Citrus Sinensis ID: 038670

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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-------200-------210-------220-------230-------240-------250-------26
Protein Sequence
MASIQNTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFLIEDGYAYFMIADEGLGNRGALQFLEHLRDEFKKVAKKGSRGSFSGMNAIGVQEQLVPVIRRLITSLENVSQSRDDWKAETPLSDRVGLSPSPNNANGQTEVATSTKAPLLGKPGKQEKKKAKDHVIAMRDVELEEHRKSTDRVKFDSAALESNSQNGAGSSISLQKDLGSMRIRSSPQCIQKKWWRQVGLFSSLMLLSV
Secondary Structure (PSIPRED)
cccccccEEEEEEEEccEEEEEEEcccccHHHHHHHHHHccccccccEEEEEccEEEEEEEEccEEEEEEEccccccHHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccHHHHccccccccccccHHHHHHHHHHHHHEEEEEEEcc
Secondary Structure Prediction (SSPRO)
ccccccEEEEEEEEcccEEEEEEccccccHHHHHHHHHHHcccccccEEEEccccEEEEEEcccEEEEEEEcccccccHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccHHHccccccEEHccccHHHcccccccccccccccccccccccccccHHHHHccccccccccccHHHHHHHHHHHEEEHHHHcc
Coil and Loop (DISEMBL)
masiqntvhycsvsrgnrslyvysggdheIENLATLClertppfhkwYFETIGKRIYGFLIEDGYAYFMIAdeglgnrgALQFLEHLRDEFKKVAkkgsrgsfsgmnaigvqEQLVPVIRRLITSLENvsqsrddwkaetplsdrvglspspnnangqtevatstkapllgkpgkqekkkAKDHVIAMRDVELEehrkstdrvkfdsaalesnsqngagssislqkdlgsmrirsspqciqkKWWRQVGLFSSLMLLSV
Flexible Loop (DISEMBL)
MASIQNTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFLIEDGYAYFMIADEGLGNRGALQFLEHLRDEFKKVAKKgsrgsfsgmnaigvqeqLVPVIRRLITSLenvsqsrddwkaetplsdrvglspspnnangqtevatstkapllgkpgkqekkkakdhVIAMRdveleehrkstdrvkfdsaalesnsqngagssislQKDLGSMRIRSSPQCIQKKWWRQVGLFSSLMLLSV
Low Complexity Region (SEG)
MASIQNTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFLIEDGYAYFMIADEGLGNRGALQFLEHLRDEFKKVAKKGSRGSFSGMNAIGVQEQLVPVIRRLITSLENVSQSRDDWKAETPLSDRVGLSPSPNNANGQTEVATSTKAPLLGkpgkqekkkakDHVIAMRDVELEEHRKSTDRVKFDSAALESNSQNGAGSSISLQKDLGSMRIRSSPQCIQKKWWRQVGLFSSLMLLSV
Disordered region (IsUnstruct)
******TVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFLIEDGYAYFMIADEGLGNRGALQFLEHLRDEFKKVA*******FSGMNAIGVQEQLVPVIRRLITSL***************************************************************************************************************QCIQKKWWRQVGLFSSLML***
Disordered Region (DISOPRED)
****QNT*HYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFLIEDGYAYFMIADEGLGNRGALQFLEHLRDEFKKVAK******FSGMNAIGVQEQLVPVIRRLITSL*****************************************************************************KFDSAALE******************************KKWWRQVGLFSSLMLLSV
Disordered Region (DISEMBL)
MASIQNTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFLIEDGYAYFMIADEGLGNRGALQFLEHLRDEFKKVAKKGSRGSFSGMNAIGVQEQLVPVIRRLITSLENVSQSRDDWKAETPLSDRVGLSPSPNNANGQTEVATSTKAPLLGK***********HVIAMRDVELEEHRKSTDRVKFDSAALESNSQNGAGSSISLQKDLGSMRIRSSPQCIQKKWWRQVGLFSSLMLLSV
Disordered Region (DISPRO)
***IQNTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFLIEDGYAYFMIADEGLGNRGALQFLEHLRDEFKKVAKKGSRGSFSGMNAIGVQEQLVPVIRRLITSLEN*******************************************************HVIA*RDVEL*EH******************************************CIQKKWWRQVGLFSSLMLLSV
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MASIQNTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFLIEDGYAYFMIADEGLGNRGALQFLEHLRDEFKKVAKKGSRGSFSGMNAIGVQEQLVPVIRRLITSLENVSQSRDDWKAETPLSDRVGLSPSPNNANGQTEVATSTKAPLLGKPGKQEKKKAKDHVIAMRDVELEEHRKSTDRVKFDSAALESNSQNGAGSSISLQKDLGSMRIRSSPQCIQKKWWRQVGLFSSLMLLSV
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	259	2.2.26 [Sep-21-2011]
Q84WF5	255	Probable VAMP-like protei	no	no	0.864	0.878	0.442	1e-46
O23429	222	Vesicle-associated membra	no	no	0.343	0.400	0.311	5e-06
Q9ZTW3	219	Vesicle-associated membra	no	no	0.343	0.406	0.247	4e-05
Q9M376	240	Vesicle-associated membra	no	no	0.343	0.370	0.258	5e-05
O48850	285	Vesicle-associated membra	no	no	0.343	0.312	0.258	6e-05
P47192	221	Vesicle-associated membra	no	no	0.343	0.402	0.235	0.0002
Q86AQ7	260	Vesicle-associated membra	yes	no	0.389	0.388	0.264	0.0006

>sp|Q84WF5|VAMPL_ARATH Probable VAMP-like protein At1g33475 OS=Arabidopsis thaliana GN=At1g33475 PE=2 SV=1

 Score =  186 bits (473), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 112/253 (44%), Positives = 149/253 (58%), Gaps = 29/253 (11%)

Query: 1   MASIQNTVHYCSVSRGNRSLYVYS-GGDH-EIENLATLCLERTPPFHKWYFETIGKRIYG 58
           M SIQNTVHYC VSR N+ +Y Y+  GDH   E+LA LCLE+TPPFHKWYFET GK+ +G
Sbjct: 1   MGSIQNTVHYCCVSRDNQIMYAYNNAGDHRNNESLAALCLEKTPPFHKWYFETRGKKTFG 60

Query: 59  FLIEDGYAYFMIADEGLGNRGALQFLEHLRDEFKKVAKKGSR-GSFSGMNAIGVQEQLVP 117
           FL++D + YF I D+       L FLE LRDE K+  KK SR      ++   VQ+Q+V 
Sbjct: 61  FLMKDDFVYFAIVDDVFKKSSVLDFLEKLRDELKEANKKNSRGSFSGSISFSNVQDQIV- 119

Query: 118 VIRRLITSLENVSQSRDDWKAETPLSDRVGLSPSPNNANGQTEVATSTKAPLLGKPGKQE 177
             RRLI SLE             PLS     SPS + A  +   A+++KAPLLG+  KQ+
Sbjct: 120 --RRLIASLEFDHTC-------LPLS-----SPSIDGA--EQSYASNSKAPLLGRSNKQD 163

Query: 178 KKKAKDHVIAMRDVELEEHRKSTDRVKFDSAALESNSQNGAGSSISLQKDLGSMRIRSSP 237
           KKK +DH  ++R +E+EEHRKS DR         SN+ + + + +  +   G        
Sbjct: 164 KKKGRDHAHSLRGIEIEEHRKSNDRGNVTEC---SNASSESATYVPRRGRSG------GS 214

Query: 238 QCIQKKWWRQVGL 250
           Q I++KW RQV +
Sbjct: 215 QSIERKWRRQVKI 227

Arabidopsis thaliana (taxid: 3702)

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

 Score = 51.6 bits (122), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 28/90 (31%), Positives = 46/90 (51%), Gaps = 1/90 (1%)

Query: 5  QNTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFE-TIGKRIYGFLIED 63
          Q +  Y  V+RG   L  Y+       ++A  CL++ P      F        + FL+ED
Sbjct: 3  QESFIYSFVARGTMILAEYTEFTGNFPSIAAQCLQKLPSSSNSKFTYNCDHHTFNFLVED 62

Query: 64 GYAYFMIADEGLGNRGALQFLEHLRDEFKK 93
          GYAY ++A + L  + ++ FLE ++ +FKK
Sbjct: 63 GYAYCVVAKDSLSKQISIAFLERVKADFKK 92

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 = 48.5 bits (114), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 22/89 (24%), Positives = 46/89 (51%)

Query: 5  QNTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFLIEDG 64
          Q ++ Y  V+RG   L  ++       ++A  CL++ P  +  +        + +L+EDG
Sbjct: 3  QQSLIYSFVARGTVILVEFTDFKGNFTSIAAQCLQKLPSSNNKFTYNCDGHTFNYLVEDG 62

Query: 65 YAYFMIADEGLGNRGALQFLEHLRDEFKK 93
          + Y ++A +  G +  + FLE ++++F K
Sbjct: 63 FTYCVVAVDSAGRQIPMSFLERVKEDFNK 91

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

Arabidopsis thaliana (taxid: 3702)

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

 Score = 48.5 bits (114), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 23/89 (25%), Positives = 44/89 (49%)

Query: 5  QNTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFLIEDG 64
          Q  + Y  V++G   L  ++        +A  CL++ P     Y  +     + FL+++G
Sbjct: 3  QKGLIYSFVAKGTVVLAEHTPYSGNFSTIAVQCLQKLPTNSSKYTYSCDGHTFNFLVDNG 62

Query: 65 YAYFMIADEGLGNRGALQFLEHLRDEFKK 93
          + + ++ADE  G      FLE ++++FKK
Sbjct: 63 FVFLVVADESTGRSVPFVFLERVKEDFKK 91

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 = 48.1 bits (113), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 23/89 (25%), Positives = 45/89 (50%)

Query: 5   QNTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFLIEDG 64
           Q  + Y  V+RG   L  Y+        +A  CL++ P  +  +        + +L+E+G
Sbjct: 68  QQNLIYSFVARGTVILVEYTEFKGNFTAVAAQCLQKLPSSNNKFTYNCDGHTFNYLVENG 127

Query: 65  YAYFMIADEGLGNRGALQFLEHLRDEFKK 93
           + Y ++A E +G +  + FLE ++++F K
Sbjct: 128 FTYCVVAVESVGRQIPMAFLERVKEDFNK 156

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 = 46.2 bits (108), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 21/89 (23%), Positives = 46/89 (51%)

Query: 5  QNTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFLIEDG 64
          Q ++ Y  V+RG   L  ++       ++A  CL++ P  +  +        + +L+E+G
Sbjct: 3  QQSLIYSFVARGTVILVEFTDFKGNFTSIAAQCLQKLPSSNNKFTYNCDGHTFNYLVENG 62

Query: 65 YAYFMIADEGLGNRGALQFLEHLRDEFKK 93
          + Y ++A +  G +  + FLE ++++F K
Sbjct: 63 FTYCVVAVDSAGRQIPMAFLERVKEDFNK 91

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

Arabidopsis thaliana (taxid: 3702)

>sp|Q86AQ7|VAM7B_DICDI Vesicle-associated membrane protein 7B OS=Dictyostelium discoideum GN=vamp7B PE=3 SV=1

 Score = 44.7 bits (104), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 27/102 (26%), Positives = 45/102 (44%), Gaps = 1/102 (0%)

Query: 8   VHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFLIEDGYAY 67
           + Y  V+RG+  L  ++  +     +    L+  PP          K I+ +L+ D   Y
Sbjct: 3   IIYSLVARGSSVLAEFTSTNGNFVTITRRILDLIPPNDTKMSYVYEKYIFHYLVSDTLTY 62

Query: 68  FMIADEGLGNRGALQFLEHLRDEFKKV-AKKGSRGSFSGMNA 108
             +ADE  G R    FL+ +++ FK +   KG      GMN+
Sbjct: 63  LCMADEEFGRRIPFTFLDDVKNRFKSMYGDKGKTAIAYGMNS 104

Involved in the targeting and/or fusion of transport vesicles to their target membrane during transport of proteins from the early endosome to the lysosome. Required for heterotypic fusion of late endosomes with lysosomes and homotypic lysosomal fusion.

Dictyostelium discoideum (taxid: 44689)

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	259
224124412	276	predicted protein [Populus trichocarpa]	0.949	0.891	0.718	1e-103
224074027	276	predicted protein [Populus trichocarpa]	0.949	0.891	0.714	1e-98
356517810	278	PREDICTED: probable VAMP-like protein At	0.957	0.892	0.686	6e-97
356508156	278	PREDICTED: probable VAMP-like protein At	0.957	0.892	0.682	6e-96
357456083	278	hypothetical protein MTR_3g010290 [Medic	0.957	0.892	0.670	2e-93
255561480	287	conserved hypothetical protein [Ricinus	0.864	0.780	0.733	3e-93
359493585	277	PREDICTED: probable VAMP-like protein At	0.957	0.895	0.684	3e-93
449441774	276	PREDICTED: probable VAMP-like protein At	0.926	0.869	0.670	1e-90
297734759	220	unnamed protein product [Vitis vinifera]	0.810	0.954	0.610	2e-70
297809227	255	hypothetical protein ARALYDRAFT_489864 [	0.864	0.878	0.518	5e-61

>gi|224124412|ref|XP_002319325.1| predicted protein [Populus trichocarpa] gi|222857701|gb|EEE95248.1| predicted protein [Populus trichocarpa]

 Score =  379 bits (972), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 179/249 (71%), Positives = 207/249 (83%), Gaps = 3/249 (1%)

Query: 1   MASIQNTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFL 60
           M+ + NTVHYC V++GNR+LYVYSG D EIEN+A LCLER P +HKWYFETI K+ +GF 
Sbjct: 1   MSPMHNTVHYCCVAKGNRTLYVYSGADIEIENVAALCLERPPSYHKWYFETIAKKTFGFF 60

Query: 61  IEDGYAYFMIADEGLGNRGALQFLEHLRDEFKKVAKKGSRGSFSGMNAIGVQEQLVPVIR 120
           IEDG+ YF I DEGLGN G LQFLEH+RDEFKKVA+KGSRGSFSGMN+I +QEQLVPVI 
Sbjct: 61  IEDGFVYFTIVDEGLGNPGVLQFLEHVRDEFKKVARKGSRGSFSGMNSINIQEQLVPVIH 120

Query: 121 RLITSLENVSQSRDDWKAETPLSDRVGLSPSPNNANGQTEVATSTKAPLLGKPGKQEKKK 180
           RLITSLE+VS   + W  E+  SD +GLSPSP NANGQ EV +STKAPLLGK  KQ+K+K
Sbjct: 121 RLITSLEHVSS--NGWAGESSSSDNLGLSPSPVNANGQIEVVSSTKAPLLGKSNKQDKRK 178

Query: 181 AKDHVIAMRDVELEEHRKSTDR-VKFDSAALESNSQNGAGSSISLQKDLGSMRIRSSPQC 239
           +KDHVI +RD+ELEEHRKSTDR  K DS  L+SN+Q G GSSISLQKDLGSMRIR+S Q 
Sbjct: 179 SKDHVITIRDIELEEHRKSTDRGAKLDSTTLDSNNQAGVGSSISLQKDLGSMRIRTSSQS 238

Query: 240 IQKKWWRQV 248
           I+KKWWRQV
Sbjct: 239 IRKKWWRQV 247

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224074027|ref|XP_002304221.1| predicted protein [Populus trichocarpa] gi|222841653|gb|EEE79200.1| predicted protein [Populus trichocarpa]

 Score =  365 bits (936), Expect = 1e-98,   Method: Compositional matrix adjust.
 Identities = 178/249 (71%), Positives = 202/249 (81%), Gaps = 3/249 (1%)

Query: 1   MASIQNTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFL 60
           M+S+ +TVHYC V+RGNR+LYVYS GDHEIEN A LCLE TP +HKWYFETI ++ +GFL
Sbjct: 1   MSSMHSTVHYCCVARGNRTLYVYSRGDHEIENSAALCLESTPSYHKWYFETIAEKTFGFL 60

Query: 61  IEDGYAYFMIADEGLGNRGALQFLEHLRDEFKKVAKKGSRGSFSGMNAIGVQEQLVPVIR 120
           IEDG  YF I DEGLG+   LQFLEH+RDEFKKVA+KGSRG FSGMN+I VQEQLVPVI 
Sbjct: 61  IEDGSVYFTIVDEGLGHPSVLQFLEHVRDEFKKVARKGSRGGFSGMNSINVQEQLVPVIC 120

Query: 121 RLITSLENVSQSRDDWKAETPLSDRVGLSPSPNNANGQTEVATSTKAPLLGKPGKQEKKK 180
            LITSLE+V    +D   E+  SD VGLSPSP NAN Q EV  STKAPLLGK  KQ+K+K
Sbjct: 121 SLITSLEHVVC--NDGAGESSSSDNVGLSPSPLNANEQIEVVNSTKAPLLGKSNKQDKRK 178

Query: 181 AKDHVIAMRDVELEEHRKSTDR-VKFDSAALESNSQNGAGSSISLQKDLGSMRIRSSPQC 239
           +KDHVI +RD+ELEEHR STDR  K DSA L+SN+Q G GSSISLQKDLGSMRIRSS Q 
Sbjct: 179 SKDHVITIRDIELEEHRNSTDRGAKLDSATLDSNNQGGVGSSISLQKDLGSMRIRSSSQS 238

Query: 240 IQKKWWRQV 248
           I+KKWWRQV
Sbjct: 239 IRKKWWRQV 247

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356517810|ref|XP_003527579.1| PREDICTED: probable VAMP-like protein At1g33475-like [Glycine max]

 Score =  359 bits (922), Expect = 6e-97,   Method: Compositional matrix adjust.
 Identities = 171/249 (68%), Positives = 201/249 (80%), Gaps = 1/249 (0%)

Query: 1   MASIQNTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFL 60
           M SIQN V+YC VS+GN  +YVYSGGD E EN+A LCLER PPFH+WYFETIGKR +GF 
Sbjct: 1   MDSIQNKVYYCCVSKGNNVMYVYSGGDQEDENVAALCLERAPPFHRWYFETIGKRTFGFF 60

Query: 61  IEDGYAYFMIADEGLGNRGALQFLEHLRDEFKKVAKKGSRGSFSGMNAIGVQEQLVPVIR 120
           +EDGY YF I D+G GN   LQFLEH+RDEFKK+++KGSRG    MN+I +QE+LVPVIR
Sbjct: 61  MEDGYVYFTIVDKGFGNPVVLQFLEHVRDEFKKLSRKGSRGILPNMNSIYIQEKLVPVIR 120

Query: 121 RLITSLENVSQSRDDWKAETPLSDRVGLSPSPNNANGQTEVATSTKAPLLGKPGKQEKKK 180
            LITSLE+VS    +W+ ET LS +V LSPSP+N NGQ E A+STKAPLLGK  K +KKK
Sbjct: 121 GLITSLESVSHGSSNWRDETSLSFQVDLSPSPSNLNGQIEGASSTKAPLLGKSNKPDKKK 180

Query: 181 AKDHVIAMRDVELEEHRKSTDR-VKFDSAALESNSQNGAGSSISLQKDLGSMRIRSSPQC 239
            KDHVIAMRDVELEEHRKSTDR  + DS  L+  SQ GAG+S+SLQKD+GSMR+RS+PQ 
Sbjct: 181 VKDHVIAMRDVELEEHRKSTDRGARVDSGNLDGVSQGGAGASVSLQKDMGSMRMRSAPQN 240

Query: 240 IQKKWWRQV 248
           I+KKWWRQV
Sbjct: 241 IRKKWWRQV 249

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356508156|ref|XP_003522826.1| PREDICTED: probable VAMP-like protein At1g33475-like [Glycine max]

 Score =  356 bits (913), Expect = 6e-96,   Method: Compositional matrix adjust.
 Identities = 170/249 (68%), Positives = 200/249 (80%), Gaps = 1/249 (0%)

Query: 1   MASIQNTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFL 60
           M SIQN V+YC VS+GN  LYVY GGD E+E +A LCLER PPFH+WYFETIGKR +GF 
Sbjct: 1   MDSIQNKVYYCCVSKGNNVLYVYGGGDQEVEKVAVLCLERAPPFHRWYFETIGKRTFGFF 60

Query: 61  IEDGYAYFMIADEGLGNRGALQFLEHLRDEFKKVAKKGSRGSFSGMNAIGVQEQLVPVIR 120
           +EDGY YF I D+GLGN   L FLEH+RDEFKK+A+KGSRG    MN+I +QE+LVPVIR
Sbjct: 61  MEDGYVYFTIVDKGLGNPVVLWFLEHVRDEFKKLARKGSRGILPNMNSIYIQEKLVPVIR 120

Query: 121 RLITSLENVSQSRDDWKAETPLSDRVGLSPSPNNANGQTEVATSTKAPLLGKPGKQEKKK 180
            LITSLE+VS    +W+ ET LS +V LSPSP+N NGQ E A+STKAPLLGK  K +KKK
Sbjct: 121 GLITSLESVSHGGSNWRDETSLSFQVDLSPSPSNLNGQIEGASSTKAPLLGKSNKPDKKK 180

Query: 181 AKDHVIAMRDVELEEHRKSTDR-VKFDSAALESNSQNGAGSSISLQKDLGSMRIRSSPQC 239
            KDHVIAMRDVELEEH+KSTDR  + DS  L+  SQ GAG+S+SLQKD+GSMR+RS+PQ 
Sbjct: 181 VKDHVIAMRDVELEEHQKSTDRGARVDSCNLDGVSQGGAGASVSLQKDMGSMRMRSAPQN 240

Query: 240 IQKKWWRQV 248
           I+KKWWRQV
Sbjct: 241 IRKKWWRQV 249

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357456083|ref|XP_003598322.1| hypothetical protein MTR_3g010290 [Medicago truncatula] gi|355487370|gb|AES68573.1| hypothetical protein MTR_3g010290 [Medicago truncatula]

 Score =  348 bits (892), Expect = 2e-93,   Method: Compositional matrix adjust.
 Identities = 167/249 (67%), Positives = 193/249 (77%), Gaps = 1/249 (0%)

Query: 1   MASIQNTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFL 60
           M SIQN VHYC VS+G+  LY YSGGD E+EN+  LCLE  P FH+WYFETIGKR YGFL
Sbjct: 1   MDSIQNKVHYCCVSKGSHILYAYSGGDKEVENVTALCLEAVPSFHRWYFETIGKRTYGFL 60

Query: 61  IEDGYAYFMIADEGLGNRGALQFLEHLRDEFKKVAKKGSRGSFSGMNAIGVQEQLVPVIR 120
           +EDGY YF I DEGLGN   L+FLEH+RDEF+KVA+KGSRG     N++ +QE+LVPVIR
Sbjct: 61  VEDGYVYFTIVDEGLGNLVVLRFLEHVRDEFRKVARKGSRGFLPNANSVYIQEKLVPVIR 120

Query: 121 RLITSLENVSQSRDDWKAETPLSDRVGLSPSPNNANGQTEVATSTKAPLLGKPGKQEKKK 180
            LITSLENVS S  +W+ ET  +  +G SPSP+N NGQ E   STKAPLLGK  KQEKKK
Sbjct: 121 NLITSLENVSHSGSNWRDETSSTFGIGPSPSPSNLNGQIESVVSTKAPLLGKSSKQEKKK 180

Query: 181 AKDHVIAMRDVELEEHRKSTDR-VKFDSAALESNSQNGAGSSISLQKDLGSMRIRSSPQC 239
            KDHVIAMRDVELEEH+KSTDR  + DS  L+  SQ GA +S SLQKD+GSMR RS PQ 
Sbjct: 181 VKDHVIAMRDVELEEHKKSTDRGSRPDSGNLDGISQGGAATSSSLQKDMGSMRTRSGPQN 240

Query: 240 IQKKWWRQV 248
           ++KKWWRQV
Sbjct: 241 VRKKWWRQV 249

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255561480|ref|XP_002521750.1| conserved hypothetical protein [Ricinus communis] gi|223538963|gb|EEF40560.1| conserved hypothetical protein [Ricinus communis]

 Score =  347 bits (890), Expect = 3e-93,   Method: Compositional matrix adjust.
 Identities = 165/225 (73%), Positives = 191/225 (84%), Gaps = 1/225 (0%)

Query: 25  GGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFLIEDGYAYFMIADEGLGNRGALQFL 84
           GGDHEIENLA L LE TP +HKWYFET+GKR +GFLIEDGY YF I DEGLGN   L FL
Sbjct: 34  GGDHEIENLAALSLECTPAYHKWYFETMGKRTFGFLIEDGYVYFTIVDEGLGNAVVLHFL 93

Query: 85  EHLRDEFKKVAKKGSRGSFSGMNAIGVQEQLVPVIRRLITSLENVSQSRDDWKAETPLSD 144
           EH+RDEFK  AKKGSRGSFSG+++I VQEQLVPV+RRLITSLE+VS+S +DWK ET  S+
Sbjct: 94  EHVRDEFKNAAKKGSRGSFSGLSSINVQEQLVPVVRRLITSLEHVSESGNDWKTETSSSE 153

Query: 145 RVGLSPSPNNANGQTEVATSTKAPLLGKPGKQEKKKAKDHVIAMRDVELEEHRKSTDR-V 203
            +GLSPSP++ANG  E+ TSTKAPLLGK  KQEKKK+KDHVI MRD+ELEEHRKSTDR V
Sbjct: 154 NMGLSPSPSDANGLIEIHTSTKAPLLGKSNKQEKKKSKDHVIVMRDIELEEHRKSTDRGV 213

Query: 204 KFDSAALESNSQNGAGSSISLQKDLGSMRIRSSPQCIQKKWWRQV 248
           + DS +L+SN+Q G  S++SLQKD+GSMRIRSS Q I+KKWWRQV
Sbjct: 214 RVDSTSLDSNNQGGVASAMSLQKDMGSMRIRSSAQSIRKKWWRQV 258

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359493585|ref|XP_003634631.1| PREDICTED: probable VAMP-like protein At1g33475-like isoform 1 [Vitis vinifera] gi|359493587|ref|XP_003634632.1| PREDICTED: probable VAMP-like protein At1g33475-like isoform 2 [Vitis vinifera]

 Score =  347 bits (890), Expect = 3e-93,   Method: Compositional matrix adjust.
 Identities = 171/250 (68%), Positives = 204/250 (81%), Gaps = 2/250 (0%)

Query: 1   MASIQNTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFL 60
           M S +NTV+YC VS+GNR LY Y GG HEIENLA LCLER PPFHKWYF+T+GK+ +GFL
Sbjct: 1   MGSFENTVYYCCVSKGNRILYAYGGGGHEIENLAALCLERAPPFHKWYFQTMGKKTFGFL 60

Query: 61  IEDGYAYFMIADEGLGNRGALQFLEHLRDEFKKVAKKGSRGSFSGMNAIGVQEQLVPVIR 120
           +EDG+ YF I DEGLGN G LQFLEH+RDEFKKVA+K SRGS S  N++ +Q+QLVP+I 
Sbjct: 61  MEDGHVYFAIVDEGLGNPGVLQFLEHMRDEFKKVARKDSRGSPSSFNSLHIQDQLVPIIH 120

Query: 121 RLITSLENVSQSRDDWKAETPLSDRVGLSPSPNNANGQTEVATSTKAPLLG-KPGKQEKK 179
           RLI+SLE+VSQ+ ++W AE+PL   VGLSPSP++ANGQ E A+STKAPLLG    +++KK
Sbjct: 121 RLISSLEHVSQTSNNWIAESPLPHHVGLSPSPSDANGQMEAASSTKAPLLGKFSKQEKKK 180

Query: 180 KAKDHVIAMRDVELEEHRKSTDR-VKFDSAALESNSQNGAGSSISLQKDLGSMRIRSSPQ 238
           K KD VIAMRD+ELEEHRKSTDR +K DS   +SNSQ G GSSISLQKDLGS+RIRS  Q
Sbjct: 181 KMKDPVIAMRDIELEEHRKSTDRGIKIDSGNSDSNSQGGVGSSISLQKDLGSIRIRSGSQ 240

Query: 239 CIQKKWWRQV 248
            I+KKW R V
Sbjct: 241 SIRKKWCRHV 250

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449441774|ref|XP_004138657.1| PREDICTED: probable VAMP-like protein At1g33475-like [Cucumis sativus] gi|449525079|ref|XP_004169547.1| PREDICTED: probable VAMP-like protein At1g33475-like [Cucumis sativus]

 Score =  338 bits (868), Expect = 1e-90,   Method: Compositional matrix adjust.
 Identities = 163/243 (67%), Positives = 196/243 (80%), Gaps = 3/243 (1%)

Query: 7   TVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFLIEDGYA 66
           T+HYCSVSRG R LYVYS GD EIENLA LCL+  PP+HKWYFET+GK+ +GFL+++G  
Sbjct: 7   TIHYCSVSRGERMLYVYSNGDEEIENLADLCLKSAPPYHKWYFETLGKKTFGFLMKEGSV 66

Query: 67  YFMIADEGLGNRGALQFLEHLRDEFKKVAKKGSRGSFSGMNAIGVQEQLVPVIRRLITSL 126
           YF IADE +GN+  LQFLE LRDEFK+VAKKGSRGSFS MN+I +QEQLVPVI +LITSL
Sbjct: 67  YFAIADEVIGNQPLLQFLEQLRDEFKRVAKKGSRGSFSSMNSISLQEQLVPVISKLITSL 126

Query: 127 ENVSQSRDDWKAETPLSDRVGLSPSPNNANGQTEVATSTKAPLLGKPGKQEKKKAKDHVI 186
           ENVS +  DW AETP S+  GLSPSP+N NGQ +V  STKAPLLGK  K EKKK KDHVI
Sbjct: 127 ENVSHNSKDWMAETPSSNN-GLSPSPSNVNGQVDVLASTKAPLLGKSNKPEKKKGKDHVI 185

Query: 187 AMRDVELEEHRKSTDR-VKFDSAALESNSQNGAGSSISLQKDLGSMRIRSSPQCIQKKWW 245
            MR +E+EEHRKSTDR +K DS +LES++Q G+GS+I +QKD   +R RS+ Q I+++WW
Sbjct: 186 TMRGIEMEEHRKSTDRGLKIDSVSLESSNQGGSGSAIPVQKDSNPLR-RSNSQSIRRRWW 244

Query: 246 RQV 248
           R V
Sbjct: 245 RHV 247

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297734759|emb|CBI16993.3| unnamed protein product [Vitis vinifera]

 Score =  271 bits (693), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 138/226 (61%), Positives = 170/226 (75%), Gaps = 16/226 (7%)

Query: 1   MASIQNTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFL 60
           M S +NTV+YC VS+GNR LY Y GG HEIENLA LCLER PPFHKWYF+T+GK+ +GFL
Sbjct: 1   MGSFENTVYYCCVSKGNRILYAYGGGGHEIENLAALCLERAPPFHKWYFQTMGKKTFGFL 60

Query: 61  IEDGYAYFMIADEGLGNRGALQFLEHLRDEFKKVAKKGSRGSFSGMNAIGVQEQLVPVIR 120
           +EDG+ YF I DEGLGN G LQFLEH+RDEFKKVA+K SRGS S  N++ +Q+QLVP+I 
Sbjct: 61  MEDGHVYFAIVDEGLGNPGVLQFLEHMRDEFKKVARKDSRGSPSSFNSLHIQDQLVPIIH 120

Query: 121 RLITSLENVSQSRDDWKAETPLSDRVGLSPSPNNANGQTEVATSTKAPLLG-KPGKQEKK 179
           RLI+SLE+VSQ+ ++W A+              +ANGQ E A+STKAPLLG    +++KK
Sbjct: 121 RLISSLEHVSQTSNNWIAD--------------DANGQMEAASSTKAPLLGKFSKQEKKK 166

Query: 180 KAKDHVIAMRDVELEEHRKSTDR-VKFDSAALESNSQNGAGSSISL 224
           K KD VIAMRD+ELEEHRKSTDR +K DS   +SNSQ   G  ++ 
Sbjct: 167 KMKDPVIAMRDIELEEHRKSTDRGIKIDSGNSDSNSQVHRGDYLAF 212

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297809227|ref|XP_002872497.1| hypothetical protein ARALYDRAFT_489864 [Arabidopsis lyrata subsp. lyrata] gi|297318334|gb|EFH48756.1| hypothetical protein ARALYDRAFT_489864 [Arabidopsis lyrata subsp. lyrata]

 Score =  240 bits (612), Expect = 5e-61,   Method: Compositional matrix adjust.
 Identities = 129/249 (51%), Positives = 160/249 (64%), Gaps = 25/249 (10%)

Query: 1   MASIQNTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFL 60
           M  I+NTVHYC VSR N+ LY Y+GGD   E+LA LCLE++PPFH WYFETIGKR +GFL
Sbjct: 1   MGLIKNTVHYCCVSRDNQILYSYNGGDQTNESLAALCLEKSPPFHNWYFETIGKRRFGFL 60

Query: 61  IEDGYAYFMIADEGLGNRGALQFLEHLRDEFKKVAKKGSRGSFSGM-NAIGVQEQLVPVI 119
             DG+ YF I DE L     L+FLEHLRDEFKK A+  SRGSF+ M  +I V++QLVPV+
Sbjct: 61  FGDGFVYFAIVDEVLKRSSVLKFLEHLRDEFKKAARNNSRGSFTAMIGSINVEDQLVPVV 120

Query: 120 RRLITSLENVSQSRDDWKAETPLSDRVGLSPSPNNANGQTEVATSTKAPLLGKPGKQEKK 179
            RLI SLE V+    + + ++ L +             Q+EV+ STKAPLLG+  KQEKK
Sbjct: 121 ARLIASLERVAAESTNNELKSNLGE-------------QSEVSNSTKAPLLGRSSKQEKK 167

Query: 180 KAKDHVIAMRDVELEEHRKSTDRVKFDSAALESNSQNGAGSSISLQKDLGSMRIRSSPQC 239
           K KDHVI     E+EEHRKS DR         ++   GAG+  SL+K+  S R RS  Q 
Sbjct: 168 KGKDHVI-----EVEEHRKSNDREN------RTDVSAGAGAGTSLEKECVSSRGRSVTQS 216

Query: 240 IQKKWWRQV 248
            + KW R V
Sbjct: 217 FEWKWRRLV 225

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	259
TAIR|locus:2124705	254	AT4G10170 "AT4G10170" [Arabido	0.795	0.811	0.504	1.5e-49
TAIR|locus:504956331	255	AT1G33475 [Arabidopsis thalian	0.806	0.819	0.466	5.2e-42
TAIR|locus:2168382	272	AT5G52990 "AT5G52990" [Arabido	0.637	0.606	0.267	8.6e-08
TAIR|locus:2137365	260	AT4G27840 "AT4G27840" [Arabido	0.471	0.469	0.266	9.4e-07
TAIR|locus:2010642	219	VAMP721 "AT1G04750" [Arabidops	0.343	0.406	0.247	0.00011
TAIR|locus:2080340	240	VAMP727 "AT3G54300" [Arabidops	0.343	0.370	0.258	0.00019
TAIR|locus:2046367	285	VAMP725 "AT2G32670" [Arabidops	0.339	0.308	0.269	0.00038

TAIR|locus:2124705 AT4G10170 "AT4G10170" [Arabidopsis thaliana (taxid:3702)]

 Score = 516 (186.7 bits), Expect = 1.5e-49, P = 1.5e-49
 Identities = 116/230 (50%), Positives = 147/230 (63%)

Query:     1 MASIQNTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFL 60
             M  I+NTVHYC VSR N+ LY Y+GGD   E+LA LCLE++PPFH WYFETIGKR +GFL
Sbjct:     1 MGLIKNTVHYCCVSRDNQILYSYNGGDQTNESLAALCLEKSPPFHTWYFETIGKRRFGFL 60

Query:    61 IEDGYAYFMIADEGLGNRGALQFLEHLRDEFKKVAKKGSRGSFSGM-NAIGVQEQLVPVI 119
             I DG+ YF I DE L     L+FLEHLRDEFKK A++ SRGSF+ M  +I V++QLVPV+
Sbjct:    61 IGDGFVYFAIVDEVLKRSSVLKFLEHLRDEFKKAARENSRGSFTAMIGSINVEDQLVPVV 120

Query:   120 RRLITSLENVSQSRDDWKAETPLSDRVGLSPSPNNANGQTEVATSTKAPLLGXXXXXXXX 179
              RLI SLE V++S  + + ++            +N   Q+E + STKAPLLG        
Sbjct:   121 TRLIASLERVAESSSNNELKS------------SNLGEQSEGSNSTKAPLLGRLSKQEKK 168

Query:   180 XXXDHVIAMRDVELEEHRKSTDR--VKFDSA----ALESNSQNGAGSSIS 223
                DHVI     ELEEHRKS DR  +  DSA    +LE    + +G S++
Sbjct:   169 KGKDHVI-----ELEEHRKSNDRGNITDDSAGAGTSLEKECVSSSGRSVT 213

GO:0003674 "molecular_function" evidence=ND

GO:0006810 "transport" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

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

GO:0005886 "plasma membrane" evidence=IDA

TAIR|locus:504956331 AT1G33475 [Arabidopsis thaliana (taxid:3702)]

 Score = 445 (161.7 bits), Expect = 5.2e-42, P = 5.2e-42
 Identities = 110/236 (46%), Positives = 144/236 (61%)

Query:     1 MASIQNTVHYCSVSRGNRSLYVYSG-GDHEI-ENLATLCLERTPPFHKWYFETIGKRIYG 58
             M SIQNTVHYC VSR N+ +Y Y+  GDH   E+LA LCLE+TPPFHKWYFET GK+ +G
Sbjct:     1 MGSIQNTVHYCCVSRDNQIMYAYNNAGDHRNNESLAALCLEKTPPFHKWYFETRGKKTFG 60

Query:    59 FLIEDGYAYFMIADEGLGNRGALQFLEHLRDEFKKVAKKGSRGSFSG-MNAIGVQEQLVP 117
             FL++D + YF I D+       L FLE LRDE K+  KK SRGSFSG ++   VQ+Q+V 
Sbjct:    61 FLMKDDFVYFAIVDDVFKKSSVLDFLEKLRDELKEANKKNSRGSFSGSISFSNVQDQIV- 119

Query:   118 VIRRLITSLENVSQSRDDWKAETPLSDRVGLSPSPNNANGQTEVATSTKAPLLGXXXXXX 177
               RRLI SLE       D     PLS     SPS + A  +   A+++KAPLLG      
Sbjct:   120 --RRLIASLEF------DHTC-LPLS-----SPSIDGA--EQSYASNSKAPLLGRSNKQD 163

Query:   178 XXXXXDHVIAMRDVELEEHRKSTDR---VKFDSAALESNS---QNG-AGSSISLQK 226
                  DH  ++R +E+EEHRKS DR    +  +A+ ES +   + G +G S S+++
Sbjct:   164 KKKGRDHAHSLRGIEIEEHRKSNDRGNVTECSNASSESATYVPRRGRSGGSQSIER 219

GO:0005634 "nucleus" evidence=ISM

GO:0006810 "transport" evidence=IEA

TAIR|locus:2168382 AT5G52990 "AT5G52990" [Arabidopsis thaliana (taxid:3702)]

 Score = 142 (55.0 bits), Expect = 8.6e-08, P = 8.6e-08
 Identities = 47/176 (26%), Positives = 82/176 (46%)

Query:     1 MASIQNTVHYCSVSRGNRSLYVY-SGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGF 59
             M S  + + Y  +++G   L  + S  +  IE +A  C+E TPP H  +  T+ K+ Y F
Sbjct:     1 MISNPSLLSYTCIAKGTVVLAEFVSRQEPGIEAIALRCIENTPPHHSMFSHTVHKKTYTF 60

Query:    60 LIED-GYAYFMIADEGLGNRGALQFLEHLRDEFKKVAKKGSRGSFSGMNAIG--VQEQLV 116
              I+D  + YF I+DE +    +   L  LR   + + K G     + +N +   +Q +L 
Sbjct:    61 AIDDDSFVYFSISDESMEKPESFWVLNRLRSAIEDLIKDGGSDVETLINPVSHCLQLKLD 120

Query:   117 PVIRRLITSLENVSQSRDDWKAETPLS-DRVGLSPSPNNANGQTEVATSTKAPLLG 171
             PV   ++  ++      D     +P S  R   +PS +++ G+     +   PLLG
Sbjct:   121 PVFAEIVGVVDLELLDMD--LVGSPRSVARESRNPSIDSSKGRR----AALMPLLG 170

GO:0003674 "molecular_function" evidence=ND

GO:0006810 "transport" evidence=IEA

TAIR|locus:2137365 AT4G27840 "AT4G27840" [Arabidopsis thaliana (taxid:3702)]

 Score = 133 (51.9 bits), Expect = 9.4e-07, P = 9.4e-07
 Identities = 33/124 (26%), Positives = 57/124 (45%)

Query:     1 MASIQNTVHYCSVSRGNRSLYVYSGGDHE-IENLATLCLERTPPFHKWYFETIGKRIYGF 59
             M S Q  + Y  +++G   L  ++  +   IE+LA  C+E  PP H     T+ KR Y  
Sbjct:     1 MTSNQRMLFYSCIAKGTVILAEFASKEEPGIEDLALRCIENVPPHHSMISHTVHKRTYAL 60

Query:    60 LIEDGYAYFMIADEGLGNRGALQFLEHLRDEFKKVAKKGSRG-SFSGMNAIGVQEQLVPV 118
             +I+  ++YF I DE +    ++     L+   + + + GS   S        +Q +L PV
Sbjct:    61 IIDGLFSYFAILDEVVAKSESVWLFNRLKSATESLMEDGSTADSLDNPTQHCLQSKLDPV 120

Query:   119 IRRL 122
                +
Sbjct:   121 FAEI 124

GO:0003674 "molecular_function" evidence=ND

GO:0006810 "transport" evidence=IEA

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

 Score = 114 (45.2 bits), Expect = 0.00011, P = 0.00011
 Identities = 22/89 (24%), Positives = 46/89 (51%)

Query:     5 QNTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFLIEDG 64
             Q ++ Y  V+RG   L  ++       ++A  CL++ P  +  +        + +L+EDG
Sbjct:     3 QQSLIYSFVARGTVILVEFTDFKGNFTSIAAQCLQKLPSSNNKFTYNCDGHTFNYLVEDG 62

Query:    65 YAYFMIADEGLGNRGALQFLEHLRDEFKK 93
             + Y ++A +  G +  + FLE ++++F K
Sbjct:    63 FTYCVVAVDSAGRQIPMSFLERVKEDFNK 91

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

 Score = 113 (44.8 bits), Expect = 0.00019, P = 0.00019
 Identities = 23/89 (25%), Positives = 44/89 (49%)

Query:     5 QNTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFLIEDG 64
             Q  + Y  V++G   L  ++        +A  CL++ P     Y  +     + FL+++G
Sbjct:     3 QKGLIYSFVAKGTVVLAEHTPYSGNFSTIAVQCLQKLPTNSSKYTYSCDGHTFNFLVDNG 62

Query:    65 YAYFMIADEGLGNRGALQFLEHLRDEFKK 93
             + + ++ADE  G      FLE ++++FKK
Sbjct:    63 FVFLVVADESTGRSVPFVFLERVKEDFKK 91

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 = 112 (44.5 bits), Expect = 0.00038, P = 0.00038
 Identities = 24/89 (26%), Positives = 46/89 (51%)

Query:     5 QNTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFLIEDG 64
             QN + Y  V+RG   L  Y+        +A  CL++ P  +  +        + +L+E+G
Sbjct:    69 QNLI-YSFVARGTVILVEYTEFKGNFTAVAAQCLQKLPSSNNKFTYNCDGHTFNYLVENG 127

Query:    65 YAYFMIADEGLGNRGALQFLEHLRDEFKK 93
             + Y ++A E +G +  + FLE ++++F K
Sbjct:   128 FTYCVVAVESVGRQIPMAFLERVKEDFNK 156


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.317   0.132   0.387    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      259       248   0.00079  114 3  11 22  0.46    33
                                                     32  0.46    36


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  7
  No. of states in DFA:  601 (64 KB)
  Total size of DFA:  190 KB (2109 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  22.43u 0.14s 22.57t   Elapsed:  00:00:01
  Total cpu time:  22.43u 0.14s 22.57t   Elapsed:  00:00:01
  Start:  Mon May 20 20:26:29 2013   End:  Mon May 20 20:26:30 2013

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	259
pfam13774	82	pfam13774, Longin, Regulated-SNARE-like domain	9e-07

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

 Score = 45.6 bits (109), Expect = 9e-07
 Identities = 24/61 (39%), Positives = 33/61 (54%), Gaps = 2/61 (3%)

Query: 34 ATLCLERTPPF-HKWYFETIGKRIYGFLIEDGYAYFMIADEGLGNRGALQFLEHLRDEFK 92
          A   LE+ PP   +  +E  G   + +L+EDG  Y  IAD+    R A  FLE ++DEF 
Sbjct: 2  AKTILEKLPPNSPRQSYEE-GNYTFHYLVEDGLCYLCIADKEYPRRLAFAFLEEIKDEFL 60

Query: 93 K 93
          K
Sbjct: 61 K 61

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	259
KOG0859	217	consensus Synaptobrevin/VAMP-like protein [Intrace	100.0
KOG0862	216	consensus Synaptobrevin/VAMP-like protein SEC22 [I	99.85
PF13774	83	Longin: Regulated-SNARE-like domain; PDB: 1IOU_A 3	99.82
COG5143	190	SNC1 Synaptobrevin/VAMP-like protein [Intracellula	97.95
KOG0861	198	consensus SNARE protein YKT6, synaptobrevin/VAMP s	97.91
PF04086	279	SRP-alpha_N: Signal recognition particle, alpha su	95.96
KOG0781	587	consensus Signal recognition particle receptor, al	89.27
PF01217	141	Clat_adaptor_s: Clathrin adaptor complex small cha	88.76

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

Probab=100.00  E-value=5.4e-37  Score=267.65  Aligned_cols=117  Identities=21%  Similarity=0.387  Sum_probs=111.5

Q ss_pred             ceeEEEEEEcCCeeEEeeeCCCCCHHHHHHHHHhcCCCC-CceEEEEeCCEEEEEEEeCCEEEEEEecCCCChhhHHHHH
Q 038670            6 NTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPF-HKWYFETIGKRIYGFLIEDGYAYFMIADEGLGNRGALQFL   84 (259)
Q Consensus         6 ~~IlYA~VARg~tILAEys~~~gNf~~ia~~iL~Klp~~-~~k~s~~~g~y~FhyL~edgivYlcItd~s~~k~iaF~FL   84 (259)
                      ++|+||+||||++|||||++.+|||.++|++||+|||++ ++|+||..|+|+|||+++||++||||+|++++|++||+||
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            479999999999999999999999999999999999987 7799999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhh-ccCCCCCCCCccccccccccHHHHHHHHHhhh
Q 038670           85 EHLRDEFKKVA-KKGSRGSFSGMNAIGVQEQLVPVIRRLITSLE  127 (259)
Q Consensus        85 eeIk~eF~~~y-~~~~~a~a~a~~~~~~~~eF~pvLq~lM~sln  127 (259)
                      |+|+++|.+.| ..+.+|.||+|     |.||+++|++.|+.+-
T Consensus        81 e~Ik~~F~k~YG~~a~ta~Aysm-----N~EFs~vL~qqm~y~s  119 (217)
T KOG0859|consen   81 ERIKEDFKKRYGGGAHTAVAYSM-----NKEFSSVLKQQMQYCS  119 (217)
T ss_pred             HHHHHHHHHHhccchhHHHHhHh-----HHHHHHHHHHHHHHHH
Confidence            99999999999 45688999998     9999999999999764

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

Probab=99.85  E-value=5.2e-21  Score=169.52  Aligned_cols=117  Identities=18%  Similarity=0.257  Sum_probs=103.8

Q ss_pred             eeEEEEEEc--CCeeEEeeeC---CCCCH----HHHHHHHHhcCCCC-CceEEEEeCCEEEEEEEeCCEEEEEEecCCCC
Q 038670            7 TVHYCSVSR--GNRSLYVYSG---GDHEI----ENLATLCLERTPPF-HKWYFETIGKRIYGFLIEDGYAYFMIADEGLG   76 (259)
Q Consensus         7 ~IlYA~VAR--g~tILAEys~---~~gNf----~~ia~~iL~Klp~~-~~k~s~~~g~y~FhyL~edgivYlcItd~s~~   76 (259)
                      ||++++|+|  +++|||+..+   .+++.    .+.++.+++++.+. ++++|.+.|.|+|||+++.|||||||||.+||
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            689999999  7899998754   23443    57999999999987 99999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHHHhhccC---CCCCCCCccccccccccHHHHHHHHHhhhcc
Q 038670           77 NRGALQFLEHLRDEFKKVAKKG---SRGSFSGMNAIGVQEQLVPVIRRLITSLENV  129 (259)
Q Consensus        77 k~iaF~FLeeIk~eF~~~y~~~---~~a~a~a~~~~~~~~eF~pvLq~lM~sln~~  129 (259)
                      +++||+|||+|.+||.+.|...   ....||++      .+|+++||+.-++||.+
T Consensus        81 ~kLAF~YLedL~~EF~~~~~~~~~~~~~RPY~F------ieFD~~IQk~Kk~ynd~  130 (216)
T KOG0862|consen   81 RKLAFSYLEDLAQEFDKSYGKNIIQPASRPYAF------IEFDTFIQKTKKRYNDT  130 (216)
T ss_pred             HHHHHHHHHHHHHHHHHhcccccCCccCCCeeE------EehhHHHHHHHHHhcCc
Confidence            9999999999999999999543   36677776      79999999999999964

>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=99.82  E-value=1.1e-19  Score=138.00  Aligned_cols=79  Identities=28%  Similarity=0.417  Sum_probs=69.9

Q ss_pred             HHHHHHhcCCCCC-ceEEEEeCCEEEEEEEeCCEEEEEEecCCCChhhHHHHHHHHHHHHHHhhc--cCCCCCCCCcccc
Q 038670           33 LATLCLERTPPFH-KWYFETIGKRIYGFLIEDGYAYFMIADEGLGNRGALQFLEHLRDEFKKVAK--KGSRGSFSGMNAI  109 (259)
Q Consensus        33 ia~~iL~Klp~~~-~k~s~~~g~y~FhyL~edgivYlcItd~s~~k~iaF~FLeeIk~eF~~~y~--~~~~a~a~a~~~~  109 (259)
                      +|++||+++++.+ .|.|++.++|+|||+++||++||||||+++|+++||.||++|+++|..+|+  ++..+.+|+|   
T Consensus         1 ~a~~il~~i~~~~~~k~s~~~~~~~fh~~~~~~i~~~citd~~~~~r~aF~fL~~i~~~F~~~~~~~~~~~a~~~~~---   77 (83)
T PF13774_consen    1 QARKILKRIPPNGNSKMSYESGNYVFHYLVEDGIAYLCITDKSYPKRVAFAFLEEIKQEFIQTYGGDQIKSASPYSF---   77 (83)
T ss_dssp             HHHHHHHTS-TTSESEEEEEETTEEEEEEEETTEEEEEEEETTS-HHHHHHHHHHHHHHHHHHCTTTTTTTSTTTTT---
T ss_pred             CHHHHHHhcCCCCCCeEEEEECCEEEEEEEcCCeEEEEEEcCCCCcchHHHHHHHHHHHHHHHcCcchhcccCCcch---
Confidence            5899999999655 899999999999999999999999999999999999999999999999996  4577778776   


Q ss_pred             ccccccHH
Q 038670          110 GVQEQLVP  117 (259)
Q Consensus       110 ~~~~eF~p  117 (259)
                         .+|++
T Consensus        78 ---~~F~~   82 (83)
T PF13774_consen   78 ---KEFDS   82 (83)
T ss_dssp             ---HHHHH
T ss_pred             ---hhcCC
Confidence               67775

...

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

Probab=97.95  E-value=3.5e-05  Score=68.07  Aligned_cols=86  Identities=19%  Similarity=0.227  Sum_probs=65.9

Q ss_pred             HHHHHHHhcCCCC-CceEEEEeCCEEEEEEEeC-CEEEEEEecCCCChhhHHHHHHHHHHHHHHhhc-cCCCCCCCCccc
Q 038670           32 NLATLCLERTPPF-HKWYFETIGKRIYGFLIED-GYAYFMIADEGLGNRGALQFLEHLRDEFKKVAK-KGSRGSFSGMNA  108 (259)
Q Consensus        32 ~ia~~iL~Klp~~-~~k~s~~~g~y~FhyL~ed-givYlcItd~s~~k~iaF~FLeeIk~eF~~~y~-~~~~a~a~a~~~  108 (259)
                      ..+..+|.++.+. .++.+.+.++|.|||+..+ |++|.|+|+..+|+++||.+|+++..+|..+.. ......+.+.  
T Consensus        32 ~~v~~~l~~~~~~~a~~~~ies~~~~~~~~~~s~gi~y~~~~~~e~p~~la~~~~~~~~~~~~~s~~~~~~~d~~~~~--  109 (190)
T COG5143          32 SKVKEVLRFLSKTSASRASIESGDYFFHYLKMSSGIVYVPISDKEYPNKLAYGYLNSIATEFLKSSALEQLIDDTVGI--  109 (190)
T ss_pred             chHHHHHHHhcccccchhccccCceEEEEEecCCCceeEEecccccchhhhhHHHHhhccHhhhhhhHhhcccCccch--
Confidence            4677777777763 4477889999999999986 999999999999999999999999999988872 2212222221  


Q ss_pred             cccccccHHHHHH
Q 038670          109 IGVQEQLVPVIRR  121 (259)
Q Consensus       109 ~~~~~eF~pvLq~  121 (259)
                        .-.+|++++++
T Consensus       110 --~~~~~d~~~e~  120 (190)
T COG5143         110 --MRVNIDKVIEK  120 (190)
T ss_pred             --hhhhHHHHHHh
Confidence              12578888777

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

Probab=97.91  E-value=4.8e-05  Score=66.57  Aligned_cols=66  Identities=21%  Similarity=0.250  Sum_probs=57.1

Q ss_pred             HHHHHHhcCCCCCceEEEEeCCEEEEEEEeC-CEEEEEEecCCCChhhHHHHHHHHHHHHHHhh--ccCC
Q 038670           33 LATLCLERTPPFHKWYFETIGKRIYGFLIED-GYAYFMIADEGLGNRGALQFLEHLRDEFKKVA--KKGS   99 (259)
Q Consensus        33 ia~~iL~Klp~~~~k~s~~~g~y~FhyL~ed-givYlcItd~s~~k~iaF~FLeeIk~eF~~~y--~~~~   99 (259)
                      +++.+.++.++. .+.+++.++|..|..+.+ |+++++++|..||-+.||.+|++|.++|....  .+|.
T Consensus        43 ~sktvaeRt~~g-~rqsvk~~~Y~~h~yvrndgL~~V~~~D~eYP~rvA~tLL~kvld~~~~k~~~~~W~  111 (198)
T KOG0861|consen   43 ISKTVAERTGPG-QRQSVKHEEYLVHVYVRNDGLCGVLIADDEYPVRVAFTLLNKVLDEFTTKVPATQWP  111 (198)
T ss_pred             HHHHHHHhcCcc-cccccccceeEEEEEEecCCeeEEEEecCcCchhHHHHHHHHHHHHHhhcCcccccC
Confidence            778888999884 578899999999988875 99999999999999999999999999995554  3454

>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=95.96  E-value=0.016  Score=52.93  Aligned_cols=94  Identities=15%  Similarity=0.120  Sum_probs=53.0

Q ss_pred             HHHHHHHHhcCCCCCceEEEEeCCEEEEEEEeC--CEEEEEEecCCCChhhHHHHHHHHHHHHHHhhccC-CCCCCCCcc
Q 038670           31 ENLATLCLERTPPFHKWYFETIGKRIYGFLIED--GYAYFMIADEGLGNRGALQFLEHLRDEFKKVAKKG-SRGSFSGMN  107 (259)
Q Consensus        31 ~~ia~~iL~Klp~~~~k~s~~~g~y~FhyL~ed--givYlcItd~s~~k~iaF~FLeeIk~eF~~~y~~~-~~a~a~a~~  107 (259)
                      ..+++.||=.=.  -.-.+|++++|+..|..++  +++|++|-..-+.-.-.=.||+.|+..|...|... ........ 
T Consensus         5 n~LI~~vlleeR--~~~~~~~~d~y~lkw~~~Ne~~LvfVvvYq~il~l~yvd~LL~~v~~~F~~~y~~~l~~~~~~~~-   81 (279)
T PF04086_consen    5 NALIRDVLLEER--SGNSSFTYDNYTLKWTLDNELGLVFVVVYQKILQLTYVDKLLDDVKKEFVKLYKNQLKQLKPNTS-   81 (279)
T ss_dssp             HHHHHHTGGG---------------EEEEEEETTTTEEEEEEES-GGGHHHHHHHHHHHHHHHHHHTHHHHHSSSTHHH-
T ss_pred             HHHHHHhheeec--cCCCceeEcCEEEEEEEeccCCEEEeeeecccccchHHHHHHHHHHHHHHHHHhHHhhccccccc-
Confidence            345555443211  1345689999999999986  69999999888887777779999999999999432 11111110 


Q ss_pred             ccccccccHHHHHHHHHhhhc
Q 038670          108 AIGVQEQLVPVIRRLITSLEN  128 (259)
Q Consensus       108 ~~~~~~eF~pvLq~lM~sln~  128 (259)
                       +..+.+|+.++.+++..++.
T Consensus        82 -~~~~~~Fd~~F~~~l~~~e~  101 (279)
T PF04086_consen   82 -INEYFDFDEEFDQLLKELEA  101 (279)
T ss_dssp             -HT-----HHHHHHHHHHHCC
T ss_pred             -cccchhHHHHHHHHHHHHHH
Confidence             00123888888888888774

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.

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

Probab=89.27  E-value=2  Score=43.50  Aligned_cols=86  Identities=10%  Similarity=0.158  Sum_probs=65.3

Q ss_pred             EEEEEEcCCeeEEeeeCCCCCH----HHHHHHHHhcCCCCCceEEEEeCCEEEEEEEeC--CEEEEEEecCCCChhhHHH
Q 038670            9 HYCSVSRGNRSLYVYSGGDHEI----ENLATLCLERTPPFHKWYFETIGKRIYGFLIED--GYAYFMIADEGLGNRGALQ   82 (259)
Q Consensus         9 lYA~VARg~tILAEys~~~gNf----~~ia~~iL~Klp~~~~k~s~~~g~y~FhyL~ed--givYlcItd~s~~k~iaF~   82 (259)
                      +++.+.+|+.||..|.+..-||    ..+++.+|-.-..  +-.+++.+.|+..|-.++  +++|+|+..+-..-.-+-.
T Consensus         4 ~faIFtkgG~vLw~~~~~~~~~~~~in~lI~~~ll~er~--~~~~~~~~~yTlk~q~~N~~~lvfvvvfqki~~L~yv~~   81 (587)
T KOG0781|consen    4 QFAIFTKGGLVLWCYQEVGDNLKGPINALIRSVLLSERG--GVNSFTFEAYTLKYQLDNQYSLVFVVVFQKILTLTYVDK   81 (587)
T ss_pred             eeeeecCCcEEEEEecccchhccchHHHHHHHHHHHhhc--CcccCchhheeEeeeecCCccEEEEEEEeccchhhhHHH
Confidence            4788899999999998655554    3455554433111  122378889999888875  6999999998888888888


Q ss_pred             HHHHHHHHHHHhhc
Q 038670           83 FLEHLRDEFKKVAK   96 (259)
Q Consensus        83 FLeeIk~eF~~~y~   96 (259)
                      ||+++.+.|...|.
T Consensus        82 ll~~v~~~f~e~~~   95 (587)
T KOG0781|consen   82 LLNDVLNLFREKYD   95 (587)
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999999994

>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=88.76  E-value=7.4  Score=31.86  Aligned_cols=80  Identities=16%  Similarity=0.136  Sum_probs=56.9

Q ss_pred             cCCeeEEeeeC-CC-CC----HHHHHHHHHhcCCCCCceEEEEeCCEEEEEEEeCCEEEEEEecCCCChhhHHHHHHHHH
Q 038670           15 RGNRSLYVYSG-GD-HE----IENLATLCLERTPPFHKWYFETIGKRIYGFLIEDGYAYFMIADEGLGNRGALQFLEHLR   88 (259)
Q Consensus        15 Rg~tILAEys~-~~-gN----f~~ia~~iL~Klp~~~~k~s~~~g~y~FhyL~edgivYlcItd~s~~k~iaF~FLeeIk   88 (259)
                      +|.++++.|-. .+ ..    |+.+...+..+-+  ..--...++++.|-|..-+++.|+++++.+..--..+.||..+-
T Consensus        11 ~G~~i~~k~y~~~~~~~~~~~~~~~~~~~~~~~~--~~~~i~~~~~~~~vy~~~~dl~~~~v~~~~eNel~~~e~l~~~v   88 (141)
T PF01217_consen   11 QGKRILSKYYRDVSEEERQKLFEKFIKKKSSRNS--KQSPIFEHDNYRIVYKRYSDLYFVVVGDENENELLLLEFLHRLV   88 (141)
T ss_dssp             TSEEEEEEESSTSTSHHHHHHHHHHHHHHHTSSS--SSTSEEEETTEEEEEEEETTEEEEEEESSTSBHHHHHHHHHHHH
T ss_pred             CCCEEEehhcCCccHHHHHHHHHHHHHHHHhccc--ccceeeecccceeeeEeeccEEEEEEeecccchHHHHHHHHHhh
Confidence            46688888742 22 12    2233333333321  11335778999999999999999999999998889999999999


Q ss_pred             HHHHHhhc
Q 038670           89 DEFKKVAK   96 (259)
Q Consensus        89 ~eF~~~y~   96 (259)
                      +-+...++
T Consensus        89 ~~l~~~~~   96 (141)
T PF01217_consen   89 EVLDDYFG   96 (141)
T ss_dssp             HHHHHHHS
T ss_pred             hhhhhhhc
Confidence            99988764

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.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	259
4afi_A	173	AP-3 complex subunit delta-1, vesicle-associated p	2e-17
2vx8_A	169	Nucleoporin-like protein RIP, vesicle-associated m	5e-16
3kyq_A	199	YKT6, synaptobrevin homolog YKT6; V-snare homolog,	2e-05
2nut_C	196	Vesicle-trafficking protein SEC22B; human copii SE	2e-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 = 76.7 bits (188), Expect = 2e-17
 Identities = 20/117 (17%), Positives = 43/117 (36%), Gaps = 4/117 (3%)

Query: 7   TVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFLIEDGYA 66
            + +  V+RG   L  ++        +    L + P  +     + G  ++ ++ +D   
Sbjct: 55  AILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIV 114

Query: 67  YFMIADEGLGNRGALQFLEHLRDEFKKVAKKGSRGSFSGMNAIGVQEQLVPVIRRLI 123
           Y  I D+      A  FL  ++  F+     GSR   +   A+    +   V+   +
Sbjct: 115 YLCITDDDFERSRAFSFLNEVKKRFQT--TYGSRAQTALPYAM--NSEFSSVLAAQL 167

>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 = 72.6 bits (177), Expect = 5e-16
 Identities = 20/119 (16%), Positives = 43/119 (36%), Gaps = 4/119 (3%)

Query: 5   QNTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFLIEDG 64
              + +  V+RG   L  ++        +    L + P  +     + G  ++ ++ +D 
Sbjct: 43  GMAILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDR 102

Query: 65  YAYFMIADEGLGNRGALQFLEHLRDEFKKVAKKGSRGSFSGMNAIGVQEQLVPVIRRLI 123
             Y  I D+      A  FL  ++  F+     GSR   +   A+    +   V+   +
Sbjct: 103 IVYLCITDDDFERSRAFSFLNEVKKRFQT--TYGSRAQTALPYAM--NSEFSSVLAAQL 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 = 43.3 bits (101), Expect = 2e-05
 Identities = 16/64 (25%), Positives = 28/64 (43%)

Query: 30  IENLATLCLERTPPFHKWYFETIGKRIYGFLIEDGYAYFMIADEGLGNRGALQFLEHLRD 89
           +   + L +ER+    +   +      + ++  D  A  +IAD    +R A   LE + D
Sbjct: 41  MTFTSQLIVERSAKGSRASVKEQEYLCHVYVRSDSLAGVVIADSEYPSRVAFTLLEKVLD 100

Query: 90  EFKK 93
           EF K
Sbjct: 101 EFSK 104

>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 = 40.6 bits (94), Expect = 2e-04
 Identities = 15/96 (15%), Positives = 32/96 (33%), Gaps = 10/96 (10%)

Query: 8  VHYCSVSRGNRSLYVYSGGDH---------EIENLATLCLERTPPFHKWYF-ETIGKRIY 57
          V    ++R    L + +             + ++ A     +             G   +
Sbjct: 3  VLLTMIARVADGLPLAASMQEDEQSGRDLQQYQSQAKQLFRKLNEQSPTRCTLEAGAMTF 62

Query: 58 GFLIEDGYAYFMIADEGLGNRGALQFLEHLRDEFKK 93
           ++IE G  Y ++ +     + A  +LE L  EF +
Sbjct: 63 HYIIEQGVCYLVLCEAAFPKKLAFAYLEDLHSEFDE 98

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	259
4afi_A	173	AP-3 complex subunit delta-1, vesicle-associated p	100.0
4b93_A	189	Vesicle-associated membrane protein 7; endocytosis	100.0
2vx8_A	169	Nucleoporin-like protein RIP, vesicle-associated m	99.97
2nut_C	196	Vesicle-trafficking protein SEC22B; human copii SE	99.94
3bw6_A	144	Synaptobrevin homolog YKT6; YKT6P, farnesylation,	99.87
3kyq_A	199	YKT6, synaptobrevin homolog YKT6; V-snare homolog,	99.69
2fh5_A	185	Signal recognition particle receptor alpha subunit	97.32
3tjz_C	153	Coatomer subunit zeta-1; protein trafficking, golg	88.77
1w63_Q	158	Adapter-related protein complex 1 sigma 1A subunit	88.33
2vgl_S	142	AP-2 complex subunit sigma-1; cytoplasmic vesicle,	87.6
2vgl_M	435	AP-2 complex subunit MU-1; cytoplasmic vesicle, al	84.66
1w63_M	423	Adaptor-related protein complex 1, MU 1 subunit; e	82.57

>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=7.2e-36  Score=256.45  Aligned_cols=119  Identities=14%  Similarity=0.272  Sum_probs=113.5

Q ss_pred             cceeEEEEEEcCCeeEEeeeCCCCCHHHHHHHHHhcCCCCCceEEEEeCCEEEEEEEeCCEEEEEEecCCCChhhHHHHH
Q 038670            5 QNTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFLIEDGYAYFMIADEGLGNRGALQFL   84 (259)
Q Consensus         5 ~~~IlYA~VARg~tILAEys~~~gNf~~ia~~iL~Klp~~~~k~s~~~g~y~FhyL~edgivYlcItd~s~~k~iaF~FL   84 (259)
                      .++|+|||||||++|||||+..+|||..+|++||+|+|+++.|+|++.++|+|||++++|++||||||+++++++||+||
T Consensus        53 ~M~I~Ya~VArg~tiLAE~t~~~gnf~~va~~iL~kip~~~~r~t~~~~~y~fHyl~~dgl~yl~i~D~~~~rr~aF~FL  132 (173)
T 4afi_A           53 AMAILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIVYLCITDDDFERSRAFSFL  132 (173)
T ss_dssp             CCCEEEEEEEETTEEEEEEESSCCCHHHHHHHHHTTSCSSSEEEEEEETTEEEEEEEETTEEEEEEEETTSCHHHHHHHH
T ss_pred             cccEEEEEEECCCEEEEEccCCCCCHHHHHHHHHHhCCCCCCeEEEEECCEEEEEEEECCEEEEEEECCccChhHHHHHH
Confidence            45699999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhh-ccCCCCCCCCccccccccccHHHHHHHHHhhhc
Q 038670           85 EHLRDEFKKVA-KKGSRGSFSGMNAIGVQEQLVPVIRRLITSLEN  128 (259)
Q Consensus        85 eeIk~eF~~~y-~~~~~a~a~a~~~~~~~~eF~pvLq~lM~sln~  128 (259)
                      ++|+++|.++| .++.++.+|+|     +.+|+++|+++|++||.
T Consensus       133 edI~~eF~~~yg~~~~ta~pya~-----~~eF~~~L~~~M~~yn~  172 (173)
T 4afi_A          133 NEVKKRFQTTYGSRAQTALPYAM-----NSEFSSVLAAQLKHHSE  172 (173)
T ss_dssp             HHHHHHHHHHHGGGGGTCCTTTT-----HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhchhhhhccCcch-----hHHHHHHHHHHHHHhcC
Confidence            99999999999 55678888887     88999999999999985

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

Probab=100.00  E-value=5.7e-35  Score=252.84  Aligned_cols=118  Identities=14%  Similarity=0.275  Sum_probs=111.2

Q ss_pred             ceeEEEEEEcCCeeEEeeeCCCCCHHHHHHHHHhcCCCCCceEEEEeCCEEEEEEEeCCEEEEEEecCCCChhhHHHHHH
Q 038670            6 NTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFLIEDGYAYFMIADEGLGNRGALQFLE   85 (259)
Q Consensus         6 ~~IlYA~VARg~tILAEys~~~gNf~~ia~~iL~Klp~~~~k~s~~~g~y~FhyL~edgivYlcItd~s~~k~iaF~FLe   85 (259)
                      ++|+|||||||++|||||+..+|||.++|++||+++|+.++|+||+.|+|+|||++++|++|+||||++||+++||+||+
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            67999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhh-ccCCCCCCCCccccccccccHHHHHHHHHhhhc
Q 038670           86 HLRDEFKKVA-KKGSRGSFSGMNAIGVQEQLVPVIRRLITSLEN  128 (259)
Q Consensus        86 eIk~eF~~~y-~~~~~a~a~a~~~~~~~~eF~pvLq~lM~sln~  128 (259)
                      +|+++|...| ..+.++.++++     +.+|+++|+++|+.++.
T Consensus        82 ~i~~eF~~~~~~~~~~~~~~~~-----~~~f~~~l~~~~~~y~d  120 (189)
T 4b93_A           82 EVKKRFQTTYGSRAQTALPYAM-----NSEFSSVLAAQLKHHSE  120 (189)
T ss_dssp             HHHHHHHHHHGGGGGTCCTTTT-----HHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHhhccccccccCCccc-----cchhhHHHHHHHHhhhc
Confidence            9999999999 44567777776     78999999999998874

>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=6.4e-31  Score=224.85  Aligned_cols=118  Identities=14%  Similarity=0.271  Sum_probs=105.1

Q ss_pred             ceeEEEEEEcCCeeEEeeeCCCCCHHHHHHHHHhcCCCCCceEEEEeCCEEEEEEEeCCEEEEEEecCCCChhhHHHHHH
Q 038670            6 NTVHYCSVSRGNRSLYVYSGGDHEIENLATLCLERTPPFHKWYFETIGKRIYGFLIEDGYAYFMIADEGLGNRGALQFLE   85 (259)
Q Consensus         6 ~~IlYA~VARg~tILAEys~~~gNf~~ia~~iL~Klp~~~~k~s~~~g~y~FhyL~edgivYlcItd~s~~k~iaF~FLe   85 (259)
                      ++|+|||||||++|||||++..+||..+++.||+++++.+.|.+|+.|+|+|||+++||++||||||++||+++||+||+
T Consensus        44 M~ilYa~VaRG~~VLae~t~~~gnf~~iak~ll~kl~~~~~r~s~~~~~y~fHyl~~ngl~yl~I~D~~yp~r~AF~fLe  123 (169)
T 2vx8_A           44 MAILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIVYLCITDDDFERSRAFSFLN  123 (169)
T ss_dssp             SCCCEEEEEETTEEEEEEESSCBSHHHHHHHHHTTSCSSCEEEEEEETTEEEEEEEETTEEEEEEEETTSCHHHHHHHHH
T ss_pred             CceEEEEEEcCCEEEEEeccCCCCHHHHHHHHHhhCCCCCCceEEEECCEEEEEEEECCEEEEEEEccccchHHHHHHHH
Confidence            67999999999999999999999999999999999999889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhc-cCCCCCCCCccccccccccHHHHHHHHHhhhc
Q 038670           86 HLRDEFKKVAK-KGSRGSFSGMNAIGVQEQLVPVIRRLITSLEN  128 (259)
Q Consensus        86 eIk~eF~~~y~-~~~~a~a~a~~~~~~~~eF~pvLq~lM~sln~  128 (259)
                      +|+++|.++|. .+.++.+|+|     +.+|+++|++.|++||.
T Consensus       124 dI~~eF~~~y~~~~~~a~pysf-----~~eF~~~Lk~~~~~~~~  162 (169)
T 2vx8_A          124 EVKKRFQTTYGSRAQTALPYAM-----NSEFSSVLAAQLKHHSE  162 (169)
T ss_dssp             HHHHHHHHHHTTGGGTCCTTTT-----HHHHHHHHSCC------
T ss_pred             HHHHHHHHHhhhhhhccCCcch-----hHHHHHHHHHHHHHhcC
Confidence            99999999994 4555667765     77999999999999973

>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=99.94  E-value=1.3e-26  Score=200.56  Aligned_cols=116  Identities=16%  Similarity=0.201  Sum_probs=103.0

Q ss_pred             eeEEEEEEcC--CeeEEeeeCCC---CC----HHHHHHHHHhcCCC-CCceEEEEeCCEEEEEEEeCCEEEEEEecCCCC
Q 038670            7 TVHYCSVSRG--NRSLYVYSGGD---HE----IENLATLCLERTPP-FHKWYFETIGKRIYGFLIEDGYAYFMIADEGLG   76 (259)
Q Consensus         7 ~IlYA~VARg--~tILAEys~~~---gN----f~~ia~~iL~Klp~-~~~k~s~~~g~y~FhyL~edgivYlcItd~s~~   76 (259)
                      ||+|+||||+  ++|||||++.+   |+    |.++++.+|+++|+ .+.++||+.|+|+|||++++|++|+||||++||
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  89999998643   44    89999999999997 789999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHHHhhcc-C-CCCCCCCccccccccccHHHHHHHHHhhhc
Q 038670           77 NRGALQFLEHLRDEFKKVAKK-G-SRGSFSGMNAIGVQEQLVPVIRRLITSLEN  128 (259)
Q Consensus        77 k~iaF~FLeeIk~eF~~~y~~-~-~~a~a~a~~~~~~~~eF~pvLq~lM~sln~  128 (259)
                      +++||+||++|+++|...|.. + ..+.+|++      .+|+++|+++|+.+|.
T Consensus        82 ~r~af~fL~~i~~~F~~~~~~~~~~~~~~~~~------~~f~~~l~~~~~~y~~  129 (196)
T 2nut_C           82 KKLAFAYLEDLHSEFDEQHGKKVPTVSRPYSF------IEFDTFIQKTKKLYID  129 (196)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTTTTTCCSTTTT------GGGHHHHHHHHTTTSC
T ss_pred             hHHHHHHHHHHHHHHHHhccchhccccCCCch------HHHHHHHHHHHHHhcC
Confidence            999999999999999999943 3 23566665      4999999999999875

>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=99.87  E-value=9.5e-22  Score=163.41  Aligned_cols=116  Identities=16%  Similarity=0.116  Sum_probs=95.8

Q ss_pred             cceeEEEEEEcC----CeeEEeeeCCC----------CCH-HHHHHHHHhcCCCCCceEEEEeCCEEEEEE-EeCCEEEE
Q 038670            5 QNTVHYCSVSRG----NRSLYVYSGGD----------HEI-ENLATLCLERTPPFHKWYFETIGKRIYGFL-IEDGYAYF   68 (259)
Q Consensus         5 ~~~IlYA~VARg----~tILAEys~~~----------gNf-~~ia~~iL~Klp~~~~k~s~~~g~y~FhyL-~edgivYl   68 (259)
                      .+.|+|.+|+|+    .++|+++++.+          ++| ..++++|++|+|+. .|.|++.++|+|||+ ++||++||
T Consensus         4 ~Mkl~~~~v~r~~~~~~~~L~~~~d~s~f~ffqr~sv~ef~~~~ar~i~~r~~~~-~R~sv~~~~y~fH~~~~~~gl~~l   82 (144)
T 3bw6_A            4 AMRIYYIGVFRSGGEKALELSEVKDLSQFGFFERSSVGQFMTFFAETVASRTGAG-QRQSIEEGNYIGHVYARSEGICGV   82 (144)
T ss_dssp             CCCEEEEEEEECCSSSCEEEEEEECCTTSCTTTTTHHHHHHHHHHHHHHHHCCTT-EEEEEEETTEEEEEEECTTSEEEE
T ss_pred             EEEEEEEEEEecCCCCCeEeEeeecccccChhhhhhHHHHHHHHHHHHHhhCCCC-ceEEEEeCCEEEEEEEecCCEEEE
Confidence            345666669997    78999999877          677 78999999999984 899999999999999 88999999


Q ss_pred             EEecCCCChhhHHHHHHHHHHHHHHhhc-c-CCC-CCCCCccccccccccHHHHHHHHHhhhc
Q 038670           69 MIADEGLGNRGALQFLEHLRDEFKKVAK-K-GSR-GSFSGMNAIGVQEQLVPVIRRLITSLEN  128 (259)
Q Consensus        69 cItd~s~~k~iaF~FLeeIk~eF~~~y~-~-~~~-a~a~a~~~~~~~~eF~pvLq~lM~sln~  128 (259)
                      ||||++||+++||.||++|+++|.++|. . +.+ +.+++      +.+| |.|.+.|+.+++
T Consensus        83 ~i~D~~yp~rvAF~~L~~i~~eF~~~y~~~~~~~~~~~~~------~~~f-~~l~~~i~kYqd  138 (144)
T 3bw6_A           83 LITDKEYPVRPAYTLLNKILDEYLVAHPKEEWADVTETND------ALKM-KQLDTYISKYQD  138 (144)
T ss_dssp             EEEETTSCHHHHHHHHHHHHHHHHHHSCGGGTTTCSSCCG------GGCC-THHHHHHHHTSC
T ss_pred             EEECCCCChhHHHHHHHHHHHHHHHHccchhhhhcccccC------Ccch-HHHHHHHHHhCc
Confidence            9999999999999999999999999993 3 433 33221      1355 788888887754

>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=99.69  E-value=1.9e-16  Score=138.23  Aligned_cols=113  Identities=21%  Similarity=0.197  Sum_probs=85.9

Q ss_pred             eeEEEEEEc-C---CeeEEeeeCCC----------CCHHHHH-HHHHhcCCCCCceEEEEeCCEEEE-EEEeCCEEEEEE
Q 038670            7 TVHYCSVSR-G---NRSLYVYSGGD----------HEIENLA-TLCLERTPPFHKWYFETIGKRIYG-FLIEDGYAYFMI   70 (259)
Q Consensus         7 ~IlYA~VAR-g---~tILAEys~~~----------gNf~~ia-~~iL~Klp~~~~k~s~~~g~y~Fh-yL~edgivYlcI   70 (259)
                      -|++-.|.+ +   .++|+...+.+          ++|-.++ +.+++++|+ +.|.|++.|+|+|| |+.+||++|+||
T Consensus         3 k~~~~~v~~~~~~~~~~l~~~~dlssf~~f~r~sv~ef~~f~~r~il~r~~~-~~r~s~~~~~y~fH~y~~~~gl~yl~i   81 (199)
T 3kyq_A            3 KLYSLSVFYKGEPKAVLLKAAYDVSSFSFFQRSSVQEFMTFTSQLIVERSAK-GSRASVKEQEYLCHVYVRSDSLAGVVI   81 (199)
T ss_dssp             CEEEEEEEEECSSCEEEEEEEECCTTSCTTTHHHHHHHHHHHHHHHHHTSCT-TEEEEEECSSEEEEEEECTTSEEEEEE
T ss_pred             eEEEEEEEEcCCCCceEEeeecccccccceehHhHHHHHHHHHHHHHhcCCC-CCeEEEEeCCEEEEEEEecCCEEEEEE
Confidence            355556665 2   25666554433          5666655 589999887 68999999999999 999999999999


Q ss_pred             ecCCCChhhHHHHHHHHHHHHHHhhcc--CCCCCCCCccccccccccHHHHHHHHHhhhc
Q 038670           71 ADEGLGNRGALQFLEHLRDEFKKVAKK--GSRGSFSGMNAIGVQEQLVPVIRRLITSLEN  128 (259)
Q Consensus        71 td~s~~k~iaF~FLeeIk~eF~~~y~~--~~~a~a~a~~~~~~~~eF~pvLq~lM~sln~  128 (259)
                      ||++||+++||+||++|+++|...|..  +..+.+ .      ..+| +.|.++|+.+|.
T Consensus        82 td~~yp~r~AF~fL~ei~~eF~~~~~~~~~~~~~~-~------~~~f-~~l~~~m~~Y~d  133 (199)
T 3kyq_A           82 ADSEYPSRVAFTLLEKVLDEFSKQVDRIDWPVGSP-A------TIHY-TALDGHLSRYQN  133 (199)
T ss_dssp             EETTSCHHHHHHHHHHHHHHHHHHSCGGGSTTCCT-T------TCCC-CTHHHHHHHTTS
T ss_pred             ECCCCCHHHHHHHHHHHHHHHHHhccchhhhcccc-c------cccc-HHHHHHHHHhCC
Confidence            999999999999999999999999942  322211 1      1246 678888888764

>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=97.32  E-value=0.00062  Score=58.81  Aligned_cols=116  Identities=11%  Similarity=0.114  Sum_probs=74.5

Q ss_pred             EEEEEEcCCeeEEeeeCCCC----CHHHHHHHHHhcCCCCCceEEEEeCCEEEEEEEeC--CEEEEEEecCCCChhhHHH
Q 038670            9 HYCSVSRGNRSLYVYSGGDH----EIENLATLCLERTPPFHKWYFETIGKRIYGFLIED--GYAYFMIADEGLGNRGALQ   82 (259)
Q Consensus         9 lYA~VARg~tILAEys~~~g----Nf~~ia~~iL~Klp~~~~k~s~~~g~y~FhyL~ed--givYlcItd~s~~k~iaF~   82 (259)
                      +.+.+.+|++||-.|+....    ....+++.+|=.=..  +..+|++|+|+..|..++  +++|++|-..-+.-.-.=.
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            46778899999998854332    344556655433222  234688999999999986  6999999888766666677


Q ss_pred             HHHHHHHHHHHhhccCCCC-CCCCccccccccccHHHHHHHHHhhhc
Q 038670           83 FLEHLRDEFKKVAKKGSRG-SFSGMNAIGVQEQLVPVIRRLITSLEN  128 (259)
Q Consensus        83 FLeeIk~eF~~~y~~~~~a-~a~a~~~~~~~~eF~pvLq~lM~sln~  128 (259)
                      ||++|+..|...|...... .++..  ......|+..+.+++..++.
T Consensus        91 LL~~v~~~Fv~~Y~~~L~~~~~~~~--~~~~~~Fd~~F~~~l~~~e~  135 (185)
T 2fh5_A           91 LIDDVHRLFRDKYRTEIQQQSALSL--LNGTFDFQNDFLRLLREAEE  135 (185)
T ss_dssp             HHHHHHHHHHHHTHHHHHSSSTHHH--HSCCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhccccccc--ccccCchhHHHHHHHHHHHH
Confidence            9999999999999432111 11100  00023577777777777664

>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=88.77  E-value=7.8  Score=31.63  Aligned_cols=88  Identities=11%  Similarity=0.115  Sum_probs=62.1

Q ss_pred             eeEEEEEE--cCCeeEEeeeCCC-CCH---HHHHHHHHhcCCCCCceEEEEeCCEEEEEEEeCCEEEEEEecCCCChhhH
Q 038670            7 TVHYCSVS--RGNRSLYVYSGGD-HEI---ENLATLCLERTPPFHKWYFETIGKRIYGFLIEDGYAYFMIADEGLGNRGA   80 (259)
Q Consensus         7 ~IlYA~VA--Rg~tILAEys~~~-gNf---~~ia~~iL~Klp~~~~k~s~~~g~y~FhyL~edgivYlcItd~s~~k~ia   80 (259)
                      ||..-+|-  +|.++|+.|-... ...   ..+.+.+..++...+. -...++++.|-|....++.|+++++.+..--..
T Consensus        12 mI~~ililn~~Gk~~lsK~Y~~~~~~~~~~~~~e~~i~~~~~r~~~-~i~~~~~~~~vy~~~~~Lyfv~~~~~~eNel~i   90 (153)
T 3tjz_C           12 TVKAILILDNDGDRLFAKYYDDTYPSVKEQKAFEKNIFNKTHRTDS-EIALLEGLTVVYKSSIDLYFYVIGSSYENELML   90 (153)
T ss_dssp             CEEEEEEECTTSCEEEEEECSSSSCSHHHHHHHHHHHHHHHSSCCC-CEEEETTEEEEEEECSSCEEEEEEETTSCHHHH
T ss_pred             HheEEEEECCCCCEEEEEeCCCCCCCHHHHHHHHHHHHHHHhCCCC-CEEEECCEEEEEEEECCEEEEEEEcCCCChHHH
Confidence            34344443  4779999975432 222   2223334444333232 356789999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhh
Q 038670           81 LQFLEHLRDEFKKVA   95 (259)
Q Consensus        81 F~FLeeIk~eF~~~y   95 (259)
                      +.||..+-+-+...+
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            999999999998877

>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=88.33  E-value=7.6  Score=31.59  Aligned_cols=82  Identities=6%  Similarity=-0.020  Sum_probs=56.0

Q ss_pred             cCCeeEEee-eCCCCCHH-HHHHHHHhcCCCC--CceEEEEeCCEEEEEEEeCCEEEEEEecCCCChhhHHHHHHHHHHH
Q 038670           15 RGNRSLYVY-SGGDHEIE-NLATLCLERTPPF--HKWYFETIGKRIYGFLIEDGYAYFMIADEGLGNRGALQFLEHLRDE   90 (259)
Q Consensus        15 Rg~tILAEy-s~~~gNf~-~ia~~iL~Klp~~--~~k~s~~~g~y~FhyL~edgivYlcItd~s~~k~iaF~FLeeIk~e   90 (259)
                      +|.++|+.| ......+. .+.+.+.+++...  ..--....+++.|-|...+++.|+|+++.+..--..+.||..+-+-
T Consensus        11 ~Gk~~lsk~y~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~vy~~~~~Lyfv~~~~~~~Nel~~le~L~~~vev   90 (158)
T 1w63_Q           11 QGKLRLQKWYLATSDKERKKMVRELMQVVLARKPKMCSFLEWRDLKVVYKRYASLYFCCAIEGQDNELITLELIHRYVEL   90 (158)
T ss_dssp             SSCEEEEEESSCCCHHHHHHHHHHHHHHHHTSCSSSCSEEEETTEEEEEEEETTEEEEEEECSSSCHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHHHHhccCCCCCCeEEECCEEEEEEEECCEEEEEEecCCCCHHHHHHHHHHHHHH
Confidence            466888876 33333322 2332222222211  1123567789999999999999999999999999999999999988


Q ss_pred             HHHhhc
Q 038670           91 FKKVAK   96 (259)
Q Consensus        91 F~~~y~   96 (259)
                      +...+.
T Consensus        91 l~~yf~   96 (158)
T 1w63_Q           91 LDKYFG   96 (158)
T ss_dssp             HHHHHS
T ss_pred             HHHHHc
Confidence            887663

>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=87.60  E-value=6  Score=31.43  Aligned_cols=80  Identities=13%  Similarity=0.130  Sum_probs=55.8

Q ss_pred             cCCeeEEeee-CCCCC----H-HHHHHHHHhcCCCCCceEEEEeCCEEEEEEEeCCEEEEEEecCCCChhhHHHHHHHHH
Q 038670           15 RGNRSLYVYS-GGDHE----I-ENLATLCLERTPPFHKWYFETIGKRIYGFLIEDGYAYFMIADEGLGNRGALQFLEHLR   88 (259)
Q Consensus        15 Rg~tILAEys-~~~gN----f-~~ia~~iL~Klp~~~~k~s~~~g~y~FhyL~edgivYlcItd~s~~k~iaF~FLeeIk   88 (259)
                      +|.++|+.|- ...+.    + +.+.+.++.+ ++ ..--....+++.|-|...+++.|+|+++.+..--..+.||..+-
T Consensus        11 ~Gk~~l~k~y~~~~~~~~~~~~~~f~~~v~~~-~~-~~~~~~~~~~~~~vy~~~~~Lyfv~~~~~~~N~l~~le~L~~~v   88 (142)
T 2vgl_S           11 AGKTRLAKWYMQFDDDEKQKLIEEVHAVVTVR-DA-KHTNFVEFRNFKIIYRRYAGLYFCICVDVNDNNLAYLEAIHNFV   88 (142)
T ss_dssp             TSCEEEEEECSCCCHHHHHHHHHHHHHHHHTC-CT-TSCSEEEETTEEEEEEEETTEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCChhhhHHHHHHHHHHHhcC-CC-CCCCEEEECCEEEEEEEECCEEEEEEeCCCCCHHHHHHHHHHHH
Confidence            4667787763 22222    1 2233344432 11 12235677899999999999999999999999999999999999


Q ss_pred             HHHHHhhc
Q 038670           89 DEFKKVAK   96 (259)
Q Consensus        89 ~eF~~~y~   96 (259)
                      +-+..-+.
T Consensus        89 e~l~~yf~   96 (142)
T 2vgl_S           89 EVLNEYFH   96 (142)
T ss_dssp             HHHHHHTT
T ss_pred             HHHHHHHc
Confidence            98887663

>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=84.66  E-value=14  Score=34.67  Aligned_cols=81  Identities=9%  Similarity=0.019  Sum_probs=56.2

Q ss_pred             cCCeeEEeeeCCCCCHHHHHHHHHhcCCCC---CceEEEEeCCEEEEEEEeCCEEEEEEecCCCChhhHHHHHHHHHHHH
Q 038670           15 RGNRSLYVYSGGDHEIENLATLCLERTPPF---HKWYFETIGKRIYGFLIEDGYAYFMIADEGLGNRGALQFLEHLRDEF   91 (259)
Q Consensus        15 Rg~tILAEys~~~gNf~~ia~~iL~Klp~~---~~k~s~~~g~y~FhyL~edgivYlcItd~s~~k~iaF~FLeeIk~eF   91 (259)
                      +|.++|+.|-..... ...+......+-..   ..--....+++.|-|...+++.|+|+++.+..--..+.||..+.+-+
T Consensus        11 ~Gk~~l~k~y~~~~~-~~~~~~f~~~v~~~~~~~~~~ii~~~~~~~vy~~~~~Lyfv~~~~~~~n~l~~le~L~~~v~vl   89 (435)
T 2vgl_M           11 KGEVLISRVYRDDIG-RNAVDAFRVNVIHARQQVRSPVTNIARTSFFHVKRSNIWLAAVTKQNVNAAMVFEFLYKMCDVM   89 (435)
T ss_dssp             TCCEEEEEECSSSCC-HHHHHHHHHHTTTCSSCCCCSEEEETTEEEEEEEETTEEEEEEESSCCCHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEecCCCCC-hhHHHHHHHHHhccccCCCCCEEEECCEEEEEEEECCEEEEEEecCCCCHHHHHHHHHHHHHHH
Confidence            466777776332222 22233332333211   12235678999999999999999999999999999999999999988


Q ss_pred             HHhhc
Q 038670           92 KKVAK   96 (259)
Q Consensus        92 ~~~y~   96 (259)
                      ...+.
T Consensus        90 ~~yf~   94 (435)
T 2vgl_M           90 AAYFG   94 (435)
T ss_dssp             HHHHS
T ss_pred             HHHHh
Confidence            87664

>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=82.57  E-value=6.2  Score=36.94  Aligned_cols=90  Identities=13%  Similarity=0.101  Sum_probs=59.5

Q ss_pred             eeEEEEEE-c-CCeeEEee-eC-CCC-CHHHHHHHHHhcCCCCCceEEEEeCCEEEEEEEeCCEEEEEEecCCCChhhHH
Q 038670            7 TVHYCSVS-R-GNRSLYVY-SG-GDH-EIENLATLCLERTPPFHKWYFETIGKRIYGFLIEDGYAYFMIADEGLGNRGAL   81 (259)
Q Consensus         7 ~IlYA~VA-R-g~tILAEy-s~-~~g-Nf~~ia~~iL~Klp~~~~k~s~~~g~y~FhyL~edgivYlcItd~s~~k~iaF   81 (259)
                      ||...+|. + |.++|+.| .. ... -.+..-+.++.+......--....+++.|-|...+++.|+|+++.+..--..+
T Consensus         2 MI~~i~I~~~~Gk~~l~k~y~~~~~~~~~~~f~~~v~~~~~~~~~~~~i~~~~~~~vy~~~~~Lyfv~~~~~~~n~l~~l   81 (423)
T 1w63_M            2 SASAVYVLDLKGKVLICRNYRGDVDMSEVEHFMPILMEKEEEGMLSPILAHGGVRFMWIKHNNLYLVATSKKNACVSLVF   81 (423)
T ss_dssp             CCCEEEEEETTTEECSCBCCSCSCTTTTHHHHHHHHHHHHHTSCCCSEEEETTEEEEEEEETTEEEEEEESSCCCTHHHH
T ss_pred             ceEEEEEECCCCCEEEEEecCCCCChHHHHHHHHHHhhccccCCCCCEEEECCEEEEEEEECCEEEEEEecCCCCHHHHH
Confidence            33344443 3 55666664 32 222 23344445554322111123567889999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhc
Q 038670           82 QFLEHLRDEFKKVAK   96 (259)
Q Consensus        82 ~FLeeIk~eF~~~y~   96 (259)
                      .||..+.+-+...+.
T Consensus        82 e~L~~~v~~l~~yf~   96 (423)
T 1w63_M           82 SFLYKVVQVFSEYFK   96 (423)
T ss_dssp             HHHHHHHHHHHHHSS
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999999998887663

---

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	259
d1ifqa_	127	d.110.4.1 (A:) Sec22b {Mouse (Mus musculus) [TaxId	1e-06
d1ioua_	140	d.110.4.1 (A:) Synaptobrevin homolog 1 ykt6 {Baker	9e-05

>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 = 44.4 bits (105), Expect = 1e-06
 Identities = 12/66 (18%), Positives = 25/66 (37%), Gaps = 1/66 (1%)

Query: 29 EIENLATLCLERTPP-FHKWYFETIGKRIYGFLIEDGYAYFMIADEGLGNRGALQFLEHL 87
          + ++ A     +             G   + ++IE G  Y ++ +     + A  +LE L
Sbjct: 32 QYQSQAKQLFRKLNEQSPTRCTLEAGAMTFHYIIEQGVCYLVLCEAAFPKKLAFAYLEDL 91

Query: 88 RDEFKK 93
            EF +
Sbjct: 92 HSEFDE 97

>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 = 39.4 bits (92), Expect = 9e-05
 Identities = 12/61 (19%), Positives = 20/61 (32%)

Query: 33  LATLCLERTPPFHKWYFETIGKRIYGFLIEDGYAYFMIADEGLGNRGALQFLEHLRDEFK 92
            A     RT    +   E      + +   +G    +I D+    R A   L  + DE+ 
Sbjct: 43  FAETVASRTGAGERQSIEEGNYIGHVYARSEGICGVLITDKQYPVRPAYTLLNKILDEYL 102

Query: 93  K 93
            
Sbjct: 103 V 103

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	259
d1ifqa_	127	Sec22b {Mouse (Mus musculus) [TaxId: 10090]}	99.95
d1ioua_	140	Synaptobrevin homolog 1 ykt6 {Baker's yeast (Sacch	99.5
d2fh5a1	129	Signal recognition particle receptor alpha subunit	97.66
d2vglm2	141	Mu2 adaptin (clathrin coat assembly protein AP50)	95.51
d2vgls_	142	Sigma2 adaptin (clathrin coat assembly protein AP1	94.19

>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=99.95  E-value=1.9e-27  Score=192.91  Aligned_cols=114  Identities=16%  Similarity=0.226  Sum_probs=99.3

Q ss_pred             eeEEEEEEcC--CeeEEeeeCCCCC-------HHHHHHHHHhcCCCC-CceEEEEeCCEEEEEEEeCCEEEEEEecCCCC
Q 038670            7 TVHYCSVSRG--NRSLYVYSGGDHE-------IENLATLCLERTPPF-HKWYFETIGKRIYGFLIEDGYAYFMIADEGLG   76 (259)
Q Consensus         7 ~IlYA~VARg--~tILAEys~~~gN-------f~~ia~~iL~Klp~~-~~k~s~~~g~y~FhyL~edgivYlcItd~s~~   76 (259)
                      +|+||+|||+  ++||||+++.+++       +..+|+.+|+|++++ +.++|++.|+|+|||+++||++||||||+++|
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            4899999996  4899999866543       335789999999864 78999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHHHhhcc--CCCCCCCCccccccccccHHHHHHHHHhh
Q 038670           77 NRGALQFLEHLRDEFKKVAKK--GSRGSFSGMNAIGVQEQLVPVIRRLITSL  126 (259)
Q Consensus        77 k~iaF~FLeeIk~eF~~~y~~--~~~a~a~a~~~~~~~~eF~pvLq~lM~sl  126 (259)
                      +++||+||++|+++|.++|..  .....||++      .+|+.+|+++++.+
T Consensus        81 ~~laF~fLeei~~eF~~~y~~~i~~~~rpy~F------i~Fd~~iqk~k~~y  126 (127)
T d1ifqa_          81 KKLAFAYLEDLHSEFDEQHGKKVPTVSRPYSF------IEFDTFIQKTKKLY  126 (127)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTTTTTCCSTTTT------GGGHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhhhhhhhcccCCcch------HHHHHHHHHHHHhc
Confidence            999999999999999999943  245567876      69999999999864

>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=99.50  E-value=3.8e-14  Score=115.34  Aligned_cols=105  Identities=14%  Similarity=0.071  Sum_probs=80.1

Q ss_pred             CeeEEeeeCCC----------CCH-HHHHHHHHhcCCCCCceEEEEeCCEEEE-EEEeCCEEEEEEecCCCChhhHHHHH
Q 038670           17 NRSLYVYSGGD----------HEI-ENLATLCLERTPPFHKWYFETIGKRIYG-FLIEDGYAYFMIADEGLGNRGALQFL   84 (259)
Q Consensus        17 ~tILAEys~~~----------gNf-~~ia~~iL~Klp~~~~k~s~~~g~y~Fh-yL~edgivYlcItd~s~~k~iaF~FL   84 (259)
                      .++|+...+.+          .+| .-+++.+.+++++. .|.+++.++|+|| |+.+||++|+||||.+||+++||.||
T Consensus        16 ~~~L~~a~Dlssf~ffqR~svkE~~~f~sr~i~~Rt~~g-~r~sv~~~~y~~h~yv~~~gl~~l~i~d~~Yp~r~AF~~L   94 (140)
T d1ioua_          16 ALELSEVKDLSQFGFFERSSVGQFMTFFAETVASRTGAG-ERQSIEEGNYIGHVYARSEGICGVLITDKQYPVRPAYTLL   94 (140)
T ss_dssp             EEEEEEEECCSSCCTTHHHHHHHHHHHHHHHHHHHCCSS-SEEEEEETTEEEEEECCSSSCEEEEEBCTTSCHHHHHHHH
T ss_pred             cEEEeeeccccccceeehHhHHHHHHHHHHHHhhcCCCC-ceEEEEcCCeEEEEEEeeCCEEEEEEECCCcchHHHHHHH
Confidence            36777666543          122 23888999999884 6999999999999 78899999999999999999999999


Q ss_pred             HHHHHHHHHhhc-cCCCCCCCCccccccccccHHHHHHHHHhhh
Q 038670           85 EHLRDEFKKVAK-KGSRGSFSGMNAIGVQEQLVPVIRRLITSLE  127 (259)
Q Consensus        85 eeIk~eF~~~y~-~~~~a~a~a~~~~~~~~eF~pvLq~lM~sln  127 (259)
                      ++|.++|.++|. ....+...+.     +..+-|.|..+|+.+.
T Consensus        95 ~~i~~eF~~~~~~~~~~~i~~~~-----~~~~~~~l~~~l~kYQ  133 (140)
T d1ioua_          95 NKILDEYLVAHPKEEWADVTETN-----DALKMKQLDTYISKYQ  133 (140)
T ss_dssp             HHHHHHHHHSSCHHHHTTCSCCC-----TTTSCHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcChHhhhhhhccc-----cccchHHHHHHHHHhC
Confidence            999999999994 2112222222     2345577888887764

>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=97.66  E-value=5.9e-05  Score=59.71  Aligned_cols=114  Identities=11%  Similarity=0.068  Sum_probs=74.3

Q ss_pred             EEEEEEcCCeeEEeeeCCCCCH----HHHHHHHHhcCCCCCceEEEEeCCEEEEEEEeC--CEEEEEEecCCCChhhHHH
Q 038670            9 HYCSVSRGNRSLYVYSGGDHEI----ENLATLCLERTPPFHKWYFETIGKRIYGFLIED--GYAYFMIADEGLGNRGALQ   82 (259)
Q Consensus         9 lYA~VARg~tILAEys~~~gNf----~~ia~~iL~Klp~~~~k~s~~~g~y~FhyL~ed--givYlcItd~s~~k~iaF~   82 (259)
                      .++.+.+|+.||=.|.....++    ..+++.+|=.=.  .+..+|+.++|+..|..++  +++|+++-..-..-.-.=.
T Consensus         4 ~f~IftkGGiVLW~~~~~~~~~~~~IN~LI~~vlLEER--~~~~~~~~d~y~lkw~~~Ne~~lvfV~vYQ~il~l~yvd~   81 (129)
T d2fh5a1           4 FFTIFSKGGLVLWCFQGVSDSCTGPVNALIRSVLLQER--GGNNSFTHEALTLKYKLDNQFELVFVVGFQKILTLTYVDK   81 (129)
T ss_dssp             EEEEEETTSBEEEEEBTTTBSCCCHHHHHHHHTGGGC---------CCCCCEEEEEEETTTTEEEEEEESCGGGHHHHHH
T ss_pred             EEEEEeCCeEEEEeecCCCcccchhHHHHHHHhheecc--cCCCceeECCEEEEEEEeccCCEEEEEEEhhhhchHHHHH
Confidence            4678899999999986544443    445555443211  2234588899999999986  6999999888777777778


Q ss_pred             HHHHHHHHHHHhhccC---CCCCCCCccccccccccHHHHHHHHHhhhc
Q 038670           83 FLEHLRDEFKKVAKKG---SRGSFSGMNAIGVQEQLVPVIRRLITSLEN  128 (259)
Q Consensus        83 FLeeIk~eF~~~y~~~---~~a~a~a~~~~~~~~eF~pvLq~lM~sln~  128 (259)
                      ||++|+.+|...|...   ..+....    ...-+|++.+.++++.++.
T Consensus        82 lL~~i~~~F~~~y~~~l~~~~~~~~~----~~~~~Fd~~F~~~l~~~e~  126 (129)
T d2fh5a1          82 LIDDVHRLFRDKYRTEIQQQSALSLL----NGTFDFQNDFLRLLREAEE  126 (129)
T ss_dssp             HHHHHHHHHHHHTHHHHHSSSTHHHH----SCCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhccccccccc----ccccchHHHHHHHHHHHHH
Confidence            9999999999999431   1111111    1123677777777766553