss_pred             HheEEEEECCCCCEEEEEeCCCCCCCHHHHHHHHHHHHHHHhCCC-CCEEEECCEEEEEEEECCEEEEEEEcCCCChHHH
Confidence            45555554  4568888775431 12   1223334444443322 2456778999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhh
Q 029478           79 FVFLERVKDDFKQRY   93 (192)
Q Consensus        79 F~fL~ei~~~F~~~~   93 (192)
                      +.||..+.+-+..-+
T Consensus        91 le~L~~~ve~l~~yf  105 (153)
T 3tjz_C           91 MTVLNCLFDSLSQML  105 (153)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999999999988877

>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

Probab=89.41  E-value=5.3  Score=29.78  Aligned_cols=80  Identities=9%  Similarity=0.113  Sum_probs=56.4

Q ss_pred             eCCeeeeeeec-Cccc----H-HHHHHHHHhcCCCCCCeeEEEECCeEEEEEeeCCEEEEEEecCCCCcccHHHHHHHHH
Q 029478           13 KGTVVLAEHTS-YSGN----F-STIAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFVFLVVADESVGRSVPFVFLERVK   86 (192)
Q Consensus        13 r~~~iLae~~~-~~~n----f-~~ia~~iL~ki~~~~~k~s~~~~~~~fh~l~~~gl~ylcitd~~yp~rvaF~fL~ei~   86 (192)
                      +|.++|+-+-. .++.    + +.+-+.++.+- + ..--.++.+++.+.|...+++.++|+++.+.+.-..+.||..+.
T Consensus        11 ~Gk~~l~k~y~~~~~~~~~~~~~~f~~~v~~~~-~-~~~~~~~~~~~~~vy~~~~~Lyfv~~~~~~~N~l~~le~L~~~v   88 (142)
T 2vgl_S           11 AGKTRLAKWYMQFDDDEKQKLIEEVHAVVTVRD-A-KHTNFVEFRNFKIIYRRYAGLYFCICVDVNDNNLAYLEAIHNFV   88 (142)
T ss_dssp             TSCEEEEEECSCCCHHHHHHHHHHHHHHHHTCC-T-TSCSEEEETTEEEEEEEETTEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCChhhhHHHHHHHHHHHhcCC-C-CCCCEEEECCEEEEEEEECCEEEEEEeCCCCCHHHHHHHHHHHH
Confidence            34577776543 2221    1 22344444331 1 23345677899999988999999999999999999999999999


Q ss_pred             HHHHhhhc
Q 029478           87 DDFKQRYG   94 (192)
Q Consensus        87 ~~F~~~~~   94 (192)
                      +-+..-++
T Consensus        89 e~l~~yf~   96 (142)
T 2vgl_S           89 EVLNEYFH   96 (142)
T ss_dssp             HHHHHHTT
T ss_pred             HHHHHHHc
Confidence            98887765

>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

Probab=89.28  E-value=5  Score=30.64  Aligned_cols=80  Identities=9%  Similarity=0.098  Sum_probs=55.9

Q ss_pred             eCCeeeeeeec-CcccHH-HH----HHHHHhcCCCCCCeeEEEECCeEEEEEeeCCEEEEEEecCCCCcccHHHHHHHHH
Q 029478           13 KGTVVLAEHTS-YSGNFS-TI----AIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFVFLVVADESVGRSVPFVFLERVK   86 (192)
Q Consensus        13 r~~~iLae~~~-~~~nf~-~i----a~~iL~ki~~~~~k~s~~~~~~~fh~l~~~gl~ylcitd~~yp~rvaF~fL~ei~   86 (192)
                      +|.++|+-+-. ....++ .+    .+.+..+ ++ ..--.++.+++.+.|...+++.|+|+++.+.+.-..+.||..+.
T Consensus        11 ~Gk~~lsk~y~~~~~~~~~~~~~~~~~~i~~~-~~-~~~~~i~~~~~~~vy~~~~~Lyfv~~~~~~~Nel~~le~L~~~v   88 (158)
T 1w63_Q           11 QGKLRLQKWYLATSDKERKKMVRELMQVVLAR-KP-KMCSFLEWRDLKVVYKRYASLYFCCAIEGQDNELITLELIHRYV   88 (158)
T ss_dssp             SSCEEEEEESSCCCHHHHHHHHHHHHHHHHTS-CS-SSCSEEEETTEEEEEEEETTEEEEEEECSSSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHHHHhcc-CC-CCCCeEEECCEEEEEEEECCEEEEEEecCCCCHHHHHHHHHHHH
Confidence            34577776543 232222 22    3333333 11 22345677899999998999999999999999999999999999


Q ss_pred             HHHHhhhc
Q 029478           87 DDFKQRYG   94 (192)
Q Consensus        87 ~~F~~~~~   94 (192)
                      +-+..-++
T Consensus        89 evl~~yf~   96 (158)
T 1w63_Q           89 ELLDKYFG   96 (158)
T ss_dssp             HHHHHHHS
T ss_pred             HHHHHHHc
Confidence            88887665

>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

Probab=88.52  E-value=2.9  Score=36.93  Aligned_cols=91  Identities=13%  Similarity=0.195  Sum_probs=62.1

Q ss_pred             ccEEEEEEEe--CCeeeeeeec--Cccc-HHHHHHHHHhcCCCCCCeeEEEECCeEEEEEeeCCEEEEEEecCCCCcccH
Q 029478            4 KGLIYSFVSK--GTVVLAEHTS--YSGN-FSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFVFLVVADESVGRSVP   78 (192)
Q Consensus         4 m~I~Ya~Var--~~~iLae~~~--~~~n-f~~ia~~iL~ki~~~~~k~s~~~~~~~fh~l~~~gl~ylcitd~~yp~rva   78 (192)
                      |||...+|.-  |.++|+-+-.  ...+ .+..-+.++.+......--.++.+++.|.|...+++.|+|+++.+.+.-..
T Consensus         1 mMI~~i~I~~~~Gk~~l~k~y~~~~~~~~~~~f~~~v~~~~~~~~~~~~i~~~~~~~vy~~~~~Lyfv~~~~~~~n~l~~   80 (423)
T 1w63_M            1 MSASAVYVLDLKGKVLICRNYRGDVDMSEVEHFMPILMEKEEEGMLSPILAHGGVRFMWIKHNNLYLVATSKKNACVSLV   80 (423)
T ss_dssp             -CCCEEEEEETTTEECSCBCCSCSCTTTTHHHHHHHHHHHHHTSCCCSEEEETTEEEEEEEETTEEEEEEESSCCCTHHH
T ss_pred             CceEEEEEECCCCCEEEEEecCCCCChHHHHHHHHHHhhccccCCCCCEEEECCEEEEEEEECCEEEEEEecCCCCHHHH
Confidence            5666666654  3466665432  1222 333445555543211223456788999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhc
Q 029478           79 FVFLERVKDDFKQRYG   94 (192)
Q Consensus        79 F~fL~ei~~~F~~~~~   94 (192)
                      +.||..+.+-+..-++
T Consensus        81 le~L~~~v~~l~~yf~   96 (423)
T 1w63_M           81 FSFLYKVVQVFSEYFK   96 (423)
T ss_dssp             HHHHHHHHHHHHHHSS
T ss_pred             HHHHHHHHHHHHHHHh
Confidence            9999999998887664

>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

Probab=82.42  E-value=15  Score=32.41  Aligned_cols=50  Identities=18%  Similarity=0.260  Sum_probs=44.3

Q ss_pred             eeEEEECCeEEEEEeeCCEEEEEEecCCCCcccHHHHHHHHHHHHHhhhc
Q 029478           45 KYTYSCDGHTFNFLLDSGFVFLVVADESVGRSVPFVFLERVKDDFKQRYG   94 (192)
Q Consensus        45 k~s~~~~~~~fh~l~~~gl~ylcitd~~yp~rvaF~fL~ei~~~F~~~~~   94 (192)
                      --.++.+++.|.|...+++.|+|+++.+.+.-..+.||..+.+-+..-++
T Consensus        45 ~~ii~~~~~~~vy~~~~~Lyfv~~~~~~~n~l~~le~L~~~v~vl~~yf~   94 (435)
T 2vgl_M           45 SPVTNIARTSFFHVKRSNIWLAAVTKQNVNAAMVFEFLYKMCDVMAAYFG   94 (435)
T ss_dssp             CSEEEETTEEEEEEEETTEEEEEEESSCCCHHHHHHHHHHHHHHHHHHHS
T ss_pred             CCEEEECCEEEEEEEECCEEEEEEecCCCCHHHHHHHHHHHHHHHHHHHh
Confidence            34567889999999999999999999999999999999999988887765

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	192
d1ifqa_	127	d.110.4.1 (A:) Sec22b {Mouse (Mus musculus) [TaxId	6e-20
d1ioua_	140	d.110.4.1 (A:) Synaptobrevin homolog 1 ykt6 {Baker	9e-08
d2fh5a1	129	d.110.4.4 (A:1-129) Signal recognition particle re	0.001

>d1ifqa_ d.110.4.1 (A:) Sec22b {Mouse (Mus musculus) [TaxId: 10090]} Length = 127

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 = 79.1 bits (195), Expect = 6e-20
 Identities = 18/104 (17%), Positives = 46/104 (44%), Gaps = 10/104 (9%)

Query: 6   LIYSFVSKGT--VVLAEHTSYSGNFST-------IAIQCLQKLPASS-SKYTYSCDGHTF 55
           ++ + +++    + LA                   A Q  +KL   S ++ T      TF
Sbjct: 2   VLLTMIARVADGLPLAASMQEDEQSGRDLQQYQSQAKQLFRKLNEQSPTRCTLEAGAMTF 61

Query: 56  NFLLDSGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQN 99
           +++++ G  +LV+ + +  + + F +LE +  +F +++G  +  
Sbjct: 62  HYIIEQGVCYLVLCEAAFPKKLAFAYLEDLHSEFDEQHGKKVPT 105

>d1ioua_ d.110.4.1 (A:) Synaptobrevin homolog 1 ykt6 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 140

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 = 47.1 bits (112), Expect = 9e-08
 Identities = 12/145 (8%), Positives = 39/145 (26%), Gaps = 31/145 (21%)

Query: 6   LIYSFVSKGTVVLAEHTSYS----------GNFSTIAIQCLQKLPASSSKYTYSCDGHTF 55
            ++    +  + L+E    S          G F T   + +     +  + +     +  
Sbjct: 7   GVFRSGGEKALELSEVKDLSQFGFFERSSVGQFMTFFAETVASRTGAGERQSIEEGNYIG 66

Query: 56  N-FLLDSGFVFLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDL 114
           + +    G   +++ D+       +  L ++ D++   +                     
Sbjct: 67  HVYARSEGICGVLITDKQYPVRPAYTLLNKILDEYLVAHPKEEWA--------------- 111

Query: 115 FEDRFSIAYNLDREFGPRLKEHMQY 139
                 +    D     +L  ++  
Sbjct: 112 -----DVTETNDALKMKQLDTYISK 131

>d2fh5a1 d.110.4.4 (A:1-129) Signal recognition particle receptor alpha subunit, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 129

class: Alpha and beta proteins (a+b)
fold: Profilin-like
superfamily: SNARE-like
family: SRP alpha N-terminal domain-like
domain: Signal recognition particle receptor alpha subunit, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.2 bits (81), Expect = 0.001
 Identities = 23/116 (19%), Positives = 48/116 (41%), Gaps = 9/116 (7%)

Query: 9   SFVSKGTVVLAEHTSYSGNFSTIAIQCLQK---LPASSSKYTYSCDGHTFNFLLDSGFVF 65
           +  SKG +VL      S + +   +  L +   L       +++ +  T  + LD+ F  
Sbjct: 6   TIFSKGGLVLWCFQGVSDSCTGP-VNALIRSVLLQERGGNNSFTHEALTLKYKLDNQFEL 64

Query: 66  LVVADESVGRSVPFV--FLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRF 119
           + V       ++ +V   ++ V   F+ +Y   IQ + +  L +   D   F++ F
Sbjct: 65  VFVVGFQKILTLTYVDKLIDDVHRLFRDKYRTEIQQQSALSLLNGTFD---FQNDF 117

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	192
d1ifqa_	127	Sec22b {Mouse (Mus musculus) [TaxId: 10090]}	99.94
d1ioua_	140	Synaptobrevin homolog 1 ykt6 {Baker's yeast (Sacch	99.87
d2fh5a1	129	Signal recognition particle receptor alpha subunit	97.48
d2vglm2	141	Mu2 adaptin (clathrin coat assembly protein AP50)	95.51
d2vgls_	142	Sigma2 adaptin (clathrin coat assembly protein AP1	94.22

>d1ifqa_ d.110.4.1 (A:) Sec22b {Mouse (Mus musculus) [TaxId: 10090]}

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=99.94  E-value=3.6e-26  Score=174.63  Aligned_cols=116  Identities=18%  Similarity=0.437  Sum_probs=100.8

Q ss_pred             cEEEEEEEeCC--eeeeeeecCcc----c---HHHHHHHHHhcCCCC-CCeeEEEECCeEEEEEeeCCEEEEEEecCCCC
Q 029478            5 GLIYSFVSKGT--VVLAEHTSYSG----N---FSTIAIQCLQKLPAS-SSKYTYSCDGHTFNFLLDSGFVFLVVADESVG   74 (192)
Q Consensus         5 ~I~Ya~Var~~--~iLae~~~~~~----n---f~~ia~~iL~ki~~~-~~k~s~~~~~~~fh~l~~~gl~ylcitd~~yp   74 (192)
                      +|+|++|||+.  ++|||+++.++    +   +..+|+.+++|++|+ ++|.+++.++|+|||++++|++|+||||++||
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            58999999985  89999986543    2   445899999999876 58999999999999999999999999999999


Q ss_pred             cccHHHHHHHHHHHHHhhhccccccccCCCCCCCCCCchhhhhhhhhccccccchhHHHHHHHHHh
Q 029478           75 RSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFSIAYNLDREFGPRLKEHMQYC  140 (192)
Q Consensus        75 ~rvaF~fL~ei~~~F~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~i~~~~~~~F~~~Lk~lm~~y  140 (192)
                      +++||.||++|+++|.+.|+.++.++ .+|++                   +.+|...|++.++.|
T Consensus        81 ~~laF~fLeei~~eF~~~y~~~i~~~-~rpy~-------------------Fi~Fd~~iqk~k~~y  126 (127)
T d1ifqa_          81 KKLAFAYLEDLHSEFDEQHGKKVPTV-SRPYS-------------------FIEFDTFIQKTKKLY  126 (127)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTTTTTC-CSTTT-------------------TGGGHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhhhhhhhcc-cCCcc-------------------hHHHHHHHHHHHHhc
Confidence            99999999999999999998765444 46765                   568999999998765

>d1ioua_ d.110.4.1 (A:) Synaptobrevin homolog 1 ykt6 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

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=99.87  E-value=2.9e-22  Score=154.85  Aligned_cols=124  Identities=14%  Similarity=0.156  Sum_probs=99.1

Q ss_pred             ccEEEEEEEeC--C--eeeeeeecCc----------ccHHH-HHHHHHhcCCCCCCeeEEEECCeEEE-EEeeCCEEEEE
Q 029478            4 KGLIYSFVSKG--T--VVLAEHTSYS----------GNFST-IAIQCLQKLPASSSKYTYSCDGHTFN-FLLDSGFVFLV   67 (192)
Q Consensus         4 m~I~Ya~Var~--~--~iLae~~~~~----------~nf~~-ia~~iL~ki~~~~~k~s~~~~~~~fh-~l~~~gl~ylc   67 (192)
                      |.|++..|.|.  +  ++|+...+.+          ++|.. ++|++++|++++ +|.++++++|+|| |+.++|++|+|
T Consensus         1 Mkl~~~~v~~~~~~~~~~L~~a~Dlssf~ffqR~svkE~~~f~sr~i~~Rt~~g-~r~sv~~~~y~~h~yv~~~gl~~l~   79 (140)
T d1ioua_           1 MRIYYIGVFRSGGEKALELSEVKDLSQFGFFERSSVGQFMTFFAETVASRTGAG-ERQSIEEGNYIGHVYARSEGICGVL   79 (140)
T ss_dssp             CCCCEEEEEEEETTEEEEEEEEECCSSCCTTHHHHHHHHHHHHHHHHHHHCCSS-SEEEEEETTEEEEEECCSSSCEEEE
T ss_pred             CeEEEEEEEEcCCCCcEEEeeeccccccceeehHhHHHHHHHHHHHHhhcCCCC-ceEEEEcCCeEEEEEEeeCCEEEEE
Confidence            66788888885  2  6787776643          23333 899999999995 7999999999999 67789999999


Q ss_pred             EecCCCCcccHHHHHHHHHHHHHhhhccccccccCCCCCCCCCCchhhhhhhhhccccccchhHHHHHHHHHhcCCchhh
Q 029478           68 VADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLADDDEDDDLFEDRFSIAYNLDREFGPRLKEHMQYCMSHPEEM  147 (192)
Q Consensus        68 itd~~yp~rvaF~fL~ei~~~F~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~i~~~~~~~F~~~Lk~lm~~yn~~p~~~  147 (192)
                      |||.+||+|+||.||++|.++|.++|+...+.......                    +..+.+.|+++|++| |||.++
T Consensus        80 i~d~~Yp~r~AF~~L~~i~~eF~~~~~~~~~~~i~~~~--------------------~~~~~~~l~~~l~kY-QdP~~a  138 (140)
T d1ioua_          80 ITDKQYPVRPAYTLLNKILDEYLVAHPKEEWADVTETN--------------------DALKMKQLDTYISKY-QDPSQA  138 (140)
T ss_dssp             EBCTTSCHHHHHHHHHHHHHHHHHSSCHHHHTTCSCCC--------------------TTTSCHHHHHHHHHT-TSSCGG
T ss_pred             EECCCcchHHHHHHHHHHHHHHHHHcChHhhhhhhccc--------------------cccchHHHHHHHHHh-Cchhhc
Confidence            99999999999999999999999999876554332221                    234568899999888 799887


Q ss_pred             hH
Q 029478          148 SK  149 (192)
Q Consensus       148 Dk  149 (192)
                      |.
T Consensus       139 Da  140 (140)
T d1ioua_         139 DA  140 (140)
T ss_dssp             GC
T ss_pred             cC
Confidence            73

>d2fh5a1 d.110.4.4 (A:1-129) Signal recognition particle receptor alpha subunit, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Profilin-like
superfamily: SNARE-like
family: SRP alpha N-terminal domain-like
domain: Signal recognition particle receptor alpha subunit, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.48  E-value=0.00016  Score=53.48  Aligned_cols=88  Identities=18%  Similarity=0.315  Sum_probs=64.1

Q ss_pred             EEEEEEeCCeeeeeeecCccc----HHHHHHHHHhcCCCCCCeeEEEECCeEEEEEeeC--CEEEEEEecCCCCcccHHH
Q 029478            7 IYSFVSKGTVVLAEHTSYSGN----FSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDS--GFVFLVVADESVGRSVPFV   80 (192)
Q Consensus         7 ~Ya~Var~~~iLae~~~~~~n----f~~ia~~iL~ki~~~~~k~s~~~~~~~fh~l~~~--gl~ylcitd~~yp~rvaF~   80 (192)
                      ..+.+.+|.+||..|+..+.+    ...+.+.++=.=..  ...++.+++|+.+|..++  |++|+|+-.+-.+-.-.=.
T Consensus         4 ~f~IftkGGiVLW~~~~~~~~~~~~IN~LI~~vlLEER~--~~~~~~~d~y~lkw~~~Ne~~lvfV~vYQ~il~l~yvd~   81 (129)
T d2fh5a1           4 FFTIFSKGGLVLWCFQGVSDSCTGPVNALIRSVLLQERG--GNNSFTHEALTLKYKLDNQFELVFVVGFQKILTLTYVDK   81 (129)
T ss_dssp             EEEEEETTSBEEEEEBTTTBSCCCHHHHHHHHTGGGC---------CCCCCEEEEEEETTTTEEEEEEESCGGGHHHHHH
T ss_pred             EEEEEeCCeEEEEeecCCCcccchhHHHHHHHhheeccc--CCCceeECCEEEEEEEeccCCEEEEEEEhhhhchHHHHH
Confidence            568899999999998754433    44455555543222  235588899999999876  7999999887777777778


Q ss_pred             HHHHHHHHHHhhhccc
Q 029478           81 FLERVKDDFKQRYGAS   96 (192)
Q Consensus        81 fL~ei~~~F~~~~~~~   96 (192)
                      ||++++..|.+.|+.+
T Consensus        82 lL~~i~~~F~~~y~~~   97 (129)
T d2fh5a1          82 LIDDVHRLFRDKYRTE   97 (129)
T ss_dssp             HHHHHHHHHHHHTHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            9999999999999754