Citrus Sinensis ID: 030934

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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-------17
Protein Sequence
MQFFGGSEISPSPPVPTASGNNAHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTIA
Secondary Structure (PSIPRED)
ccccccccccccccccccccccEEEEEEEcccccEEEEHHHHHccccccccHHHHHHHHHHHHHHHHHccccccccccccccccccccccccEEEEEEccEEEEEEEccccEEEEEEEcccccHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccEEEEEEEEEccccEEEEEcccccccccccHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccEEEEEcccEEEEEEEcccccEEEEEEccccccHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
mqffggseispsppvptasgnnahMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLtakmdptnaekgnlgvpqlsgqgcsfhsfrtntyklsfmespsgikiilvthprtgdlRESLKYIYNLYVEYVvknplyapgtpirselFNTSLDQYVRTIA
Flexible Loop (DISEMBL)
mqffggseispsppvpTASGNNAHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYNLYVEYVVKNPLyapgtpirselfntsldqyvrtia
Low Complexity Region (SEG)
MQFFGGSEISPSPPVPTASGNNAHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTIA
Disordered region (IsUnstruct)
**********************AHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTA*************V*QLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYV****
Disordered Region (DISOPRED)
*****************ASGNNAHMMYVFNRNGVCLLYREW**************LMFGLLFSLKSLT*********************GCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTIA
Disordered Region (DISEMBL)
*************PVPTASGNNAHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTIA
Disordered Region (DISPRO)
**********PSPPVPTASGNNAHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTN****NLGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTIA
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MQFFGGSEISPSPPVPTASGNNAHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTIA
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	169	2.2.26 [Sep-21-2011]
Q2KMM2	145	Trafficking protein parti	yes	no	0.792	0.924	0.422	5e-28
Q5NCF2	145	Trafficking protein parti	yes	no	0.792	0.924	0.422	5e-28
Q9Y5R8	145	Trafficking protein parti	yes	no	0.792	0.924	0.416	3e-27
Q17QI1	145	Trafficking protein parti	yes	no	0.792	0.924	0.416	3e-27
Q557G3	142	Trafficking protein parti	yes	no	0.781	0.929	0.361	2e-25
Q9UT70	155	Transport protein particl	yes	no	0.775	0.845	0.303	2e-15
Q69BT7	219	Trafficking protein parti	no	no	0.568	0.438	0.318	1e-09
Q9ES56	219	Trafficking protein parti	no	no	0.568	0.438	0.318	1e-09
Q2TBL9	219	Trafficking protein parti	no	no	0.568	0.438	0.318	1e-09
Q5R9J9	219	Trafficking protein parti	no	no	0.568	0.438	0.318	2e-09

>sp|Q2KMM2|TPPC1_RAT Trafficking protein particle complex subunit 1 OS=Rattus norvegicus GN=Trappc1 PE=2 SV=1

 Score =  123 bits (309), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 63/149 (42%), Positives = 97/149 (65%), Gaps = 15/149 (10%)

Query: 22  NAHMMYVFNRNGVCLLYREWNRLLHT-LNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGN 80
             H +Y+F+RNGVCL Y EW+R     +  ++++KLM+G+LFS++S  +KM P + + G 
Sbjct: 2   TVHNLYLFDRNGVCLHYSEWHRKKQAGIPKEEEYKLMYGMLFSIRSFVSKMSPLDMKDG- 60

Query: 81  LGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYN-LYVEY 139
                       F SF+T+ YKL + E+P+GIK+++ T    G +R+ L +IY+ LYVE+
Sbjct: 61  ------------FLSFQTSRYKLHYYETPTGIKVVMNTDLGVGPIRDVLHHIYSALYVEF 108

Query: 140 VVKNPLYAPGTPIRSELFNTSLDQYVRTI 168
           VVKNPL   G  ++SELF + LD YVR++
Sbjct: 109 VVKNPLCPLGQTVQSELFRSRLDSYVRSL 137

May play a role in vesicular transport from endoplasmic reticulum to Golgi.
Rattus norvegicus (taxid: 10116)

>sp|Q5NCF2|TPPC1_MOUSE Trafficking protein particle complex subunit 1 OS=Mus musculus GN=Trappc1 PE=1 SV=1

 Score =  123 bits (309), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 63/149 (42%), Positives = 97/149 (65%), Gaps = 15/149 (10%)

Query: 22  NAHMMYVFNRNGVCLLYREWNRLLHT-LNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGN 80
             H +Y+F+RNGVCL Y EW+R     +  ++++KLM+G+LFS++S  +KM P + + G 
Sbjct: 2   TVHNLYLFDRNGVCLHYSEWHRKKQAGIPKEEEYKLMYGMLFSIRSFVSKMSPLDMKDG- 60

Query: 81  LGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYN-LYVEY 139
                       F SF+T+ YKL + E+P+GIK+++ T    G +R+ L +IY+ LYVE+
Sbjct: 61  ------------FLSFQTSRYKLHYYETPTGIKVVMNTDLGVGPIRDVLHHIYSALYVEF 108

Query: 140 VVKNPLYAPGTPIRSELFNTSLDQYVRTI 168
           VVKNPL   G  ++SELF + LD YVR++
Sbjct: 109 VVKNPLCPLGQTVQSELFRSRLDSYVRSL 137

May play a role in vesicular transport from endoplasmic reticulum to Golgi.

Mus musculus (taxid: 10090)

>sp|Q9Y5R8|TPPC1_HUMAN Trafficking protein particle complex subunit 1 OS=Homo sapiens GN=TRAPPC1 PE=1 SV=1

 Score =  121 bits (303), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 62/149 (41%), Positives = 96/149 (64%), Gaps = 15/149 (10%)

Query: 22  NAHMMYVFNRNGVCLLYREWNRLLHT-LNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGN 80
             H +Y+F+RNGVCL Y EW+R     +  ++++KLM+G+LFS++S  +KM P + + G 
Sbjct: 2   TVHNLYLFDRNGVCLHYSEWHRKKQAGIPKEEEYKLMYGMLFSIRSFVSKMSPLDMKDG- 60

Query: 81  LGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYN-LYVEY 139
                       F +F+T+ YKL + E+P+GIK+++ T    G +R+ L +IY+ LYVE 
Sbjct: 61  ------------FLAFQTSRYKLHYYETPTGIKVVMNTDLGVGPIRDVLHHIYSALYVEL 108

Query: 140 VVKNPLYAPGTPIRSELFNTSLDQYVRTI 168
           VVKNPL   G  ++SELF + LD YVR++
Sbjct: 109 VVKNPLCPLGQTVQSELFRSRLDSYVRSL 137

May play a role in vesicular transport from endoplasmic reticulum to Golgi.

Homo sapiens (taxid: 9606)

>sp|Q17QI1|TPPC1_BOVIN Trafficking protein particle complex subunit 1 OS=Bos taurus GN=TRAPPC1 PE=2 SV=1

 Score =  121 bits (303), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 62/149 (41%), Positives = 96/149 (64%), Gaps = 15/149 (10%)

Query: 22  NAHMMYVFNRNGVCLLYREWNRLLHT-LNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGN 80
             H +Y+F+RNGVCL Y EW+R     +  ++++KLM+G+LFS++S  +KM P + + G 
Sbjct: 2   TVHNLYLFDRNGVCLHYSEWHRKKQAGIPKEEEYKLMYGMLFSIRSFVSKMSPLDMKDG- 60

Query: 81  LGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYN-LYVEY 139
                       F +F+T+ YKL + E+P+GIK+++ T    G +R+ L +IY+ LYVE 
Sbjct: 61  ------------FLAFQTSRYKLHYYETPTGIKVVMNTDLGVGPIRDVLHHIYSALYVEL 108

Query: 140 VVKNPLYAPGTPIRSELFNTSLDQYVRTI 168
           VVKNPL   G  ++SELF + LD YVR++
Sbjct: 109 VVKNPLCPLGQTVQSELFRSRLDSYVRSL 137

May play a role in vesicular transport from endoplasmic reticulum to Golgi.

Bos taurus (taxid: 9913)

>sp|Q557G3|TPPC1_DICDI Trafficking protein particle complex subunit 1 OS=Dictyostelium discoideum GN=trappc1-1 PE=3 SV=1

 Score =  114 bits (286), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 52/144 (36%), Positives = 87/144 (60%), Gaps = 12/144 (8%)

Query: 26  MYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQ 85
           +Y+FN++G C+ Y +WN+   + N  +D KL+FG+L+SLK+      P   +        
Sbjct: 5   IYIFNKDGTCIYYEDWNKKKQSQNQSEDQKLLFGMLYSLKAFITSSSPKKIDDKT----- 59

Query: 86  LSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYN-LYVEYVVKNP 144
                  FH ++T+TYKL + E+ S IK I+++ P   DLR+ LK IY+ ++VEYV+KNP
Sbjct: 60  ------GFHCYKTSTYKLHYYETLSCIKFIIMSDPNVPDLRDDLKKIYSQIFVEYVIKNP 113

Query: 145 LYAPGTPIRSELFNTSLDQYVRTI 168
           +Y  GT ++ + F   L+ Y++ +
Sbjct: 114 IYKHGTTVKCDTFINQLNLYLKQM 137

May play a role in vesicular transport from endoplasmic reticulum to Golgi.

Dictyostelium discoideum (taxid: 44689)

>sp|Q9UT70|BET5_SCHPO Transport protein particle subunit bet5 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=bet5 PE=3 SV=2

 Score = 81.6 bits (200), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 50/165 (30%), Positives = 86/165 (52%), Gaps = 34/165 (20%)

Query: 24  HMMYVFNRNGVCLLYREWN----RLLHTLNAQQDH--------KLMFGLLFSLKSLTAKM 71
           +  Y+++R   C+    W       + TL +Q +         KL+FG++FSL+++    
Sbjct: 4   YAFYIYSRKCECVFAHRWKPSDRNSMETLVSQLEQNSIEDDMEKLIFGVVFSLRNM---- 59

Query: 72  DPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKY 131
                      V +++     F S+ T+ YKL F E+P+ +++I +T+P+   L   L+ 
Sbjct: 60  -----------VKKITADQDQFMSYTTSKYKLHFYETPTNLRLIFITNPKIDSLTHVLQQ 108

Query: 132 IY-NLYVEYVVKNPLYAPGTP------IRSELFNTSLDQYVRTIA 169
           IY  LYVE+VVK+PLY    P      I  E+F  +LD++VRT++
Sbjct: 109 IYTTLYVEFVVKHPLYTHVPPSAEEGGINCEIFRITLDRFVRTLS 153

May play a role in vesicular transport from endoplasmic reticulum to Golgi.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q69BT7|TPPC4_RAT Trafficking protein particle complex subunit 4 OS=Rattus norvegicus GN=Trappc4 PE=2 SV=1

 Score = 62.4 bits (150), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 35/110 (31%), Positives = 62/110 (56%), Gaps = 14/110 (12%)

Query: 53  DHKLMFGLLF-SLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSG 111
           + KLM   +F SL ++ +++ P   E+G+ G+  L           T+T+KL   ++ +G
Sbjct: 106 NEKLMLASMFHSLFAIGSQLSP---EQGSSGIEML----------ETDTFKLHCFQTLTG 152

Query: 112 IKIILVTHPRTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSL 161
           IK +++  PR   +   L+ IY +Y ++ +KNP Y+   PIR ELF+ +L
Sbjct: 153 IKFVVLADPRQAGIDSLLRKIYEIYSDFALKNPFYSLEMPIRCELFDQNL 202

May play a role in vesicular transport from endoplasmic reticulum to Golgi.

Rattus norvegicus (taxid: 10116)

>sp|Q9ES56|TPPC4_MOUSE Trafficking protein particle complex subunit 4 OS=Mus musculus GN=Trappc4 PE=1 SV=1

 Score = 62.4 bits (150), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 35/110 (31%), Positives = 62/110 (56%), Gaps = 14/110 (12%)

Query: 53  DHKLMFGLLF-SLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSG 111
           + KLM   +F SL ++ +++ P   E+G+ G+  L           T+T+KL   ++ +G
Sbjct: 106 NEKLMLASMFHSLFAIGSQLSP---EQGSSGIEML----------ETDTFKLHCFQTLTG 152

Query: 112 IKIILVTHPRTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSL 161
           IK +++  PR   +   L+ IY +Y ++ +KNP Y+   PIR ELF+ +L
Sbjct: 153 IKFVVLADPRQAGIDSLLRKIYEIYSDFALKNPFYSLEMPIRCELFDQNL 202

May play a role in vesicular transport from endoplasmic reticulum to Golgi. May play a role in dendrite postsynaptic membrane trafficking.

Mus musculus (taxid: 10090)

>sp|Q2TBL9|TPPC4_BOVIN Trafficking protein particle complex subunit 4 OS=Bos taurus GN=TRAPPC4 PE=2 SV=1

 Score = 62.4 bits (150), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 35/110 (31%), Positives = 62/110 (56%), Gaps = 14/110 (12%)

Query: 53  DHKLMFGLLF-SLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSG 111
           + KLM   +F SL ++ +++ P   E+G+ G+  L           T+T+KL   ++ +G
Sbjct: 106 NEKLMLASMFHSLFAIGSQLSP---EQGSSGIEML----------ETDTFKLHCFQTLTG 152

Query: 112 IKIILVTHPRTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSL 161
           IK +++  PR   +   L+ IY +Y ++ +KNP Y+   PIR ELF+ +L
Sbjct: 153 IKFVVLADPRQAGIDSLLRKIYEIYSDFALKNPFYSLEMPIRCELFDQNL 202

May play a role in vesicular transport from endoplasmic reticulum to Golgi.

Bos taurus (taxid: 9913)

>sp|Q5R9J9|TPPC4_PONAB Trafficking protein particle complex subunit 4 OS=Pongo abelii GN=TRAPPC4 PE=2 SV=1

 Score = 61.6 bits (148), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 35/110 (31%), Positives = 62/110 (56%), Gaps = 14/110 (12%)

Query: 53  DHKLMFGLLF-SLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSG 111
           + KLM   +F SL ++ +++ P   E+G+ G+  L           T+T+KL   ++ +G
Sbjct: 106 NEKLMLASMFHSLFAIGSQLSP---EQGSSGIEML----------ETDTFKLHCYQTLTG 152

Query: 112 IKIILVTHPRTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSL 161
           IK +++  PR   +   L+ IY +Y ++ +KNP Y+   PIR ELF+ +L
Sbjct: 153 IKFVVLADPRQAGIDSLLRKIYEIYSDFALKNPFYSLEMPIRCELFDQNL 202

May play a role in vesicular transport from endoplasmic reticulum to Golgi.

Pongo abelii (taxid: 9601)

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	169
217071594	169	unknown [Medicago truncatula] gi|3884931	1.0	1.0	0.928	3e-89
255545140	169	protein with unknown function [Ricinus c	1.0	1.0	0.917	1e-88
15223752	169	SNARE-like protein [Arabidopsis thaliana	1.0	1.0	0.905	3e-88
224134871	169	predicted protein [Populus trichocarpa]	1.0	1.0	0.905	7e-88
225455334	169	PREDICTED: trafficking protein particle	1.0	1.0	0.905	3e-86
225464644	169	PREDICTED: trafficking protein particle	1.0	1.0	0.905	9e-86
449456339	169	PREDICTED: trafficking protein particle	0.994	0.994	0.892	2e-85
358249032	170	uncharacterized protein LOC100819825 [Gl	1.0	0.994	0.905	2e-85
359807026	170	uncharacterized protein LOC100814071 [Gl	1.0	0.994	0.9	2e-83
357520281	171	Trafficking protein particle complex sub	1.0	0.988	0.847	7e-77

>gi|217071594|gb|ACJ84157.1| unknown [Medicago truncatula] gi|388493118|gb|AFK34625.1| unknown [Medicago truncatula] gi|388514053|gb|AFK45088.1| unknown [Medicago truncatula]

 Score =  332 bits (851), Expect = 3e-89,   Method: Compositional matrix adjust.
 Identities = 157/169 (92%), Positives = 163/169 (96%)

Query: 1   MQFFGGSEISPSPPVPTASGNNAHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGL 60
           MQFFGGSEISPSPP PTASGNN HM+YVFNRNG+CLLYREWNR LHTLNAQQDHKLMFGL
Sbjct: 1   MQFFGGSEISPSPPAPTASGNNGHMLYVFNRNGICLLYREWNRPLHTLNAQQDHKLMFGL 60

Query: 61  LFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHP 120
           LFSLKSLTAKMDPT+AEKGNLGVPQL GQGCSFHSFRTNTYKLSFMESPSGIKIILVTHP
Sbjct: 61  LFSLKSLTAKMDPTSAEKGNLGVPQLPGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHP 120

Query: 121 RTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTIA 169
           RTGDLR+SLKYIYNLYVEYVVKNPLY PG+PIRSELFNT+LDQYVR IA
Sbjct: 121 RTGDLRDSLKYIYNLYVEYVVKNPLYTPGSPIRSELFNTTLDQYVRGIA 169

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255545140|ref|XP_002513631.1| protein with unknown function [Ricinus communis] gi|223547539|gb|EEF49034.1| protein with unknown function [Ricinus communis]

 Score =  330 bits (846), Expect = 1e-88,   Method: Compositional matrix adjust.
 Identities = 155/169 (91%), Positives = 161/169 (95%)

Query: 1   MQFFGGSEISPSPPVPTASGNNAHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGL 60
           MQFFGGS+ISP PP PTASGNNAHMMYVFNRNGVCLLYREWNR LHTLNAQQDHKLMFGL
Sbjct: 1   MQFFGGSDISPLPPAPTASGNNAHMMYVFNRNGVCLLYREWNRSLHTLNAQQDHKLMFGL 60

Query: 61  LFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHP 120
           LFSLKSLTAKMDPT+ EKGNLG+PQ  GQGCSFHSFRTNTYKLSFMESPSGIKIILVTHP
Sbjct: 61  LFSLKSLTAKMDPTSGEKGNLGMPQFPGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHP 120

Query: 121 RTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTIA 169
           RTGDLRESLKYIYNLYVEYVVKNPLY PGTPIR ELFNTSLDQY+R++A
Sbjct: 121 RTGDLRESLKYIYNLYVEYVVKNPLYTPGTPIRCELFNTSLDQYIRSVA 169

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15223752|ref|NP_175528.1| SNARE-like protein [Arabidopsis thaliana] gi|79319655|ref|NP_001031168.1| SNARE-like protein [Arabidopsis thaliana] gi|297847478|ref|XP_002891620.1| hypothetical protein ARALYDRAFT_892078 [Arabidopsis lyrata subsp. lyrata] gi|4836927|gb|AAD30629.1|AC006085_2 Unknown protein [Arabidopsis thaliana] gi|12320789|gb|AAG50544.1|AC079828_15 unknown protein [Arabidopsis thaliana] gi|28466907|gb|AAO44062.1| At1g51160 [Arabidopsis thaliana] gi|110743933|dbj|BAE99800.1| hypothetical protein [Arabidopsis thaliana] gi|297337462|gb|EFH67879.1| hypothetical protein ARALYDRAFT_892078 [Arabidopsis lyrata subsp. lyrata] gi|332194507|gb|AEE32628.1| SNARE-like protein [Arabidopsis thaliana] gi|332194508|gb|AEE32629.1| SNARE-like protein [Arabidopsis thaliana]

 Score =  329 bits (843), Expect = 3e-88,   Method: Compositional matrix adjust.
 Identities = 153/169 (90%), Positives = 165/169 (97%)

Query: 1   MQFFGGSEISPSPPVPTASGNNAHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGL 60
           MQFFGGSEISPSPPVPTASGNNAHMMYVFNRNGVCLLY+EWNR LHTLN QQDHKLMFGL
Sbjct: 1   MQFFGGSEISPSPPVPTASGNNAHMMYVFNRNGVCLLYKEWNRPLHTLNPQQDHKLMFGL 60

Query: 61  LFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHP 120
           LFSLKSLTAKMDP NA+KGNLGVPQL GQGCSFHSFRTNTYKLSFME+PSGIKIILVTHP
Sbjct: 61  LFSLKSLTAKMDPVNADKGNLGVPQLPGQGCSFHSFRTNTYKLSFMETPSGIKIILVTHP 120

Query: 121 RTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTIA 169
           +TGDLRESLKYIY+LYVEYVVKNP+Y+PG+PI+SELFNT+LDQYVR+I+
Sbjct: 121 KTGDLRESLKYIYSLYVEYVVKNPIYSPGSPIKSELFNTALDQYVRSIS 169

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224134871|ref|XP_002327510.1| predicted protein [Populus trichocarpa] gi|222836064|gb|EEE74485.1| predicted protein [Populus trichocarpa]

 Score =  327 bits (839), Expect = 7e-88,   Method: Compositional matrix adjust.
 Identities = 153/169 (90%), Positives = 162/169 (95%)

Query: 1   MQFFGGSEISPSPPVPTASGNNAHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGL 60
           MQFFGGS+ISPSPP PTASGNNAHMMYVFNRNGVCLLYREWNR LHTLNAQQDHKLMFGL
Sbjct: 1   MQFFGGSDISPSPPAPTASGNNAHMMYVFNRNGVCLLYREWNRPLHTLNAQQDHKLMFGL 60

Query: 61  LFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHP 120
           LFSLKSLTAKMDPT+ +KGNLGVPQL GQGCSFHSFRTNTYKLSFME+PSGIKIIL+THP
Sbjct: 61  LFSLKSLTAKMDPTSMDKGNLGVPQLPGQGCSFHSFRTNTYKLSFMETPSGIKIILITHP 120

Query: 121 RTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTIA 169
           +TGDLRESLKYIYNLYVEYVVKNP+Y PG PIR ELFNTSLDQYVR+I+
Sbjct: 121 KTGDLRESLKYIYNLYVEYVVKNPIYTPGAPIRCELFNTSLDQYVRSIS 169

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225455334|ref|XP_002276578.1| PREDICTED: trafficking protein particle complex subunit 1 isoform 1 [Vitis vinifera] gi|359490712|ref|XP_003634147.1| PREDICTED: trafficking protein particle complex subunit 1 isoform 2 [Vitis vinifera] gi|302143925|emb|CBI23030.3| unnamed protein product [Vitis vinifera]

 Score =  322 bits (826), Expect = 3e-86,   Method: Compositional matrix adjust.
 Identities = 153/169 (90%), Positives = 160/169 (94%)

Query: 1   MQFFGGSEISPSPPVPTASGNNAHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGL 60
           MQFFGGS+ISP PP PTASGNNAHMMYVFN+NGVCLLYREWNR L TLNAQQDHKLMFGL
Sbjct: 1   MQFFGGSDISPLPPPPTASGNNAHMMYVFNKNGVCLLYREWNRSLRTLNAQQDHKLMFGL 60

Query: 61  LFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHP 120
           LFSLKSLTAKMDPT+ EKGNLGVPQL+GQGCSFHSFRTNTYKLSFMESPSGIKIILVTHP
Sbjct: 61  LFSLKSLTAKMDPTSVEKGNLGVPQLTGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHP 120

Query: 121 RTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTIA 169
           RTGDLRESLKYIYNLYVEYVVKNPLY+PG PIRSELFN +LDQYVR + 
Sbjct: 121 RTGDLRESLKYIYNLYVEYVVKNPLYSPGMPIRSELFNMTLDQYVRGLG 169

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225464644|ref|XP_002276513.1| PREDICTED: trafficking protein particle complex subunit 1 isoform 1 [Vitis vinifera] gi|359490457|ref|XP_003634094.1| PREDICTED: trafficking protein particle complex subunit 1 isoform 2 [Vitis vinifera] gi|147834231|emb|CAN66358.1| hypothetical protein VITISV_016122 [Vitis vinifera] gi|302143758|emb|CBI22619.3| unnamed protein product [Vitis vinifera]

 Score =  320 bits (821), Expect = 9e-86,   Method: Compositional matrix adjust.
 Identities = 153/169 (90%), Positives = 159/169 (94%)

Query: 1   MQFFGGSEISPSPPVPTASGNNAHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGL 60
           MQFFGGSEISP PP+PTASGNNAHMMYVFNRNGVCLLYREWNR L TLNAQQDHKLMFGL
Sbjct: 1   MQFFGGSEISPLPPLPTASGNNAHMMYVFNRNGVCLLYREWNRPLRTLNAQQDHKLMFGL 60

Query: 61  LFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHP 120
           LFSLKSLTAKMDPT+ EKGNLGVPQL GQGCSFHSFRTNTYKLSFMESPSGIKIILVTHP
Sbjct: 61  LFSLKSLTAKMDPTSVEKGNLGVPQLPGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHP 120

Query: 121 RTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTIA 169
            TGDLRESLKYIYNLYVEYVVKNPLY+PGTP RSELF+ +LDQYVR + 
Sbjct: 121 GTGDLRESLKYIYNLYVEYVVKNPLYSPGTPFRSELFDKALDQYVRGLG 169

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449456339|ref|XP_004145907.1| PREDICTED: trafficking protein particle complex subunit 1-like [Cucumis sativus]

 Score =  320 bits (819), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 150/168 (89%), Positives = 158/168 (94%)

Query: 1   MQFFGGSEISPSPPVPTASGNNAHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGL 60
           MQFFGGSEISPSPPVPTA+GNN HMMY+FNRNGVCL YREWNR L TLN QQDHKLMFGL
Sbjct: 1   MQFFGGSEISPSPPVPTATGNNVHMMYIFNRNGVCLFYREWNRPLRTLNPQQDHKLMFGL 60

Query: 61  LFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHP 120
           LFSLKS TAKMDPT+A+KGNLGVPQL GQGCSFHSFRTNTYKLSF E+PSGIKIILVTHP
Sbjct: 61  LFSLKSFTAKMDPTSADKGNLGVPQLPGQGCSFHSFRTNTYKLSFTETPSGIKIILVTHP 120

Query: 121 RTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTI 168
           RTGDLR+ LKYIYNLYVEYVVKNP+Y+PGTPIR ELFNTSLDQYVRTI
Sbjct: 121 RTGDLRDPLKYIYNLYVEYVVKNPIYSPGTPIRCELFNTSLDQYVRTI 168

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358249032|ref|NP_001240237.1| uncharacterized protein LOC100819825 [Glycine max] gi|255647710|gb|ACU24316.1| unknown [Glycine max]

 Score =  320 bits (819), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 154/170 (90%), Positives = 160/170 (94%), Gaps = 1/170 (0%)

Query: 1   MQFFGGSEISPSPPVPTASGNNAHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGL 60
           MQFFGGSEISPSPP PTASGNN HMMYVFNRNGVCLLYREWNR L TL+AQQD KLMFGL
Sbjct: 1   MQFFGGSEISPSPPAPTASGNNGHMMYVFNRNGVCLLYREWNRPLRTLDAQQDQKLMFGL 60

Query: 61  LFSLKSLTAKMDPTNA-EKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTH 119
           LFSLKSLTAKMDPT+A EKGNLG+PQL GQGCSFHSFRTNTYKLSFMESPSGIKIILVTH
Sbjct: 61  LFSLKSLTAKMDPTSAVEKGNLGMPQLPGQGCSFHSFRTNTYKLSFMESPSGIKIILVTH 120

Query: 120 PRTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTIA 169
           PRTGDLRESLKYIYNLYVEYVVKNPLY PG+PIR ELFNT+LDQYVR I+
Sbjct: 121 PRTGDLRESLKYIYNLYVEYVVKNPLYTPGSPIRCELFNTTLDQYVRGIS 170

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359807026|ref|NP_001241592.1| uncharacterized protein LOC100814071 [Glycine max] gi|255647649|gb|ACU24287.1| unknown [Glycine max]

 Score =  313 bits (801), Expect = 2e-83,   Method: Compositional matrix adjust.
 Identities = 153/170 (90%), Positives = 158/170 (92%), Gaps = 1/170 (0%)

Query: 1   MQFFGGSEISPSPPVPTASGNNAHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGL 60
           MQFFG SEISPSPP PTASGNN HMMYVFNRNGVCLLYREWNR L TL+AQQDHKLMFGL
Sbjct: 1   MQFFGVSEISPSPPAPTASGNNGHMMYVFNRNGVCLLYREWNRPLRTLDAQQDHKLMFGL 60

Query: 61  LFSLKSLTAKMDPTNA-EKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTH 119
           LFSLKSLTAKMDPT+A EKGNLG+ QL GQGCSFHSF TNTYKLSFMESPSGIKIILVTH
Sbjct: 61  LFSLKSLTAKMDPTSAVEKGNLGMLQLPGQGCSFHSFCTNTYKLSFMESPSGIKIILVTH 120

Query: 120 PRTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTIA 169
           PRTGDLRESLKYIYNLYVEYVVKNPLY PG+PIR ELFNT+LDQYVR IA
Sbjct: 121 PRTGDLRESLKYIYNLYVEYVVKNPLYTPGSPIRCELFNTTLDQYVRGIA 170

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357520281|ref|XP_003630429.1| Trafficking protein particle complex subunit [Medicago truncatula] gi|355524451|gb|AET04905.1| Trafficking protein particle complex subunit [Medicago truncatula]

 Score =  291 bits (744), Expect = 7e-77,   Method: Compositional matrix adjust.
 Identities = 145/171 (84%), Positives = 157/171 (91%), Gaps = 2/171 (1%)

Query: 1   MQFFGGSEISPSPPVPTAS--GNNAHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMF 58
           MQFFGGSEISPSPP    +  GNN HM+YVFNRNG+CLLY+EWNR LHTLN  QDHKLMF
Sbjct: 1   MQFFGGSEISPSPPAAPTAASGNNGHMLYVFNRNGICLLYKEWNRPLHTLNPHQDHKLMF 60

Query: 59  GLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVT 118
           GLLFSLKSLTAK+DPT+ +KGNLGVPQL GQGCSFH+FRTNTYKL+FME+PSGIKIILVT
Sbjct: 61  GLLFSLKSLTAKIDPTSPQKGNLGVPQLPGQGCSFHTFRTNTYKLTFMETPSGIKIILVT 120

Query: 119 HPRTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTIA 169
           HPRTGDLRESLKYIYNLYVEYVVKNPLY PG+PIRSELFNT+LDQYVR IA
Sbjct: 121 HPRTGDLRESLKYIYNLYVEYVVKNPLYTPGSPIRSELFNTTLDQYVRGIA 171

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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	169
TAIR|locus:2008326	169	AT1G51160 "AT1G51160" [Arabido	1.0	1.0	0.905	5e-83
MGI|MGI:1098727	145	Trappc1 "trafficking protein p	0.781	0.910	0.428	3.5e-27
RGD|1311365	145	Trappc1 "trafficking protein p	0.781	0.910	0.428	3.5e-27
UNIPROTKB|Q2KMM2	145	Trappc1 "Trafficking protein p	0.781	0.910	0.428	3.5e-27
ZFIN|ZDB-GENE-040718-242	145	trappc1 "trafficking protein p	0.781	0.910	0.408	1.5e-26
UNIPROTKB|Q17QI1	145	TRAPPC1 "Trafficking protein p	0.781	0.910	0.421	1.9e-26
UNIPROTKB|E2RTE6	145	TRAPPC1 "Uncharacterized prote	0.781	0.910	0.421	1.9e-26
UNIPROTKB|Q9Y5R8	145	TRAPPC1 "Trafficking protein p	0.781	0.910	0.421	1.9e-26
UNIPROTKB|F2Z5M0	145	TRAPPC1 "Uncharacterized prote	0.781	0.910	0.421	1.9e-26
DICTYBASE|DDB_G0273579	142	DDB_G0273579 "Trafficking prot	0.769	0.915	0.373	1.6e-24

TAIR|locus:2008326 AT1G51160 "AT1G51160" [Arabidopsis thaliana (taxid:3702)]

 Score = 832 (297.9 bits), Expect = 5.0e-83, P = 5.0e-83
 Identities = 153/169 (90%), Positives = 165/169 (97%)

Query:     1 MQFFGGSEISPSPPVPTASGNNAHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGL 60
             MQFFGGSEISPSPPVPTASGNNAHMMYVFNRNGVCLLY+EWNR LHTLN QQDHKLMFGL
Sbjct:     1 MQFFGGSEISPSPPVPTASGNNAHMMYVFNRNGVCLLYKEWNRPLHTLNPQQDHKLMFGL 60

Query:    61 LFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHP 120
             LFSLKSLTAKMDP NA+KGNLGVPQL GQGCSFHSFRTNTYKLSFME+PSGIKIILVTHP
Sbjct:    61 LFSLKSLTAKMDPVNADKGNLGVPQLPGQGCSFHSFRTNTYKLSFMETPSGIKIILVTHP 120

Query:   121 RTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTIA 169
             +TGDLRESLKYIY+LYVEYVVKNP+Y+PG+PI+SELFNT+LDQYVR+I+
Sbjct:   121 KTGDLRESLKYIYSLYVEYVVKNPIYSPGSPIKSELFNTALDQYVRSIS 169

GO:0003674 "molecular_function" evidence=ND

GO:0005794 "Golgi apparatus" evidence=ISM

GO:0005801 "cis-Golgi network" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0006888 "ER to Golgi vesicle-mediated transport" evidence=IEA

GO:0005829 "cytosol" evidence=IDA

GO:0009832 "plant-type cell wall biogenesis" evidence=RCA

GO:0010413 "glucuronoxylan metabolic process" evidence=RCA

GO:0045492 "xylan biosynthetic process" evidence=RCA

MGI|MGI:1098727 Trappc1 "trafficking protein particle complex 1" [Mus musculus (taxid:10090)]

 Score = 305 (112.4 bits), Expect = 3.5e-27, P = 3.5e-27
 Identities = 63/147 (42%), Positives = 97/147 (65%)

Query:    24 HMMYVFNRNGVCLLYREWNRLLHT-LNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLG 82
             H +Y+F+RNGVCL Y EW+R     +  ++++KLM+G+LFS++S  +KM P + + G   
Sbjct:     4 HNLYLFDRNGVCLHYSEWHRKKQAGIPKEEEYKLMYGMLFSIRSFVSKMSPLDMKDG--- 60

Query:    83 VPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYN-LYVEYVV 141
                       F SF+T+ YKL + E+P+GIK+++ T    G +R+ L +IY+ LYVE+VV
Sbjct:    61 ----------FLSFQTSRYKLHYYETPTGIKVVMNTDLGVGPIRDVLHHIYSALYVEFVV 110

Query:   142 KNPLYAPGTPIRSELFNTSLDQYVRTI 168
             KNPL   G  ++SELF + LD YVR++
Sbjct:   111 KNPLCPLGQTVQSELFRSRLDSYVRSL 137

GO:0005515 "protein binding" evidence=IPI

GO:0005783 "endoplasmic reticulum" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005801 "cis-Golgi network" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0006888 "ER to Golgi vesicle-mediated transport" evidence=IEA

GO:0008150 "biological_process" evidence=ND

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

GO:0030008 "TRAPP complex" evidence=IDA

RGD|1311365 Trappc1 "trafficking protein particle complex 1" [Rattus norvegicus (taxid:10116)]

 Score = 305 (112.4 bits), Expect = 3.5e-27, P = 3.5e-27
 Identities = 63/147 (42%), Positives = 97/147 (65%)

Query:    24 HMMYVFNRNGVCLLYREWNRLLHT-LNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLG 82
             H +Y+F+RNGVCL Y EW+R     +  ++++KLM+G+LFS++S  +KM P + + G   
Sbjct:     4 HNLYLFDRNGVCLHYSEWHRKKQAGIPKEEEYKLMYGMLFSIRSFVSKMSPLDMKDG--- 60

Query:    83 VPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYN-LYVEYVV 141
                       F SF+T+ YKL + E+P+GIK+++ T    G +R+ L +IY+ LYVE+VV
Sbjct:    61 ----------FLSFQTSRYKLHYYETPTGIKVVMNTDLGVGPIRDVLHHIYSALYVEFVV 110

Query:   142 KNPLYAPGTPIRSELFNTSLDQYVRTI 168
             KNPL   G  ++SELF + LD YVR++
Sbjct:   111 KNPLCPLGQTVQSELFRSRLDSYVRSL 137

GO:0005783 "endoplasmic reticulum" evidence=IEA

GO:0005801 "cis-Golgi network" evidence=IEA

GO:0006888 "ER to Golgi vesicle-mediated transport" evidence=IEA

GO:0030008 "TRAPP complex" evidence=IEA;ISO

UNIPROTKB|Q2KMM2 Trappc1 "Trafficking protein particle complex subunit 1" [Rattus norvegicus (taxid:10116)]

 Score = 305 (112.4 bits), Expect = 3.5e-27, P = 3.5e-27
 Identities = 63/147 (42%), Positives = 97/147 (65%)

Query:    24 HMMYVFNRNGVCLLYREWNRLLHT-LNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLG 82
             H +Y+F+RNGVCL Y EW+R     +  ++++KLM+G+LFS++S  +KM P + + G   
Sbjct:     4 HNLYLFDRNGVCLHYSEWHRKKQAGIPKEEEYKLMYGMLFSIRSFVSKMSPLDMKDG--- 60

Query:    83 VPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYN-LYVEYVV 141
                       F SF+T+ YKL + E+P+GIK+++ T    G +R+ L +IY+ LYVE+VV
Sbjct:    61 ----------FLSFQTSRYKLHYYETPTGIKVVMNTDLGVGPIRDVLHHIYSALYVEFVV 110

Query:   142 KNPLYAPGTPIRSELFNTSLDQYVRTI 168
             KNPL   G  ++SELF + LD YVR++
Sbjct:   111 KNPLCPLGQTVQSELFRSRLDSYVRSL 137

GO:0006888 "ER to Golgi vesicle-mediated transport" evidence=IEA

ZFIN|ZDB-GENE-040718-242 trappc1 "trafficking protein particle complex 1" [Danio rerio (taxid:7955)]

 Score = 299 (110.3 bits), Expect = 1.5e-26, P = 1.5e-26
 Identities = 60/147 (40%), Positives = 95/147 (64%)

Query:    24 HMMYVFNRNGVCLLYREWNRLLHT-LNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLG 82
             H +Y+F+RNG CL Y EWNR     ++ +++ KLM+G+LFS++S  +KM P + + G   
Sbjct:     4 HNLYIFDRNGTCLHYSEWNRKKQAGISKEEEFKLMYGMLFSIRSFVSKMSPLDMKDG--- 60

Query:    83 VPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYN-LYVEYVV 141
                       F SF+TN YKL + E+P+GI++++ T     + RE+L+ IY+ LYV+ +V
Sbjct:    61 ----------FLSFQTNRYKLHYYETPTGIRLVMNTDLSAPNCRETLQQIYSTLYVDLIV 110

Query:   142 KNPLYAPGTPIRSELFNTSLDQYVRTI 168
             KNPL   G  ++SELFN+ LD ++R +
Sbjct:   111 KNPLCVLGESLQSELFNSKLDSFIRAL 137

GO:0005801 "cis-Golgi network" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0006888 "ER to Golgi vesicle-mediated transport" evidence=IEA

GO:0003674 "molecular_function" evidence=ND

UNIPROTKB|Q17QI1 TRAPPC1 "Trafficking protein particle complex subunit 1" [Bos taurus (taxid:9913)]

 Score = 298 (110.0 bits), Expect = 1.9e-26, P = 1.9e-26
 Identities = 62/147 (42%), Positives = 96/147 (65%)

Query:    24 HMMYVFNRNGVCLLYREWNRLLHT-LNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLG 82
             H +Y+F+RNGVCL Y EW+R     +  ++++KLM+G+LFS++S  +KM P + + G   
Sbjct:     4 HNLYLFDRNGVCLHYSEWHRKKQAGIPKEEEYKLMYGMLFSIRSFVSKMSPLDMKDG--- 60

Query:    83 VPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYN-LYVEYVV 141
                       F +F+T+ YKL + E+P+GIK+++ T    G +R+ L +IY+ LYVE VV
Sbjct:    61 ----------FLAFQTSRYKLHYYETPTGIKVVMNTDLGVGPIRDVLHHIYSALYVELVV 110

Query:   142 KNPLYAPGTPIRSELFNTSLDQYVRTI 168
             KNPL   G  ++SELF + LD YVR++
Sbjct:   111 KNPLCPLGQTVQSELFRSRLDSYVRSL 137

GO:0005783 "endoplasmic reticulum" evidence=IEA

GO:0030008 "TRAPP complex" evidence=IEA

GO:0006888 "ER to Golgi vesicle-mediated transport" evidence=IEA

UNIPROTKB|E2RTE6 TRAPPC1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 298 (110.0 bits), Expect = 1.9e-26, P = 1.9e-26
 Identities = 62/147 (42%), Positives = 96/147 (65%)

Query:    24 HMMYVFNRNGVCLLYREWNRLLHT-LNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLG 82
             H +Y+F+RNGVCL Y EW+R     +  ++++KLM+G+LFS++S  +KM P + + G   
Sbjct:     4 HNLYLFDRNGVCLHYSEWHRKKQAGIPKEEEYKLMYGMLFSIRSFVSKMSPLDMKDG--- 60

Query:    83 VPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYN-LYVEYVV 141
                       F +F+T+ YKL + E+P+GIK+++ T    G +R+ L +IY+ LYVE VV
Sbjct:    61 ----------FLAFQTSRYKLHYYETPTGIKVVMNTDLGVGPIRDVLHHIYSALYVELVV 110

Query:   142 KNPLYAPGTPIRSELFNTSLDQYVRTI 168
             KNPL   G  ++SELF + LD YVR++
Sbjct:   111 KNPLCPLGQTVQSELFRSRLDSYVRSL 137

GO:0030008 "TRAPP complex" evidence=IEA

GO:0006888 "ER to Golgi vesicle-mediated transport" evidence=IEA

UNIPROTKB|Q9Y5R8 TRAPPC1 "Trafficking protein particle complex subunit 1" [Homo sapiens (taxid:9606)]

 Score = 298 (110.0 bits), Expect = 1.9e-26, P = 1.9e-26
 Identities = 62/147 (42%), Positives = 96/147 (65%)

Query:    24 HMMYVFNRNGVCLLYREWNRLLHT-LNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLG 82
             H +Y+F+RNGVCL Y EW+R     +  ++++KLM+G+LFS++S  +KM P + + G   
Sbjct:     4 HNLYLFDRNGVCLHYSEWHRKKQAGIPKEEEYKLMYGMLFSIRSFVSKMSPLDMKDG--- 60

Query:    83 VPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYN-LYVEYVV 141
                       F +F+T+ YKL + E+P+GIK+++ T    G +R+ L +IY+ LYVE VV
Sbjct:    61 ----------FLAFQTSRYKLHYYETPTGIKVVMNTDLGVGPIRDVLHHIYSALYVELVV 110

Query:   142 KNPLYAPGTPIRSELFNTSLDQYVRTI 168
             KNPL   G  ++SELF + LD YVR++
Sbjct:   111 KNPLCPLGQTVQSELFRSRLDSYVRSL 137

GO:0006888 "ER to Golgi vesicle-mediated transport" evidence=IEA

GO:0030008 "TRAPP complex" evidence=IEA

GO:0005783 "endoplasmic reticulum" evidence=IEA

UNIPROTKB|F2Z5M0 TRAPPC1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 298 (110.0 bits), Expect = 1.9e-26, P = 1.9e-26
 Identities = 62/147 (42%), Positives = 96/147 (65%)

Query:    24 HMMYVFNRNGVCLLYREWNRLLHT-LNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLG 82
             H +Y+F+RNGVCL Y EW+R     +  ++++KLM+G+LFS++S  +KM P + + G   
Sbjct:     4 HNLYLFDRNGVCLHYSEWHRKKQAGIPKEEEYKLMYGMLFSIRSFVSKMSPLDMKDG--- 60

Query:    83 VPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYN-LYVEYVV 141
                       F +F+T+ YKL + E+P+GIK+++ T    G +R+ L +IY+ LYVE VV
Sbjct:    61 ----------FLAFQTSRYKLHYYETPTGIKVVMNTDLGVGPIRDVLHHIYSALYVELVV 110

Query:   142 KNPLYAPGTPIRSELFNTSLDQYVRTI 168
             KNPL   G  ++SELF + LD YVR++
Sbjct:   111 KNPLCPLGQTVQSELFRSRLDSYVRSL 137

GO:0030008 "TRAPP complex" evidence=IEA

GO:0006888 "ER to Golgi vesicle-mediated transport" evidence=IEA

DICTYBASE|DDB_G0273579 DDB_G0273579 "Trafficking protein particle complex subunit 1" [Dictyostelium discoideum (taxid:44689)]

 Score = 280 (103.6 bits), Expect = 1.6e-24, P = 1.6e-24
 Identities = 53/142 (37%), Positives = 88/142 (61%)

Query:    26 MYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQ 85
             +Y+FN++G C+ Y +WN+   + N  +D KL+FG+L+SLK+      P         +  
Sbjct:     5 IYIFNKDGTCIYYEDWNKKKQSQNQSEDQKLLFGMLYSLKAFITSSSPKK-------IDD 57

Query:    86 LSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYN-LYVEYVVKNP 144
              +G    FH ++T+TYKL + E+ S IK I+++ P   DLR+ LK IY+ ++VEYV+KNP
Sbjct:    58 KTG----FHCYKTSTYKLHYYETLSCIKFIIMSDPNVPDLRDDLKKIYSQIFVEYVIKNP 113

Query:   145 LYAPGTPIRSELFNTSLDQYVR 166
             +Y  GT ++ + F   L+ Y++
Sbjct:   114 IYKHGTTVKCDTFINQLNLYLK 135

GO:0006888 "ER to Golgi vesicle-mediated transport" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0005801 "cis-Golgi network" evidence=IEA

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

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005783 "endoplasmic reticulum" 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

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

Your Input:
	AT1G51160	synbindin, putative; synbindin, putative; FUNCTIONS IN- molecular_function unknown; INVOLVED IN- transport, ER to Golgi vesicle-mediated transport; LOCATED IN- cis-Golgi network; EXPRESSED IN- 22 plant structures; EXPRESSED DURING- 13 growth stages; CONTAINS InterPro DOMAIN/s- Sybindin-like protein (InterPro-IPR007233), Longin-like (InterPro-IPR011012); BEST Arabidopsis thaliana protein match is- synbindin, putative (TAIR-AT5G02280.1); Has 509 Blast hits to 509 proteins in 147 species- Archae - 0; Bacteria - 0; Metazoa - 209; Fungi - 149; Plants - 57; Viruses - 0; Other Eukaryotes - 94 [...] (169 aa)
		(Arabidopsis thaliana)
Predicted Functional Partners:
	AT5G54750	transport protein particle (TRAPP) component Bet3, putative; transport protein particle (TRAPP) [...] (186 aa)				•	•		•		0.810
	AT5G02280	synbindin, putative; synbindin, putative; FUNCTIONS IN- molecular_function unknown; INVOLVED IN [...] (141 aa)				•	•		•	•	0.525
	AT1G80500	unknown protein; FUNCTIONS IN- molecular_function unknown; INVOLVED IN- transport, ER to Golgi [...] (135 aa)				•	•		•		0.466
	ATDAD1	ATDAD1 (DEFENDER AGAINST APOPTOTIC DEATH 1); Encodes protein involved in suppression of apoptos [...] (115 aa)				•			•		0.402

---

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	169
pfam04099	135	pfam04099, Sybindin, Sybindin-like family	8e-59
COG5122	134	COG5122, TRS23, Transport protein particle (TRAPP)	3e-12
pfam04628	127	pfam04628, Sedlin_N, Sedlin, N-terminal conserved	6e-09

>gnl|CDD|146632 pfam04099, Sybindin, Sybindin-like family

 Score =  179 bits (456), Expect = 8e-59
 Identities = 58/148 (39%), Positives = 86/148 (58%), Gaps = 15/148 (10%)

Query: 23  AHMMYVFNRNGVCLLYREWNRLLHT-LNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNL 81
            H +Y+FNR G  + Y+EW+R          ++KL+ G+L SL ++++K+ P        
Sbjct: 1   IHSLYIFNRAGGLIYYKEWHRPKQEGKLTTNEYKLLAGMLHSLHAISSKLSP-------- 52

Query: 82  GVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYN-LYVEYV 140
               L G      S  T+T+KL  +++ +GIK +LVT P TG  R+SL   Y  LY +YV
Sbjct: 53  ----LPGS-SGIESLETDTFKLHCLQTLTGIKFVLVTDPGTGPNRDSLLRKYYELYSDYV 107

Query: 141 VKNPLYAPGTPIRSELFNTSLDQYVRTI 168
           +KNP Y+   PIR ELF+  LDQYVR++
Sbjct: 108 LKNPFYSLEMPIRCELFDEKLDQYVRSL 135

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. Length = 135

>gnl|CDD|227451 COG5122, TRS23, Transport protein particle (TRAPP) complex subunit [Intracellular trafficking and secretion]

 Score = 60.3 bits (146), Expect = 3e-12
 Identities = 36/142 (25%), Positives = 63/142 (44%), Gaps = 14/142 (9%)

Query: 24  HMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGV 83
              ++ N++G  +  RE+      LN+ + + ++   L  + ++  +  P     G+ G 
Sbjct: 4   EQFFIINKSGGLIFQREFGEGETELNSNE-YLILASTLHGVSAILTQTIPL---PGSSGR 59

Query: 84  PQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYNLYVEYVVKN 143
             L  +      F+T T          G K + V   RT +    L+ IY+LY +YV KN
Sbjct: 60  LVLYFRNFVMTIFQTTT----------GTKFVFVAEKRTVNALFQLQKIYSLYSDYVTKN 109

Query: 144 PLYAPGTPIRSELFNTSLDQYV 165
           P Y+P  PI+  LF+  L +  
Sbjct: 110 PFYSPEMPIQCSLFDEHLKRMF 131

Length = 134

>gnl|CDD|218183 pfam04628, Sedlin_N, Sedlin, N-terminal conserved region

 Score = 51.1 bits (123), Expect = 6e-09
 Identities = 23/76 (30%), Positives = 39/76 (51%), Gaps = 8/76 (10%)

Query: 97  RTNTYKLSFMESPSGIKIILV---THPRTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIR 153
             N   +S   + + IK IL+   +  R  D+++  + ++ LY++ ++ NP Y P  PIR
Sbjct: 55  SFNDLAVSGYVTNTHIKFILLHDSSTERDDDIKQFFREVHELYIKTLM-NPFYEPNDPIR 113

Query: 154 SELFNTSLDQYVRTIA 169
           S  F    D  VR +A
Sbjct: 114 SPAF----DAKVRRLA 125

Mutations in this protein are associated with the X-linked spondyloepiphyseal dysplasia tarda syndrome (OMIM:313400). This family represents an N-terminal conserved region. Length = 127

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	169
PF04099	142	Sybindin: Sybindin-like family ; InterPro: IPR0072	100.0
KOG3368	140	consensus Transport protein particle (TRAPP) compl	100.0
KOG3369	199	consensus Transport protein particle (TRAPP) compl	100.0
COG5122	134	TRS23 Transport protein particle (TRAPP) complex s	100.0
PF04628	132	Sedlin_N: Sedlin, N-terminal conserved region; Int	99.94
COG5603	136	TRS20 Subunit of TRAPP, an ER-Golgi tethering comp	99.91
KOG3487	139	consensus TRAPP 20 K subunit [Intracellular traffi	99.91
KOG3444	121	consensus Uncharacterized conserved protein [Funct	99.73
PF01217	141	Clat_adaptor_s: Clathrin adaptor complex small cha	95.24
PF13774	83	Longin: Regulated-SNARE-like domain; PDB: 1IOU_A 3	93.84
KOG0861	198	consensus SNARE protein YKT6, synaptobrevin/VAMP s	93.53
PF03164	415	Mon1: Trafficking protein Mon1; InterPro: IPR00435	92.4
PF08217	604	DUF1712: Fungal domain of unknown function (DUF171	82.82

>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=100.00  E-value=1.7e-45  Score=284.35  Aligned_cols=138  Identities=44%  Similarity=0.821  Sum_probs=104.8

Q ss_pred             eEEEEEEccCCceeeeeccccccc---CCChhhhHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcCCCCCcceeEEeeC
Q 030934           23 AHMMYVFNRNGVCLLYREWNRLLH---TLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTN   99 (169)
Q Consensus        23 iys~~Iink~g~~Iy~~ef~~~~~---~~~~~~e~~ll~g~lhSL~~i~~klsp~~~~~~~~g~~~~~~~~~~~~~~~T~   99 (169)
                      ||+||||||+|+|||+++|++...   .....||.++|+|++|||++|+.||+|.....+..       ..++|++++|+
T Consensus         1 IyslyI~nr~G~lIy~~~~~~~~~~~~~~~~~ne~~ll~g~l~sl~~i~~klsp~~~~~~~~-------~~~g~~~~~T~   73 (142)
T PF04099_consen    1 IYSLYIFNRSGGLIYYREWNRSKNEGQPKLSSNEYKLLAGMLHSLKAIASKLSPVDSKPNEP-------GSSGFESFETD   73 (142)
T ss_dssp             EEEEEEE-TTS-EEEEEETSSSS--E-SSSCHHHHHHHHHHHHHHHHHHHHT-SSSSSS-SS-------S--SEEEEEES
T ss_pred             CeEEEEEeCCcceeeehhhCCCCccccCCCChhHHHHHHhhHHHHHHHHHHhCCCCcccccc-------cceeEEEEEeC
Confidence            799999999999999999997541   12345889999999999999999999965432100       02579999999


Q ss_pred             CeEEEEEecCCceEEEEEeCCCChhH-HHHHHHHHHHHHHHHhcCCCCCCCCCccchhHHHHHHHHHHh
Q 030934          100 TYKLSFMESPSGIKIILVTHPRTGDL-RESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRT  167 (169)
Q Consensus       100 ~ykl~~~~T~TgiKFvl~td~~~~~~-~~~l~~iy~lYv~~v~kNPfy~~~~pI~s~~F~~~v~~~~~~  167 (169)
                      +||+|||||+||+||||+||++++++ ..+++.+|++|+|||+|||||++||||+|++||++|++++++
T Consensus        74 ~yklh~~eT~TGlKFvl~td~~~~~~~~~l~~~~~~lY~dyV~KNPfy~~~~pI~~~lF~~~l~~~~~~  142 (142)
T PF04099_consen   74 TYKLHCFETPTGLKFVLITDPNVPSLRDELLRIYYELYVDYVVKNPFYSLEMPIRCELFDTKLDQYVKS  142 (142)
T ss_dssp             S-EEEEEE-TTS-EEEEEE-TTCCHCHHHHHHHHHHHHHHHHHS-TTS-TTS----HHHHHHHHHHHHC
T ss_pred             CEEEEEEEcCcCcEEEEEecCCCccHHHHHHHHHHHHHHHHHhhCCCCCCCCcEehHHHHHHHHHHHhC
Confidence            99999999999999999999998554 566778888999999999999999999999999999999974

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.

>KOG3368 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=5.9e-43  Score=263.96  Aligned_cols=136  Identities=52%  Similarity=1.043  Sum_probs=126.9

Q ss_pred             ceeEEEEEEccCCceeeeecccccccC-CChhhhHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcCCCCCcceeEEeeC
Q 030934           21 NNAHMMYVFNRNGVCLLYREWNRLLHT-LNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTN   99 (169)
Q Consensus        21 m~iys~~Iink~g~~Iy~~ef~~~~~~-~~~~~e~~ll~g~lhSL~~i~~klsp~~~~~~~~g~~~~~~~~~~~~~~~T~   99 (169)
                      |+||+||||||+|+|||++||+++++. ...++|+|+++|+++||+.|++||+|.+..             .+|.+|.|+
T Consensus         1 Mtiy~~yIFdR~g~Cl~y~EW~r~~~s~~~~eee~KL~yGmlFSlkS~v~Kls~~d~k-------------~~f~sy~Ts   67 (140)
T KOG3368|consen    1 MTIYNFYIFDRNGVCLFYREWNRTKQSGIPNEEEAKLMYGMLFSLKSFVSKLSPGDVK-------------DGFLSYKTS   67 (140)
T ss_pred             CeEEEEEEEcCCccEEEehhcccccccCCchhHHHHHHHHHHhhHHHHHHhcCCCCcc-------------cCeeEEeec
Confidence            899999999999999999999987754 345567999999999999999999997652             359999999


Q ss_pred             CeEEEEEecCCceEEEEEeCCCChhHHHHHHHHHH-HHHHHHhcCCCCC--CCCCccchhHHHHHHHHHHhcC
Q 030934          100 TYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYN-LYVEYVVKNPLYA--PGTPIRSELFNTSLDQYVRTIA  169 (169)
Q Consensus       100 ~ykl~~~~T~TgiKFvl~td~~~~~~~~~l~~iy~-lYv~~v~kNPfy~--~~~pI~s~~F~~~v~~~~~~~~  169 (169)
                      .||+|+||||||+||||+||+++.++|++|++||+ +||+||+|||+|+  +++||+|+.|...++++++++|
T Consensus        68 ~YklhfyeTptglk~vl~Tdpk~~~ir~vLq~IYs~lyVE~Vvknpl~~~~~~~~i~~E~fr~~ld~~vrsl~  140 (140)
T KOG3368|consen   68 KYKLHFYETPTGLKFVLNTDPKAGSIRDVLQYIYSHLYVEYVVKNPLYTYDPGSPIRSELFRKILDRFVRSLP  140 (140)
T ss_pred             eeEEEEEEcCCCcEEEEecCCCcccHHHHHHHHHHHHHHHHHHcCcccccCCCCccchHHHHHHHHhhhccCC
Confidence            99999999999999999999999999999999999 9999999999999  9999999999999999999875

>KOG3369 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=3.1e-39  Score=254.27  Aligned_cols=134  Identities=25%  Similarity=0.521  Sum_probs=121.1

Q ss_pred             ceeEEEEEEccCCceeeeeccccc--------------------------------------------------------
Q 030934           21 NNAHMMYVFNRNGVCLLYREWNRL--------------------------------------------------------   44 (169)
Q Consensus        21 m~iys~~Iink~g~~Iy~~ef~~~--------------------------------------------------------   44 (169)
                      |.|++++||||+|++||++++..+                                                        
T Consensus         1 maI~~~~IINKsGgLIfq~e~~~~~~e~et~d~~l~~~~~~~vvaf~~kdgik~~~~~~~vNg~~v~g~~~~~Gl~~~~~   80 (199)
T KOG3369|consen    1 MAIESLFIINKSGGLIFQREFGNPRQELETFDLLLLASDLKVVVAFGSKDGIKVGHLVQAVNGENVNGYILYDGLSSPRN   80 (199)
T ss_pred             CceEEEEEEecCCcEEEEeecCCccccccchhhhhhhcccceeEEeecccccchhheeeeecccccccceecccccCccc
Confidence            789999999999999999999811                                                        


Q ss_pred             --------ccCCChhhhHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcCCCCCcceeEEeeCCeEEEEEecCCceEEEE
Q 030934           45 --------LHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIIL  116 (169)
Q Consensus        45 --------~~~~~~~~e~~ll~g~lhSL~~i~~klsp~~~~~~~~g~~~~~~~~~~~~~~~T~~ykl~~~~T~TgiKFvl  116 (169)
                              .++.+ .||.+.|++++||+++|+++++|...+             .|++.++|++|++|||+|.||+|||+
T Consensus        81 ypv~~~f~~p~~t-tNEkL~las~fhsl~aI~~qlsp~~ks-------------SGie~LetdtF~l~~~QTlTG~KFVv  146 (199)
T KOG3369|consen   81 YPVNGKFGRPKLT-TNEKLILASSFHSLFAISTQLSPEPKS-------------SGIEVLETDTFTLHIFQTLTGTKFVV  146 (199)
T ss_pred             cccccccCCCccc-ccchhhhhhhhcchhheeeccCCCCCC-------------CceEEEEeccEEEEEEEccCCcEEEE
Confidence                    01123 478999999999999999999998764             25789999999999999999999999


Q ss_pred             EeCCCChhHHHHHHHHHHHHHHHHhcCCCCCCCCCccchhHHHHHHHHHHhc
Q 030934          117 VTHPRTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTI  168 (169)
Q Consensus       117 ~td~~~~~~~~~l~~iy~lYv~~v~kNPfy~~~~pI~s~~F~~~v~~~~~~~  168 (169)
                      ++++....++.+|++||++|.|||+|||||+++|||||++||++|+.++.+.
T Consensus       147 is~~~~~~aD~lLrKiYelYsDyvlKNPfYSlEMPIRc~lFDe~lk~~le~~  198 (199)
T KOG3369|consen  147 IAEPGTQGADSLLRKIYELYSDYVLKNPFYSLEMPIRCELFDEKLKFLLESA  198 (199)
T ss_pred             EecCCchhHHHHHHHHHHHHHHHhhcCCccCcccceeHHHhhHHHHHHHhhc
Confidence            9999999999999999999999999999999999999999999999998764

>COG5122 TRS23 Transport protein particle (TRAPP) complex subunit [Intracellular trafficking and secretion]

Probab=100.00  E-value=1.8e-36  Score=224.16  Aligned_cols=134  Identities=22%  Similarity=0.440  Sum_probs=122.1

Q ss_pred             ceeEEEEEEccCCceeeeecccccccCCChhhhHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcCCCCCcceeEEeeCC
Q 030934           21 NNAHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNT  100 (169)
Q Consensus        21 m~iys~~Iink~g~~Iy~~ef~~~~~~~~~~~e~~ll~g~lhSL~~i~~klsp~~~~~~~~g~~~~~~~~~~~~~~~T~~  100 (169)
                      |.|..|+||||+|++||+|||.....+.++ ||++.|+|++||+++|+.|++|-..+             .+.+.+.+++
T Consensus         1 mave~~~iINksGglifqref~~~et~lns-neyLiLastlhgV~aI~tq~~p~~gs-------------sg~~~l~~~~   66 (134)
T COG5122           1 MAVEQFFIINKSGGLIFQREFGEGETELNS-NEYLILASTLHGVSAILTQTIPLPGS-------------SGRLVLYFRN   66 (134)
T ss_pred             CceeEEEEEecCCcEEEEEeccCCccccCc-ccEEEEeechhhhhhhhhhcccCCCC-------------CceEEEEecc
Confidence            789999999999999999999876656666 78999999999999999999996543             2468888999


Q ss_pred             eEEEEEecCCceEEEEEeCCCChhHHHHHHHHHHHHHHHHhcCCCCCCCCCccchhHHHHHHHHHHhc
Q 030934          101 YKLSFMESPSGIKIILVTHPRTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTI  168 (169)
Q Consensus       101 ykl~~~~T~TgiKFvl~td~~~~~~~~~l~~iy~lYv~~v~kNPfy~~~~pI~s~~F~~~v~~~~~~~  168 (169)
                      +.++.|+|.||+|||++++.+..+.+--++++|++|+|||+|||||+++|||+|.+||++|++++.++
T Consensus        67 f~m~I~qT~TG~kFV~~~~k~t~na~~ql~kiY~lYsdYV~knPfys~EMPI~c~lFde~lkrm~e~~  134 (134)
T COG5122          67 FVMTIFQTTTGTKFVFVAEKRTVNALFQLQKIYSLYSDYVTKNPFYSPEMPIQCSLFDEHLKRMFEGH  134 (134)
T ss_pred             EEEEEEEecCCcEEEEEecCCchhHHHHHHHHHHHHHHHhhcCCCCCcccceehhhhhHHHHHHhcCC
Confidence            99999999999999999999988888889999999999999999999999999999999999998754

>PF04628 Sedlin_N: Sedlin, N-terminal conserved region; InterPro: IPR006722 Sedlin is a 140 amino-acid protein with a putative role in endoplasmic reticulum-to-Golgi transport

Probab=99.94  E-value=1.6e-26  Score=176.12  Aligned_cols=125  Identities=24%  Similarity=0.366  Sum_probs=93.2

Q ss_pred             EEccCCceeeeecccccccCCChhhhHHHHHHHHH-HHHHHHHhcCCCCCCCCCCCCCcCCCCCcce-eEEeeCCeEEEE
Q 030934           28 VFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLF-SLKSLTAKMDPTNAEKGNLGVPQLSGQGCSF-HSFRTNTYKLSF  105 (169)
Q Consensus        28 Iink~g~~Iy~~ef~~~~~~~~~~~e~~ll~g~lh-SL~~i~~klsp~~~~~~~~g~~~~~~~~~~~-~~~~T~~ykl~~  105 (169)
                      |||++++|||.++|...+...+..+..+ +..++| |||.|.+++.....             .+.+ ..+.+++|++++
T Consensus         1 IIg~~n~PLy~~~~~~~~~~~~~~~~~l-~~~~~h~sLD~iee~~~~~~~-------------~~yLg~l~~~~~~~vyg   66 (132)
T PF04628_consen    1 IIGPNNNPLYIRSFPSEKESSSSDARHL-YQFIAHSSLDVIEEKLWKSSS-------------DMYLGLLDPFEDYKVYG   66 (132)
T ss_dssp             EE-TTS-EEEEEEE--ST-CGHHHHHHH-HHHHHHHHHHHHHHCCHCSSS-------------CSEEEEEEEETTEEEEE
T ss_pred             CCCCCCcceEEEecCCCcccccchHHHH-HHHHHHHHHHHHHHHHhhccc-------------ccccCceehhhhHHHHh
Confidence            8999999999999986543221112344 555666 89999888876111             1223 456789999999


Q ss_pred             EecCCceEEEEEeC-----CCChhHHHHHHHHHHHHHHHHhcCCCCCCCCCccchhHHHHHHHHHHh
Q 030934          106 MESPSGIKIILVTH-----PRTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRT  167 (169)
Q Consensus       106 ~~T~TgiKFvl~td-----~~~~~~~~~l~~iy~lYv~~v~kNPfy~~~~pI~s~~F~~~v~~~~~~  167 (169)
                      |+|+||+||||+++     .+.+++|.+|++||++|++++| ||||++++||+|+.|+++|++++++
T Consensus        67 yvT~t~~Kfvl~~~~~~~~~~d~~ik~fF~~vh~~Y~~~~~-NPF~~~~~~I~S~~Fd~~v~~l~~k  132 (132)
T PF04628_consen   67 YVTNTGIKFVLVHDMSDNSIRDEDIKQFFKEVHELYVKALC-NPFYQPGTPIKSPKFDSRVRALAKK  132 (132)
T ss_dssp             EETTT--EEEEEECGGG-S--HHHHHHHHHHHHHHHHHHHT-STTCGCT-HHHHHHHHHHHHHHHHH
T ss_pred             hhccCceeEEEEEecccCCcchHHHHHHHHHHHHHHHHHcc-CCCCCCCCCcCCHHHHHHHHHHhcC
Confidence            99999999999998     3467899999999999999887 9999999999999999999999975

Several missense mutations and deletion mutations in the SEDL gene, which result in protein truncation by frame shift, are responsible for spondyloepiphyseal dysplasia tarda, a progressive skeletal disorder (OMIM:313400). [].; GO: 0006888 ER to Golgi vesicle-mediated transport, 0005622 intracellular; PDB: 3PR6_A 2J3W_A 1H3Q_A.

>COG5603 TRS20 Subunit of TRAPP, an ER-Golgi tethering complex [Cell motility and secretion]

Probab=99.91  E-value=5.1e-24  Score=158.55  Aligned_cols=129  Identities=18%  Similarity=0.350  Sum_probs=101.4

Q ss_pred             EEEEEccCCceeeeecccccccCCChhhhHHHH-HHHHHHHHHHHHhcCCCCCCCCCCCCCcCCCCCcceeEEe-eCCeE
Q 030934           25 MMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLM-FGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFR-TNTYK  102 (169)
Q Consensus        25 s~~Iink~g~~Iy~~ef~~~~~~~~~~~e~~ll-~g~lhSL~~i~~klsp~~~~~~~~g~~~~~~~~~~~~~~~-T~~yk  102 (169)
                      +++||++.++|+|+++|....++... +.-++| ..++||.-.|...+.|.-.             .+++.+++ ..+-+
T Consensus         4 y~aIIg~KdnpVYe~e~~~~n~~~d~-~~~~~ln~fiihaSlDiv~~lqwsvN-------------~~Y~~~~d~f~~l~   69 (136)
T COG5603           4 YLAIIGEKDNPVYEREYDPINKTSDG-EYCRLLNQFIIHASLDIVVWLQWSVN-------------TSYFDCLDSFGDLR   69 (136)
T ss_pred             eEEEEecCCCceeeeeecCcCcccCH-HHHHHHhHHhhhhhHHHHHHHHHHhh-------------hHHHHHHHhhCCeE
Confidence            49999999999999999832222333 334444 4678855555666666532             23444444 36679


Q ss_pred             EEEEecCCceEEEEEeCCC-ChhHHHHHHHHHHHHHHHHhcCCCCCCCCCccchhHHHHHHHHHHhc
Q 030934          103 LSFMESPSGIKIILVTHPR-TGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTI  168 (169)
Q Consensus       103 l~~~~T~TgiKFvl~td~~-~~~~~~~l~~iy~lYv~~v~kNPfy~~~~pI~s~~F~~~v~~~~~~~  168 (169)
                      +++|.||+|+||+++|.+. ..++|.||+++|++|++.+| ||||++++||+|+.||.+|+.+.|.+
T Consensus        70 IsAYi~pSgmkf~~iH~n~s~~N~rsF~qevHely~ktLm-spfy~~~~pirsqafd~~Vr~~ar~~  135 (136)
T COG5603          70 ISAYIMPSGMKFLFIHQNQSRKNARSFLQEVHELYAKTLM-SPFYEPDEPIRSQAFDDGVREAARVC  135 (136)
T ss_pred             EEEEEccCCceEEEEeccchhhhHHHHHHHHHHHHHHHhh-CcccCCCccccchhhhhhHHHHHHhh
Confidence            9999999999999999775 57899999999999999888 99999999999999999999998864

>KOG3487 consensus TRAPP 20 K subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.91  E-value=9e-24  Score=159.02  Aligned_cols=130  Identities=15%  Similarity=0.242  Sum_probs=108.3

Q ss_pred             EEEEEccCCceeeeeccccccc-CCChhhhHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcCCCCCcceeEEe-eCCeE
Q 030934           25 MMYVFNRNGVCLLYREWNRLLH-TLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFR-TNTYK  102 (169)
Q Consensus        25 s~~Iink~g~~Iy~~ef~~~~~-~~~~~~e~~ll~g~lhSL~~i~~klsp~~~~~~~~g~~~~~~~~~~~~~~~-T~~yk  102 (169)
                      +|+|+++.++|+|+.||..+.+ +...++...|-..++|+.-.|.+++.|....             ++++.++ .+++-
T Consensus         4 yfaIig~~d~Pvye~e~~~~~~~~~~~~~~~~LN~FI~HAaLdiVde~~W~~sn-------------mYLktVDkfne~~   70 (139)
T KOG3487|consen    4 YFAIIGHCDNPVYEMEFGCPENSKAARDDNRHLNQFIVHAALDIVDELQWTTSN-------------MYLKTVDKFNELF   70 (139)
T ss_pred             EEEEEecCCCceEEeecCCCCcccccchhhHHHHHHHHHHHHHHHHHHHHHHHh-------------hHHHHHHhhccee
Confidence            7999999999999999985432 2333345666788999888888888887531             3333333 47799


Q ss_pred             EEEEecCCceEEEEEeCCCC-hhHHHHHHHHHHHHHHHHhcCCCCCCCCCccchhHHHHHHHHHHhc
Q 030934          103 LSFMESPSGIKIILVTHPRT-GDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTI  168 (169)
Q Consensus       103 l~~~~T~TgiKFvl~td~~~-~~~~~~l~~iy~lYv~~v~kNPfy~~~~pI~s~~F~~~v~~~~~~~  168 (169)
                      |++|+|++++||+|++..++ ++++.||+++|++|++++| ||||++++||+|+.||.+++.+.|++
T Consensus        71 VSAyvTas~i~f~mlh~~~~~~~ik~Ffqev~elyik~lm-npFy~~~dpirs~afd~kv~~~~rkh  136 (139)
T KOG3487|consen   71 VSAYVTASHIRFIMLHINRADDNIKLFFQEVHELYIKTLM-NPFYEINDPIRSPAFDHKVRGLARKH  136 (139)
T ss_pred             EEEEEccCcEEEEEEeeccccccHHHHHHHHHHHHHHHHh-CcccccCCccccHHHHHHHHHHHHHH
Confidence            99999999999999999885 6899999999999999888 99999999999999999999998864

>KOG3444 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.73  E-value=4.3e-17  Score=119.91  Aligned_cols=114  Identities=19%  Similarity=0.306  Sum_probs=89.2

Q ss_pred             eEEEEEEccCCceeeeecccccccCCChhhhHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcCCCCCcceeEEeeCCeE
Q 030934           23 AHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYK  102 (169)
Q Consensus        23 iys~~Iink~g~~Iy~~ef~~~~~~~~~~~e~~ll~g~lhSL~~i~~klsp~~~~~~~~g~~~~~~~~~~~~~~~T~~yk  102 (169)
                      +.++.++++.++++|.+.+...      +++.++.+....||+.|.++++...+....++ ++++    | .++.|++||
T Consensus         2 ~v~~av~g~kn~~lyi~s~t~~------e~~L~~~y~v~~sLDVieekvn~~gkg~~tsn-e~fL----G-LLy~ted~k   69 (121)
T KOG3444|consen    2 LVCLAVAGPKNEPLYIESITPK------EKELKLHYQVHLSLDVIEEKVNDPGKGERTSN-ELFL----G-LLYPTEDYK   69 (121)
T ss_pred             EEEEEEEcCCCCccEEEecCcH------HHHHHhHhhhhhhHHHHHHHhcCcccCccchh-hhhh----c-cccccccee
Confidence            5678999999999999988642      45667777777799999999965332211111 1222    1 678999999


Q ss_pred             EEEEecCCceEEEEEeCCC-----ChhHHHHHHHHHHHHHHHHhcCCCCCCC
Q 030934          103 LSFMESPSGIKIILVTHPR-----TGDLRESLKYIYNLYVEYVVKNPLYAPG  149 (169)
Q Consensus       103 l~~~~T~TgiKFvl~td~~-----~~~~~~~l~~iy~lYv~~v~kNPfy~~~  149 (169)
                      +++|.|+|.+||||++|..     ..++|.+||.+|-+|.|.. .||||-++
T Consensus        70 vYgfvtNTkVKFIlvvdssd~avreteiRsv~r~~h~l~td~~-~npfy~pg  120 (121)
T KOG3444|consen   70 VYGFVTNTKVKFILVVDSSDYAVRETEIRSVFRILHLLYTDLS-CNPFYLPG  120 (121)
T ss_pred             EEEEEeccEEEEEEEEcCCcceehhHHHHHHHHHHHHHHHHhe-ecceeccC
Confidence            9999999999999999875     4689999999999999955 59999886

>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=95.24  E-value=0.79  Score=34.57  Aligned_cols=91  Identities=15%  Similarity=0.368  Sum_probs=56.7

Q ss_pred             eEEEEEEccCCceeeeecccccccCCChhhhHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcCCCCCcceeEEeeCCeE
Q 030934           23 AHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYK  102 (169)
Q Consensus        23 iys~~Iink~g~~Iy~~ef~~~~~~~~~~~e~~ll~g~lhSL~~i~~klsp~~~~~~~~g~~~~~~~~~~~~~~~T~~yk  102 (169)
                      |.+++|+|++|+.++.|-|.. ..   . .+...++.-+.      .+.......            .+.+  +..++++
T Consensus         2 I~~i~i~n~~G~~i~~k~y~~-~~---~-~~~~~~~~~~~------~~~~~~~~~------------~~~i--~~~~~~~   56 (141)
T PF01217_consen    2 IKAILILNSQGKRILSKYYRD-VS---E-EERQKLFEKFI------KKKSSRNSK------------QSPI--FEHDNYR   56 (141)
T ss_dssp             EEEEEEEETTSEEEEEEESST-ST---S-HHHHHHHHHHH------HHHHTSSSS------------STSE--EEETTEE
T ss_pred             EEEEEEEcCCCCEEEehhcCC-cc---H-HHHHHHHHHHH------HHHHhcccc------------ccee--eecccce
Confidence            899999999999999999943 21   1 22233333222      112221110            0122  3456666


Q ss_pred             EEEEecCCceEEEEEeCCCChhH--HHHHHHHHHHHHHH
Q 030934          103 LSFMESPSGIKIILVTHPRTGDL--RESLKYIYNLYVEY  139 (169)
Q Consensus       103 l~~~~T~TgiKFvl~td~~~~~~--~~~l~~iy~lYv~~  139 (169)
                      + .|.-..++-|+++++.+..++  -++++.+.+++-+|
T Consensus        57 ~-vy~~~~dl~~~~v~~~~eNel~~~e~l~~~v~~l~~~   94 (141)
T PF01217_consen   57 I-VYKRYSDLYFVVVGDENENELLLLEFLHRLVEVLDDY   94 (141)
T ss_dssp             E-EEEEETTEEEEEEESSTSBHHHHHHHHHHHHHHHHHH
T ss_pred             e-eeEeeccEEEEEEeecccchHHHHHHHHHhhhhhhhh
Confidence            6 666678999999999877654  57788888776664

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.

>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=93.84  E-value=0.65  Score=31.88  Aligned_cols=44  Identities=16%  Similarity=0.310  Sum_probs=36.8

Q ss_pred             eEEeeCCeEEEEEecCCceEEEEEeCCCChh--HHHHHHHHHHHHHH
Q 030934           94 HSFRTNTYKLSFMESPSGIKIILVTHPRTGD--LRESLKYIYNLYVE  138 (169)
Q Consensus        94 ~~~~T~~ykl~~~~T~TgiKFvl~td~~~~~--~~~~l~~iy~lYv~  138 (169)
                      .+++.++|.+|++. ..|+-++++||...+.  .=.+|++|...|..
T Consensus        17 ~s~~~~~~~fh~~~-~~~i~~~citd~~~~~r~aF~fL~~i~~~F~~   62 (83)
T PF13774_consen   17 MSYESGNYVFHYLV-EDGIAYLCITDKSYPKRVAFAFLEEIKQEFIQ   62 (83)
T ss_dssp             EEEEETTEEEEEEE-ETTEEEEEEEETTS-HHHHHHHHHHHHHHHHH
T ss_pred             EEEEECCEEEEEEE-cCCeEEEEEEcCCCCcchHHHHHHHHHHHHHH
Confidence            67888999999999 9999999999998653  34788999887776

...

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

Probab=93.53  E-value=1  Score=36.48  Aligned_cols=97  Identities=13%  Similarity=0.133  Sum_probs=60.6

Q ss_pred             ceeEEEEEEcc--CCceeeeecccccccCCChhhhHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcCCCCCcceeEEee
Q 030934           21 NNAHMMYVFNR--NGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRT   98 (169)
Q Consensus        21 m~iys~~Iink--~g~~Iy~~ef~~~~~~~~~~~e~~ll~g~lhSL~~i~~klsp~~~~~~~~g~~~~~~~~~~~~~~~T   98 (169)
                      |.||++.|+++  +...|....+.-..=...  ..-..--.|-|--+.++++..|-.                 .+++.-
T Consensus         1 Mki~sl~V~~~~~~~~~ll~~a~dls~FsfF--qRssV~Efm~F~sktvaeRt~~g~-----------------rqsvk~   61 (198)
T KOG0861|consen    1 MKIYSLSVLHKGTSDVKLLKTASDLSSFSFF--QRSSVQEFMTFISKTVAERTGPGQ-----------------RQSVKH   61 (198)
T ss_pred             CceEEEEEEeeCCcchhhhhhhcccccccce--eeccHHHHHHHHHHHHHHhcCccc-----------------cccccc
Confidence            78999999998  333333333221100000  001222345566677888866532                 467777


Q ss_pred             CCeEEEEEecCCceEEEEEeCCCChh--HHHHHHHHHHHH
Q 030934           99 NTYKLSFMESPSGIKIILVTHPRTGD--LRESLKYIYNLY  136 (169)
Q Consensus        99 ~~ykl~~~~T~TgiKFvl~td~~~~~--~~~~l~~iy~lY  136 (169)
                      ++|++|+|.-+.|+--|+++|..=+.  .-.+|++|-.-|
T Consensus        62 ~~Y~~h~yvrndgL~~V~~~D~eYP~rvA~tLL~kvld~~  101 (198)
T KOG0861|consen   62 EEYLVHVYVRNDGLCGVLIADDEYPVRVAFTLLNKVLDEF  101 (198)
T ss_pred             ceeEEEEEEecCCeeEEEEecCcCchhHHHHHHHHHHHHH
Confidence            89999999999999999999987442  335666666555

>PF03164 Mon1: Trafficking protein Mon1; InterPro: IPR004353 Members of this family have been called SAND proteins [] although these proteins do not contain a SAND domain

Probab=92.40  E-value=3.6  Score=36.97  Aligned_cols=83  Identities=16%  Similarity=0.356  Sum_probs=59.6

Q ss_pred             EEEEEccCCceeeeecccccccCCChhhhHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcCCCCCcceeEEeeCCeEEE
Q 030934           25 MMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLS  104 (169)
Q Consensus        25 s~~Iink~g~~Iy~~ef~~~~~~~~~~~e~~ll~g~lhSL~~i~~klsp~~~~~~~~g~~~~~~~~~~~~~~~T~~ykl~  104 (169)
                      .++|+..+|.|||.|. +.       ++..--+.|++++|-.+.+.-.                  ..++.+..++.++.
T Consensus        13 h~fIlS~AGKPIysr~-G~-------e~~l~~~~g~~~aiiS~~~~~~------------------d~l~~i~~~~~~iv   66 (415)
T PF03164_consen   13 HFFILSSAGKPIYSRY-GD-------EDKLSSLMGVIQAIISFFQSNG------------------DELRSIRAGDHRIV   66 (415)
T ss_pred             eEEEECCCCceeEEec-CC-------hHHHHHHHHHHHHHHHHHHhCC------------------CcEEEEEeCCEEEE
Confidence            4899999999999985 32       2445566788887766654311                  13677888888887


Q ss_pred             EEecCCceEEEEEeCCCCh--hHHHHHHHHHH
Q 030934          105 FMESPSGIKIILVTHPRTG--DLRESLKYIYN  134 (169)
Q Consensus       105 ~~~T~TgiKFvl~td~~~~--~~~~~l~~iy~  134 (169)
                      + ..-+.+-+|.++....+  .++.-|+-+|.
T Consensus        67 f-l~r~pl~lv~vS~~~e~~~~l~~qL~~ly~   97 (415)
T PF03164_consen   67 F-LNRGPLILVAVSKTGESESQLRKQLDYLYS   97 (415)
T ss_pred             E-EecCCEEEEEEcCCcCCHHHHHHHHHHHHH
Confidence            4 45889999999887654  46777777775

In Saccharomyces cerevisiae a protein complex of Mon1 and Ccz1 functions with the small GTPase Ypt7 to mediate vesicle trafficking to the vacuole [, ]. The Mon1/Ccz1 complex is conserved in eukaryotic evolution and members of this family (previously known as DUF254) are distant homologues to domains of known structure that assemble into cargo vesicle adapter (AP) complexes [, ].

>PF08217 DUF1712: Fungal domain of unknown function (DUF1712); InterPro: IPR013176 The function of this fungal family of proteins is unknown

Probab=82.82  E-value=14  Score=35.12  Aligned_cols=111  Identities=19%  Similarity=0.302  Sum_probs=73.9

Q ss_pred             CceeeeecccccccCCChhhhHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcCCCCCcceeEEeeCCeEEEEEecCCce
Q 030934           33 GVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSGI  112 (169)
Q Consensus        33 g~~Iy~~ef~~~~~~~~~~~e~~ll~g~lhSL~~i~~klsp~~~~~~~~g~~~~~~~~~~~~~~~T~~ykl~~~~T~Tgi  112 (169)
                      .+.||+.-...   ...+.++.+...|+.-|+-.|++..++...                -+.+.|+.-++-+++--.|+
T Consensus        17 ~kILfY~p~~~---~~~~~neql~~IGL~qglv~Ft~~Fs~~~~----------------~~~I~T~K~r~v~~e~Ep~~   77 (604)
T PF08217_consen   17 KKILFYYPFEE---SETSLNEQLRQIGLAQGLVSFTRTFSPDDP----------------CDSIHTEKSRIVFYEPEPGF   77 (604)
T ss_pred             ceEEEEecCCc---cCCCHHHHHHHhhHHHHHHHHHHhcCCCCc----------------ccceeecceEEEEEEecCCE
Confidence            34566554411   112347889999999999999999988653                24578999999999999999


Q ss_pred             EEEEEeCC-C----C----hhHHHHHHHHHHHHHHHHhcCCCCCCCCCccchhHHHHHHHHHH
Q 030934          113 KIILVTHP-R----T----GDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVR  166 (169)
Q Consensus       113 KFvl~td~-~----~----~~~~~~l~~iy~lYv~~v~kNPfy~~~~pI~s~~F~~~v~~~~~  166 (169)
                      ++++..+. .    .    ..++..|++.|+.|.=  ..-||-..-.  .-+.|..+++.+..
T Consensus        78 Wi~l~I~~~~~~~~~~~~~~~L~~~L~~~Y~~F~L--~hGsfs~~l~--~r~~L~~~L~~F~~  136 (604)
T PF08217_consen   78 WIVLSINLPKEQSTKDGPEQYLLSVLKQAYSMFRL--FHGSFSSLLE--GREKLKDRLEDFFS  136 (604)
T ss_pred             EEEEEEecCcCCccccchHHHHHHHHHHHHHHHHH--HcCCHHHhcc--cHHHHHHHHHHHHH
Confidence            99887661 1    1    1267777777776643  2234433222  55666666666654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	169
2j3t_C	145	The Crystal Structure Of The Bet3-Trs33-Bet5-Trs23		4e-29
2zmv_A	227	Crystal Structure Of Synbindin Length = 227		2e-10
2j3t_D	219	The Crystal Structure Of The Bet3-Trs33-Bet5-Trs23		2e-10
3cue_C	159	Crystal Structure Of A Trapp Subassembly Activating		8e-09

>pdb|2J3T|C Chain C, The Crystal Structure Of The Bet3-Trs33-Bet5-Trs23 Complex Length = 145

Iteration: 1
 Score =  123 bits (309), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 63/149 (42%), Positives = 97/149 (65%), Gaps = 15/149 (10%)
Query: 22  NAHMMYVFNRNGVCLLYREWNRLLHT-LNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGN 80
             H +Y+F+RNGVCL Y EW+R     +  ++++KLM+G+LFS++S  +KM P + + G 
Sbjct: 2   TVHNLYLFDRNGVCLHYSEWHRKKQAGIPKEEEYKLMYGMLFSIRSFVSKMSPLDMKDG- 60
Query: 81  LGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYN-LYVEY 139
                       F SF+T+ YKL + E+P+GIK+++ T    G +R+ L +IY+ LYVE+
Sbjct: 61  ------------FLSFQTSRYKLHYYETPTGIKVVMNTDLGVGPIRDVLHHIYSALYVEF 108
Query: 140 VVKNPLYAPGTPIRSELFNTSLDQYVRTI 168
           VVKNPL   G  ++SELF + LD YVR++
Sbjct: 109 VVKNPLCPLGQTVQSELFRSRLDSYVRSL 137

>pdb|2ZMV|A Chain A, Crystal Structure Of Synbindin Length = 227

Iteration: 1
 Score = 61.6 bits (148), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 35/110 (31%), Positives = 62/110 (56%), Gaps = 14/110 (12%)
Query: 53  DHKLMFGLLF-SLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSG 111
           + KLM   +F SL ++ +++ P   E+G+ G+  L           T+T+KL   ++ +G
Sbjct: 106 NEKLMLASMFHSLFAIGSQLSP---EQGSSGIEML----------ETDTFKLHCYQTLTG 152
Query: 112 IKIILVTHPRTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSL 161
           IK +++  PR   +   L+ IY +Y ++ +KNP Y+   PIR ELF+ +L
Sbjct: 153 IKFVVLADPRQAGIDSLLRKIYEIYSDFALKNPFYSLEMPIRCELFDQNL 202

>pdb|2J3T|D Chain D, The Crystal Structure Of The Bet3-Trs33-Bet5-Trs23 Complex Length = 219

Iteration: 1
 Score = 61.6 bits (148), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 35/110 (31%), Positives = 62/110 (56%), Gaps = 14/110 (12%)
Query: 53  DHKLMFGLLF-SLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSG 111
           + KLM   +F SL ++ +++ P   E+G+ G+  L           T+T+KL   ++ +G
Sbjct: 106 NEKLMLASMFHSLFAIGSQLSP---EQGSSGIEML----------ETDTFKLHCYQTLTG 152
Query: 112 IKIILVTHPRTGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSL 161
           IK +++  PR   +   L+ IY +Y ++ +KNP Y+   PIR ELF+ +L
Sbjct: 153 IKFVVLADPRQAGIDSLLRKIYEIYSDFALKNPFYSLEMPIRCELFDQNL 202

>pdb|3CUE|C Chain C, Crystal Structure Of A Trapp Subassembly Activating The Rab Ypt1p Length = 159

Iteration: 1
 Score = 56.2 bits (134), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 36/127 (28%), Positives = 66/127 (51%), Gaps = 21/127 (16%)
Query: 27  YVFNRNGVCLLYREW----NRLLHTLNAQQ---DHKLMFGLLFSLKSLTAKMDPTNAEKG 79
           ++F+R+  C+  REW    N    T+N++Q   D KL++G++FSL+S+T K+   + +  
Sbjct: 7   WIFDRHCNCIFDREWTLASNSASGTINSKQNEEDAKLLYGMIFSLRSITQKLSKGSVKN- 65
Query: 80  NLGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYN-LYVE 138
                          S  T  Y++    + SG+  +L++  +     + L+YIY+ +YV+
Sbjct: 66  ------------DIRSISTGKYRVHTYCTASGLWFVLLSDFKQQSYTQVLQYIYSHIYVK 113
Query: 139 YVVKNPL 145
           YV  N L
Sbjct: 114 YVSNNLL 120

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	169
2j3t_C	145	Trafficking protein particle complex subunit 1, tr	3e-45
3cue_C	159	Transport protein particle 18 kDa subunit; membran	4e-44
2j3t_D	219	Trafficking protein particle complex subunit 4; tr	7e-34
3cue_A	219	Transport protein particle 23 kDa subunit; membran	3e-18
2j3w_A	142	Sedlin, trafficking protein particle complex prote	3e-15

>2j3t_C Trafficking protein particle complex subunit 1, trafficking protein particle complex subunit 3; trapp, palmitate, transport, lipoprotein, ER-golgi transport apparatus, protein transport; HET: PLM; 2.4A {Mus musculus} Length = 145

 Score =  144 bits (365), Expect = 3e-45
 Identities = 63/147 (42%), Positives = 96/147 (65%), Gaps = 15/147 (10%)

Query: 24  HMMYVFNRNGVCLLYREWNRLLHT-LNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLG 82
           H +Y+F+RNGVCL Y EW+R     +  ++++KLM+G+LFS++S  +KM P + + G   
Sbjct: 4   HNLYLFDRNGVCLHYSEWHRKKQAGIPKEEEYKLMYGMLFSIRSFVSKMSPLDMKDG--- 60

Query: 83  VPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIY-NLYVEYVV 141
                     F SF+T+ YKL + E+P+GIK+++ T    G +R+ L +IY  LYVE+VV
Sbjct: 61  ----------FLSFQTSRYKLHYYETPTGIKVVMNTDLGVGPIRDVLHHIYSALYVEFVV 110

Query: 142 KNPLYAPGTPIRSELFNTSLDQYVRTI 168
           KNPL   G  ++SELF + LD YVR++
Sbjct: 111 KNPLCPLGQTVQSELFRSRLDSYVRSL 137

>3cue_C Transport protein particle 18 kDa subunit; membrane traffic, GEF, tethering complex, RAB activation, GU nucleotide exchange factor; HET: PLM; 3.70A {Saccharomyces cerevisiae} Length = 159

 Score =  142 bits (359), Expect = 4e-44
 Identities = 35/166 (21%), Positives = 72/166 (43%), Gaps = 34/166 (20%)

Query: 24  HMMYVFNRNGVCLLYREWNRL-------LHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNA 76
           +  ++F+R+  C+  REW          +++   ++D KL++G++FSL+S+T K+     
Sbjct: 4   YSFWIFDRHCNCIFDREWTLASNSASGTINSKQNEEDAKLLYGMIFSLRSITQKLSKG-- 61

Query: 77  EKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIY-NL 135
                             S  T  Y++    + SG+  +L++  +     + L+YIY ++
Sbjct: 62  -----------SVKNDIRSISTGKYRVHTYCTASGLWFVLLSDFKQQSYTQVLQYIYSHI 110

Query: 136 YVEYVVKNPLYA-------------PGTPIRSELFNTSLDQYVRTI 168
           YV+YV  N L                   I +  F + L+ ++  +
Sbjct: 111 YVKYVSNNLLSPYDFAENENEMRGQGTRKITNRNFISVLESFLAPM 156

>2j3t_D Trafficking protein particle complex subunit 4; trapp, palmitate, transport, lipoprotein, ER-golgi transport apparatus, protein transport; HET: PLM; 2.4A {Homo sapiens} PDB: 2zmv_A 2jsn_A Length = 219

 Score =  117 bits (295), Expect = 7e-34
 Identities = 32/141 (22%), Positives = 59/141 (41%), Gaps = 13/141 (9%)

Query: 28  VFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLS 87
           V    G    Y    R         +  ++  +  SL ++ +++ P     G        
Sbjct: 82  VLEYLGNPANYPVSIRFGRPRLTSNEKLMLASMFHSLFAIGSQLSPEQGSSG-------- 133

Query: 88  GQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYNLYVEYVVKNPLYA 147
                     T+T+KL   ++ +GIK +++  PR   +   L+ IY +Y ++ +KNP Y+
Sbjct: 134 -----IEMLETDTFKLHCYQTLTGIKFVVLADPRQAGIDSLLRKIYEIYSDFALKNPFYS 188

Query: 148 PGTPIRSELFNTSLDQYVRTI 168
              PIR ELF+ +L   +   
Sbjct: 189 LEMPIRCELFDQNLKLALEVA 209

>3cue_A Transport protein particle 23 kDa subunit; membrane traffic, GEF, tethering complex, RAB activation, GU nucleotide exchange factor; HET: PLM; 3.70A {Saccharomyces cerevisiae} Length = 219

 Score = 77.4 bits (189), Expect = 3e-18
 Identities = 28/214 (13%), Positives = 68/214 (31%), Gaps = 72/214 (33%)

Query: 26  MYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGN----- 80
           + V N++G  +  R +      LN+  ++ ++   L  + ++ +++ P   +        
Sbjct: 6   ILVINKSGGLIYQRNFTNDEQKLNSN-EYLILASTLHGVFAIASQLTPKALQLTQQTNIE 64

Query: 81  ------------------------------------------LGVPQLSGQGCSFHSFRT 98
                                                        P  +          T
Sbjct: 65  NTIPYIPYVGMSSNRSDTRNGGGNNNKHTNNEKLGSFKGDDFFKEPFTNWNKSGLRQLCT 124

Query: 99  NTYKLSFMESPSGIKIILVTHPRTGDLRES------------------------LKYIYN 134
           + + +   ++ +G+K + ++       + +                        L+ +Y 
Sbjct: 125 DQFTMFIYQTLTGLKFVAISSSVMPQRQPTIATTDKPDRPKSTSNLAIQIADNFLRKVYC 184

Query: 135 LYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTI 168
           LY +YV+K+P Y+   PIRS LF+  + + V  +
Sbjct: 185 LYSDYVMKDPSYSMEMPIRSNLFDEKVKKMVENL 218

>2j3w_A Sedlin, trafficking protein particle complex protein 2; multisubunit tethering factor, trapp, palmitate, transport, lipoprotein; HET: PLM; 2.1A {Mus musculus} SCOP: d.110.4.3 PDB: 1h3q_A Length = 142

 Score = 67.7 bits (165), Expect = 3e-15
 Identities = 18/82 (21%), Positives = 38/82 (46%), Gaps = 2/82 (2%)

Query: 87  SGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGD-LRESLKYIYNLYVEYVVKNPL 145
           S         + N + +S   +   ++ I++   R  D ++     +Y+LY+++ + NP 
Sbjct: 58  SNNMYLKTVDKFNEWFVSAFVTAGHMRFIMLHDVRQEDGIKNFFTDVYDLYIKFAM-NPF 116

Query: 146 YAPGTPIRSELFNTSLDQYVRT 167
           Y P +PIRS  F+  +    + 
Sbjct: 117 YEPNSPIRSSAFDRKVQFLGKK 138

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	169
2j3t_C	145	Trafficking protein particle complex subunit 1, tr	100.0
3cue_A	219	Transport protein particle 23 kDa subunit; membran	100.0
3cue_C	159	Transport protein particle 18 kDa subunit; membran	100.0
2j3t_D	219	Trafficking protein particle complex subunit 4; tr	100.0
2j3w_A	142	Sedlin, trafficking protein particle complex prote	100.0
3pr6_A	162	Trapp-associated protein TCA17; longin fold, vesic	99.82
3kyq_A	199	YKT6, synaptobrevin homolog YKT6; V-snare homolog,	96.36
3bw6_A	144	Synaptobrevin homolog YKT6; YKT6P, farnesylation,	95.7
2vgl_S	142	AP-2 complex subunit sigma-1; cytoplasmic vesicle,	95.38
1w63_Q	158	Adapter-related protein complex 1 sigma 1A subunit	95.37
2nut_C	196	Vesicle-trafficking protein SEC22B; human copii SE	94.29
3tjz_C	153	Coatomer subunit zeta-1; protein trafficking, golg	91.65
1w63_M	423	Adaptor-related protein complex 1, MU 1 subunit; e	89.94
2vgl_M	435	AP-2 complex subunit MU-1; cytoplasmic vesicle, al	88.37
4b93_A	189	Vesicle-associated membrane protein 7; endocytosis	88.07

>2j3t_C Trafficking protein particle complex subunit 1, trafficking protein particle complex subunit 3; trapp, palmitate, transport, lipoprotein, ER-golgi transport apparatus, protein transport; HET: PLM; 2.4A {Mus musculus}

Probab=100.00  E-value=1.1e-47  Score=296.26  Aligned_cols=136  Identities=46%  Similarity=0.884  Sum_probs=123.9

Q ss_pred             ceeEEEEEEccCCceeeeeccccccc-CCChhhhHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcCCCCCcceeEEeeC
Q 030934           21 NNAHMMYVFNRNGVCLLYREWNRLLH-TLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTN   99 (169)
Q Consensus        21 m~iys~~Iink~g~~Iy~~ef~~~~~-~~~~~~e~~ll~g~lhSL~~i~~klsp~~~~~~~~g~~~~~~~~~~~~~~~T~   99 (169)
                      |+||+||||||+|+|||+++|++.+. +.+.+||.++++|++|||++|++|++|.+..             .++++++|+
T Consensus         1 M~i~~~~Ii~k~g~~iy~~~~~~~~~~~~~~~~~~~ll~g~~~Sl~~i~~klsp~~~~-------------~~~~~~~t~   67 (145)
T 2j3t_C            1 MTVHNLYLFDRNGVCLHYSEWHRKKQAGIPKEEEYKLMYGMLFSIRSFVSKMSPLDMK-------------DGFLSFQTS   67 (145)
T ss_dssp             -CEEEEEEECTTSCEEEEEESSCSSCCSSCHHHHHHHHHHHHHHHHHHHHHHCSSCCS-------------SCEEEEECS
T ss_pred             CeEEEEEEEeCCCCEEEeeeecCCCcCCCCcchHHHHHHHHHHHHHHHHHHhCCCCCC-------------CceEEEecC
Confidence            88999999999999999999986532 3343688999999999999999999997542             358999999


Q ss_pred             CeEEEEEecCCceEEEEEeCCCChhHHHHHHHHH-HHHHHHHhcCCCCCCCCCccchhHHHHHHHHHHhcC
Q 030934          100 TYKLSFMESPSGIKIILVTHPRTGDLRESLKYIY-NLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTIA  169 (169)
Q Consensus       100 ~ykl~~~~T~TgiKFvl~td~~~~~~~~~l~~iy-~lYv~~v~kNPfy~~~~pI~s~~F~~~v~~~~~~~~  169 (169)
                      +|++|||+|+||+||||+||++++++|++|++|| ++|+|||||||||++||||+|++||++|++++++++
T Consensus        68 ~ykl~~~~T~TgiKFvl~td~~~~~i~~~l~~iy~~lYv~~v~kNPfy~~~~pI~s~~Fd~~v~~~~~~~~  138 (145)
T 2j3t_C           68 RYKLHYYETPTGIKVVMNTDLGVGPIRDVLHHIYSALYVEFVVKNPLCPLGQTVQSELFRSRLDSYVRSLP  138 (145)
T ss_dssp             SCEEEEEECTTSCEEEEEECTTCCCCHHHHHHHHHTTHHHHTTTCTTSCTTSCCCCHHHHHHHHHHHTTST
T ss_pred             CEEEEEEEcCCCCEEEEEecCCcchHHHHHHHHHHHHHHHHHhcCCCCCCCCceecHHHHHHHHHHHHhCc
Confidence            9999999999999999999999999999999999 699999999999999999999999999999999864

>3cue_A Transport protein particle 23 kDa subunit; membrane traffic, GEF, tethering complex, RAB activation, GU nucleotide exchange factor; HET: PLM; 3.70A {Saccharomyces cerevisiae}

Probab=100.00  E-value=7.4e-45  Score=295.97  Aligned_cols=147  Identities=19%  Similarity=0.399  Sum_probs=125.5

Q ss_pred             ceeEEEEEEccCCceeeeecccccccCCChhhhHHHHHHHHHHHHHHHHhcCCCCCCCC-------------CCCCCc--
Q 030934           21 NNAHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKG-------------NLGVPQ--   85 (169)
Q Consensus        21 m~iys~~Iink~g~~Iy~~ef~~~~~~~~~~~e~~ll~g~lhSL~~i~~klsp~~~~~~-------------~~g~~~--   85 (169)
                      |+||+||||||+|+|||+|+|.+..++.+. ||+++|+|++||+++|+.+|+|......             ..|++.  
T Consensus         1 M~i~sl~IiNk~GglIY~r~~~~~~~~l~s-nd~l~lag~lhsv~ai~~~ltP~~~~~~~~~~~~~~~~~~~~~g~~~~~   79 (219)
T 3cue_A            1 MAIETILVINKSGGLIYQRNFTNDEQKLNS-NEYLILASTLHGVFAIASQLTPKALQLTQQTNIENTIPYIPYVGMSSNR   79 (219)
T ss_dssp             -CEEEEEEECTTSCEEEEEECSSCCCCSCH-HHHHHHHHHHHHHHHHHHHTCCSCC-----------CCCCCSCCC----
T ss_pred             CeeEEEEEEeCCCCEEeehhhccCcCCCCc-chhhhhhhhhHHHHHHHhhcCCCcccccccccccccccccccccccccc
Confidence            889999999999999999999976555664 8999999999999999999999763110             001110  


Q ss_pred             --------------------------------CCCCCcceeEEeeCCeEEEEEecCCceEEEEEeCCCC-----------
Q 030934           86 --------------------------------LSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRT-----------  122 (169)
Q Consensus        86 --------------------------------~~~~~~~~~~~~T~~ykl~~~~T~TgiKFvl~td~~~-----------  122 (169)
                                                      ..-...+++++.|++|++|||+|+||+||||+||++.           
T Consensus        80 ~~s~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~g~~~~~Td~y~l~~f~T~TGiKFVlltd~~~~~~~~s~~~~~  159 (219)
T 3cue_A           80 SDTRNGGGNNNKHTNNEKLGSFKGDDFFKEPFTNWNKSGLRQLCTDQFTMFIYQTLTGLKFVAISSSVMPQRQPTIATTD  159 (219)
T ss_dssp             ------------------------CCSCCSCCCCCCSSSCCEEEESSCEEEEEECTTSCEEEEEESSCC-----------
T ss_pred             cccccccccccccccccccccccccccccccccccCCCceEEEEeCCEEEEEEEcCCCCEEEEEecCCCccccccccccc
Confidence                                            0001347899999999999999999999999999988           


Q ss_pred             -------------hhHHHHHHHHHHHHHHHHhcCCCCCCCCCccchhHHHHHHHHHHhc
Q 030934          123 -------------GDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTI  168 (169)
Q Consensus       123 -------------~~~~~~l~~iy~lYv~~v~kNPfy~~~~pI~s~~F~~~v~~~~~~~  168 (169)
                                   +++|++|++||++|||||||||||++||||+|++||++|+++++++
T Consensus       160 ~~~~~~~~s~l~e~~ir~ff~~VYelYvd~VmkNPFY~~~~pI~S~~Fd~~V~~~~~~~  218 (219)
T 3cue_A          160 KPDRPKSTSNLAIQIADNFLRKVYCLYSDYVMKDPSYSMEMPIRSNLFDEKVKKMVENL  218 (219)
T ss_dssp             ---------CHHHHHHHHHHHHHHHHHHHHHHSCTTCCTTSCCCCHHHHHHHHHHHHHH
T ss_pred             ccccccccccchHHHHHHHHHHHHHHHHHHHhcCCCCCCCCccccHHHHHHHHHHHHhc
Confidence                         8899999999999999999999999999999999999999999986

>3cue_C Transport protein particle 18 kDa subunit; membrane traffic, GEF, tethering complex, RAB activation, GU nucleotide exchange factor; HET: PLM; 3.70A {Saccharomyces cerevisiae}

Probab=100.00  E-value=1.5e-44  Score=282.77  Aligned_cols=136  Identities=25%  Similarity=0.534  Sum_probs=121.3

Q ss_pred             ceeEEEEEEccCCceeeeecccccc-------cCCChhhhHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcCCCCCcce
Q 030934           21 NNAHMMYVFNRNGVCLLYREWNRLL-------HTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSF   93 (169)
Q Consensus        21 m~iys~~Iink~g~~Iy~~ef~~~~-------~~~~~~~e~~ll~g~lhSL~~i~~klsp~~~~~~~~g~~~~~~~~~~~   93 (169)
                      |+|||||||||+|+|||+++|...+       +....+++.++++|++|||++|++|++|.+..             ++|
T Consensus         1 M~i~~~~Ii~r~g~~iy~~~~~~~~~~~~~~~~~~~~~~~~~ll~g~~~SL~~i~~kls~~~~~-------------~~f   67 (159)
T 3cue_C            1 MGIYSFWIFDRHCNCIFDREWTLASNSASGTINSKQNEEDAKLLYGMIFSLRSITQKLSKGSVK-------------NDI   67 (159)
T ss_dssp             CCCCEEEEECSSSCEEECCCC-------------CCHHHHHHHHHHHHHHHHHHHHHSCCSSSC-------------CCE
T ss_pred             CeEEEEEEEcCCCceEEeeeeccccccccccccCCCCchHHHHHHHHHHHHHHHHHHhCCCCCC-------------CCe
Confidence            8899999999999999999997531       11234688999999999999999999997632             368


Q ss_pred             eEEeeCCeEEEEEecCCceEEEEEeCCCChhHHHHHHHHHH-HHHHHHhcCC-----CCCCC--------CCccchhHHH
Q 030934           94 HSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYN-LYVEYVVKNP-----LYAPG--------TPIRSELFNT  159 (169)
Q Consensus        94 ~~~~T~~ykl~~~~T~TgiKFvl~td~~~~~~~~~l~~iy~-lYv~~v~kNP-----fy~~~--------~pI~s~~F~~  159 (169)
                      .+++|++|++|||+|+||+||||+||+++++++++|++||+ +|||||+|||     ||+++        |||+|++||+
T Consensus        68 ~~~~T~~ykl~~~eT~TgiKFvl~td~~~~~i~~~l~~iy~~lYv~yv~kNPl~~~~Fy~~~~~~~~~~~~pI~s~~Fd~  147 (159)
T 3cue_C           68 RSISTGKYRVHTYCTASGLWFVLLSDFKQQSYTQVLQYIYSHIYVKYVSNNLLSPYDFAENENEMRGQGTRKITNRNFIS  147 (159)
T ss_dssp             EEEECSSCBEEEECCSSCCEEEEECCSSSSCTHHHHHHHHHHHHHHHHHSCTTSCCSCCCSCTTTTTSCCCCCCCHHHHH
T ss_pred             EEEeeCCEEEEEEEeCCCCEEEEEeCCCcchHHHHHHHHHHHHHHHHHHhCCCccccccccccccccccCcCcccHHHHH
Confidence            99999999999999999999999999999999999999998 9999999999     99999        9999999999


Q ss_pred             HHHHHHHhcC
Q 030934          160 SLDQYVRTIA  169 (169)
Q Consensus       160 ~v~~~~~~~~  169 (169)
                      +|++++++++
T Consensus       148 ~l~~~~~~~~  157 (159)
T 3cue_C          148 VLESFLAPMV  157 (159)
T ss_dssp             HHHHHTSCC-
T ss_pred             HHHHHHHhcc
Confidence            9999998864

>2j3t_D Trafficking protein particle complex subunit 4; trapp, palmitate, transport, lipoprotein, ER-golgi transport apparatus, protein transport; HET: PLM; 2.4A {Homo sapiens} PDB: 2zmv_A 2jsn_A

Probab=100.00  E-value=4.5e-40  Score=268.42  Aligned_cols=105  Identities=26%  Similarity=0.588  Sum_probs=97.6

Q ss_pred             hhhHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcCCCCCcceeEEeeCCeEEEEEecCCceEEEEEeCCCChhHHHHHH
Q 030934           51 QQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLK  130 (169)
Q Consensus        51 ~~e~~ll~g~lhSL~~i~~klsp~~~~~~~~g~~~~~~~~~~~~~~~T~~ykl~~~~T~TgiKFvl~td~~~~~~~~~l~  130 (169)
                      +|+.++++|++|||++|++|++|.+.+             .++++++|++|++|||+|+||+||||+||++.+++|++|+
T Consensus       105 sn~~L~lag~lhSLd~i~~klsp~~~s-------------~g~~~~~T~~ykl~~y~T~TgiKFVLltd~~~~~ir~~l~  171 (219)
T 2j3t_D          105 SNEKLMLASMFHSLFAIGSQLSPEQGS-------------SGIEMLETDTFKLHCYQTLTGIKFVVLADPRQAGIDSLLR  171 (219)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCSSSSC-------------CSCSEEEESSCEEEEEECTTSCEEEEEECTTCCCHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHhCCCCCC-------------CCeeEEecCceEEEEEEcCCCCEEEEEecCCchHHHHHHH
Confidence            356778899999999999999996532             2478999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCCCCCCCccchhHHHHHHHHHHhc
Q 030934          131 YIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTI  168 (169)
Q Consensus       131 ~iy~lYv~~v~kNPfy~~~~pI~s~~F~~~v~~~~~~~  168 (169)
                      +||++|+|||||||||+++|||+|++||++|+++++++
T Consensus       172 ~IyelYvd~V~kNPFY~~~~pI~s~~Fd~~v~~l~~~~  209 (219)
T 2j3t_D          172 KIYEIYSDFALKNPFYSLEMPIRCELFDQNLKLALEVA  209 (219)
T ss_dssp             HHHHHHHHHHTTCTTCCTTSCCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCCCCCCCCccchHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999875

>2j3w_A Sedlin, trafficking protein particle complex protein 2; multisubunit tethering factor, trapp, palmitate, transport, lipoprotein; HET: PLM; 2.1A {Mus musculus} SCOP: d.110.4.3 PDB: 1h3q_A

Probab=100.00  E-value=1.4e-38  Score=244.24  Aligned_cols=133  Identities=15%  Similarity=0.270  Sum_probs=115.7

Q ss_pred             ce-eEEEEEEccCCceeeeecccccccCCChhhhHHHHH-HHHHHHHHHHHhcCCCCCCCCCCCCCcCCCCCcc-eeEEe
Q 030934           21 NN-AHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMF-GLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCS-FHSFR   97 (169)
Q Consensus        21 m~-iys~~Iink~g~~Iy~~ef~~~~~~~~~~~e~~ll~-g~lhSL~~i~~klsp~~~~~~~~g~~~~~~~~~~-~~~~~   97 (169)
                      |+ +|+||||||+|+|||+++|.+..+ .+.+++.++++ +++||+.++.++++|...     |        .. ..+..
T Consensus         3 M~~i~~~~Ii~~~~~ply~~~~~~~~~-~~~~~~~~l~~~~i~hs~ldiv~~~~~~~~-----~--------~~l~~~~~   68 (142)
T 2j3w_A            3 MSGSFYFVIVGHHDNPVFEMEFLPPGK-AESKDDHRHLNQFIAHAALDLVDENMWLSN-----N--------MYLKTVDK   68 (142)
T ss_dssp             CCCCEEEEEECTTSCEEEEEEECCSCC-GGGHHHHHHHHHHHHHHHHHHHHHHGGGCS-----C--------SEEEEEEE
T ss_pred             cceEEEEEEEeCCCCEEEEEecCCcCc-CCccHHHHHHHHHHHHHHHHHHHHhcCCCC-----c--------ceeEeeec
Confidence            77 999999999999999999986432 23345677777 899999999999987532     1        12 26667


Q ss_pred             eCCeEEEEEecCCceEEEEEeCCC-ChhHHHHHHHHHHHHHHHHhcCCCCCCCCCccchhHHHHHHHHHHhc
Q 030934           98 TNTYKLSFMESPSGIKIILVTHPR-TGDLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTI  168 (169)
Q Consensus        98 T~~ykl~~~~T~TgiKFvl~td~~-~~~~~~~l~~iy~lYv~~v~kNPfy~~~~pI~s~~F~~~v~~~~~~~  168 (169)
                      +++|++|||+|+||+||||+||++ .++++++|++||++|+|+|+ ||||++|+||+|++||++|+++++++
T Consensus        69 ~~~y~v~~~~T~tg~Kfvl~~d~~~~~~i~~~~~~iy~~Y~~~v~-NPfy~~~~pI~s~~Fd~~v~~~~~~~  139 (142)
T 2j3w_A           69 FNEWFVSAFVTAGHMRFIMLHDVRQEDGIKNFFTDVYDLYIKFAM-NPFYEPNSPIRSSAFDRKVQFLGKKH  139 (142)
T ss_dssp             ETTEEEEEEECTTCCEEEEEESSCCHHHHHHHHHHHHHHHHHHHH-STTCCTTCCCCCHHHHHHHHHHHHHH
T ss_pred             ccceEEEEEEcCCCcEEEEEeCCCCcHHHHHHHHHHHHHHHHHhc-CCCCCCCCceecHHHHHHHHHHHHHh
Confidence            899999999999999999999995 88999999999999999999 99999999999999999999999875

>3pr6_A Trapp-associated protein TCA17; longin fold, vesicle tethering regulation, trapp complex, TR network, transport protein; 1.80A {Saccharomyces cerevisiae}

Probab=99.82  E-value=1.3e-19  Score=141.51  Aligned_cols=115  Identities=15%  Similarity=0.176  Sum_probs=83.4

Q ss_pred             eEEEEEEccCCceeeeecccccccCCChhhhHHHHHHHHH-HHHHHHHhcCCCCCCCCCCCCCcCCCCCcceeEEeeCCe
Q 030934           23 AHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLF-SLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTY  101 (169)
Q Consensus        23 iys~~Iink~g~~Iy~~ef~~~~~~~~~~~e~~ll~g~lh-SL~~i~~klsp~~~~~~~~g~~~~~~~~~~~~~~~T~~y  101 (169)
                      .-.+.||||+++|||.+.+.....  +. ++.+....++| |||.++++++.....  +  ...+.    + ..+.++.+
T Consensus        10 ~~FVaIIg~~n~PLyI~~~~~~~~--~~-~~~Lk~~fi~hsSLDi~Ee~~~~~~s~--~--~~~~L----g-lL~~~e~~   77 (162)
T 3pr6_A           10 PCFVSLIDESDKPILIYVPNEAEN--EM-NDVLKYNVLSNISLDYFESALVEWHSL--D--SKPLL----K-SIFQLEGV   77 (162)
T ss_dssp             CSEEEEECTTSCEEEEECCC----------CHHHHHHHHHHHHHHHHCTTCCCCCS--S--SSCCC----E-EEEEETTE
T ss_pred             CeEEEEECCCCceeEEEeCCCccc--cc-cchhHHHHHHHHHHHHHhhhhhhcccc--c--ccccc----c-eEeecCCe
Confidence            445779999999999999875421  12 23344455555 999999998632111  0  00011    1 57789999


Q ss_pred             EEEEEe-cCCceEEEEEeCCC------C--hhHHHHHHHHHHHHHHHHhcCCCCCCCC
Q 030934          102 KLSFME-SPSGIKIILVTHPR------T--GDLRESLKYIYNLYVEYVVKNPLYAPGT  150 (169)
Q Consensus       102 kl~~~~-T~TgiKFvl~td~~------~--~~~~~~l~~iy~lYv~~v~kNPfy~~~~  150 (169)
                      ++++|+ |+||+|||++++.+      .  +++|.+|+++|++|++.++ ||||.+++
T Consensus        78 ~VYGy~iTnt~vKfVl~~d~~~~~~~~D~~~~Ik~~F~~vh~~Yvk~l~-NPFy~~~d  134 (162)
T 3pr6_A           78 SVFAMLIKQTGLKIVIGFEQKSLSGADDEFEAINQIFETVRKIYIRVKC-NPLLVSGD  134 (162)
T ss_dssp             EEEEEECTTTCCEEEEEEEGGGCCCCHHHHHHHHHHHHHHHHHHHHHHT-CTTGGGSC
T ss_pred             EEEEEEEcCCceEEEEEEccCCcccccchHHHHHHHHHHHHHHHHHHhc-CCCCCCCc
Confidence            999998 99999999999864      2  6899999999999999777 99999983

>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=96.36  E-value=0.19  Score=39.71  Aligned_cols=99  Identities=6%  Similarity=0.052  Sum_probs=64.4

Q ss_pred             ceeEEEEEEccCCceee--eecccccccCCChhhhHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcCCCCCcceeEEee
Q 030934           21 NNAHMMYVFNRNGVCLL--YREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRT   98 (169)
Q Consensus        21 m~iys~~Iink~g~~Iy--~~ef~~~~~~~~~~~e~~ll~g~lhSL~~i~~klsp~~~~~~~~g~~~~~~~~~~~~~~~T   98 (169)
                      |-+|++.|+.+++...-  ...+.-..=..-.  ..-.--.+-+..+.+.+++.|..                 -.+++.
T Consensus         2 mk~~~~~v~~~~~~~~~~l~~~~dlssf~~f~--r~sv~ef~~f~~r~il~r~~~~~-----------------r~s~~~   62 (199)
T 3kyq_A            2 MKLYSLSVFYKGEPKAVLLKAAYDVSSFSFFQ--RSSVQEFMTFTSQLIVERSAKGS-----------------RASVKE   62 (199)
T ss_dssp             CCEEEEEEEEECSSCEEEEEEEECCTTSCTTT--HHHHHHHHHHHHHHHHHTSCTTE-----------------EEEEEC
T ss_pred             ceEEEEEEEEcCCCCceEEeeeccccccccee--hHhHHHHHHHHHHHHHhcCCCCC-----------------eEEEEe
Confidence            67999999988765322  3323211000000  11122336666778888876521                 256788


Q ss_pred             CCeEEEEEecCCceEEEEEeCCCChh--HHHHHHHHHHHHHH
Q 030934           99 NTYKLSFMESPSGIKIILVTHPRTGD--LRESLKYIYNLYVE  138 (169)
Q Consensus        99 ~~ykl~~~~T~TgiKFvl~td~~~~~--~~~~l~~iy~lYv~  138 (169)
                      +.|.+|+|....|+=+++++|..-+.  .-.+|.+|.+-|..
T Consensus        63 ~~y~fH~y~~~~gl~yl~itd~~yp~r~AF~fL~ei~~eF~~  104 (199)
T 3kyq_A           63 QEYLCHVYVRSDSLAGVVIADSEYPSRVAFTLLEKVLDEFSK  104 (199)
T ss_dssp             SSEEEEEEECTTSEEEEEEEETTSCHHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEEEecCCEEEEEEECCCCCHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999987653  34678888876655

>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=95.70  E-value=0.43  Score=35.49  Aligned_cols=100  Identities=14%  Similarity=0.112  Sum_probs=60.8

Q ss_pred             CCceeEEEEEEccCC--ceeeeecccccccC-CChhhhHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcCCCCCcceeE
Q 030934           19 SGNNAHMMYVFNRNG--VCLLYREWNRLLHT-LNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHS   95 (169)
Q Consensus        19 ~~m~iys~~Iink~g--~~Iy~~ef~~~~~~-~~~~~e~~ll~g~lhSL~~i~~klsp~~~~~~~~g~~~~~~~~~~~~~   95 (169)
                      -.|.||++.|+-+++  ..+......-..-. ... ...+-.  +-+-.+.+++++.+..                 -.+
T Consensus         3 ~~Mkl~~~~v~r~~~~~~~~L~~~~d~s~f~ffqr-~sv~ef--~~~~ar~i~~r~~~~~-----------------R~s   62 (144)
T 3bw6_A            3 MAMRIYYIGVFRSGGEKALELSEVKDLSQFGFFER-SSVGQF--MTFFAETVASRTGAGQ-----------------RQS   62 (144)
T ss_dssp             CCCCEEEEEEEECCSSSCEEEEEEECCTTSCTTTT-THHHHH--HHHHHHHHHHHCCTTE-----------------EEE
T ss_pred             cEEEEEEEEEEecCCCCCeEeEeeecccccChhhh-hhHHHH--HHHHHHHHHhhCCCCc-----------------eEE
Confidence            457799998886543  22333322211101 011 111111  3334677888886521                 267


Q ss_pred             EeeCCeEEEEEecCCceEEEEEeCCCChh--HHHHHHHHHHHHHH
Q 030934           96 FRTNTYKLSFMESPSGIKIILVTHPRTGD--LRESLKYIYNLYVE  138 (169)
Q Consensus        96 ~~T~~ykl~~~~T~TgiKFvl~td~~~~~--~~~~l~~iy~lYv~  138 (169)
                      ++.++|.+|++....|+=+++++|..-+.  .=.+|++|.+-|..
T Consensus        63 v~~~~y~fH~~~~~~gl~~l~i~D~~yp~rvAF~~L~~i~~eF~~  107 (144)
T 3bw6_A           63 IEEGNYIGHVYARSEGICGVLITDKEYPVRPAYTLLNKILDEYLV  107 (144)
T ss_dssp             EEETTEEEEEEECTTSEEEEEEEETTSCHHHHHHHHHHHHHHHHH
T ss_pred             EEeCCEEEEEEEecCCEEEEEEECCCCChhHHHHHHHHHHHHHHH
Confidence            88899999999888999999999987653  23577777775554

>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=95.38  E-value=0.34  Score=35.74  Aligned_cols=92  Identities=13%  Similarity=0.285  Sum_probs=57.3

Q ss_pred             eEEEEEEccCCceeeeecccccccCCChhhhHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcCCCCCcceeEEeeCCeE
Q 030934           23 AHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYK  102 (169)
Q Consensus        23 iys~~Iink~g~~Iy~~ef~~~~~~~~~~~e~~ll~g~lhSL~~i~~klsp~~~~~~~~g~~~~~~~~~~~~~~~T~~yk  102 (169)
                      |.+++|+|++|+++..|.|....     .++.+.+..-++.+      +...+..            .+++  +..++++
T Consensus         2 I~~i~i~~~~Gk~~l~k~y~~~~-----~~~~~~~~~~f~~~------v~~~~~~------------~~~~--~~~~~~~   56 (142)
T 2vgl_S            2 IRFILIQNRAGKTRLAKWYMQFD-----DDEKQKLIEEVHAV------VTVRDAK------------HTNF--VEFRNFK   56 (142)
T ss_dssp             EEEEEEEETTSCEEEEEECSCCC-----HHHHHHHHHHHHHH------HHTCCTT------------SCSE--EEETTEE
T ss_pred             eEEEEEEcCCCCEEEEEeCCCCC-----hhhhHHHHHHHHHH------HhcCCCC------------CCCE--EEECCEE
Confidence            78999999999999999996321     12333333333322      2211110            1233  3455666


Q ss_pred             EEEEecCCceEEEEEeCCCChhH--HHHHHHHHHHHHHHH
Q 030934          103 LSFMESPSGIKIILVTHPRTGDL--RESLKYIYNLYVEYV  140 (169)
Q Consensus       103 l~~~~T~TgiKFvl~td~~~~~~--~~~l~~iy~lYv~~v  140 (169)
                      + .|....++-|+++++.+...+  -++++.+.++.-+|.
T Consensus        57 ~-vy~~~~~Lyfv~~~~~~~N~l~~le~L~~~ve~l~~yf   95 (142)
T 2vgl_S           57 I-IYRRYAGLYFCICVDVNDNNLAYLEAIHNFVEVLNEYF   95 (142)
T ss_dssp             E-EEEEETTEEEEEEECTTSCHHHHHHHHHHHHHHHHHHT
T ss_pred             E-EEEEECCEEEEEEeCCCCCHHHHHHHHHHHHHHHHHHH
Confidence            5 556677899999998876544  467777777766654

>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=95.37  E-value=0.47  Score=35.73  Aligned_cols=92  Identities=17%  Similarity=0.262  Sum_probs=57.0

Q ss_pred             eEEEEEEccCCceeeeecccccccCCChhhhHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcCCCCCcceeEEeeCCeE
Q 030934           23 AHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYK  102 (169)
Q Consensus        23 iys~~Iink~g~~Iy~~ef~~~~~~~~~~~e~~ll~g~lhSL~~i~~klsp~~~~~~~~g~~~~~~~~~~~~~~~T~~yk  102 (169)
                      |.+++|+|++|+++..|.|....     ..+...+..-++.+      +...+..            .+++  +..++++
T Consensus         2 I~~i~Il~~~Gk~~lsk~y~~~~-----~~~~~~~~~~~~~~------i~~~~~~------------~~~~--i~~~~~~   56 (158)
T 1w63_Q            2 MRFMLLFSRQGKLRLQKWYLATS-----DKERKKMVRELMQV------VLARKPK------------MCSF--LEWRDLK   56 (158)
T ss_dssp             EEEEEEECSSSCEEEEEESSCCC-----HHHHHHHHHHHHHH------HHTSCSS------------SCSE--EEETTEE
T ss_pred             eEEEEEECCCCCEEEEEeCCCCC-----HHHHHHHHHHHHHH------HhccCCC------------CCCe--EEECCEE
Confidence            88999999999999999997421     12233333333322      2211110            1233  3456666


Q ss_pred             EEEEecCCceEEEEEeCCCChhH--HHHHHHHHHHHHHHH
Q 030934          103 LSFMESPSGIKIILVTHPRTGDL--RESLKYIYNLYVEYV  140 (169)
Q Consensus       103 l~~~~T~TgiKFvl~td~~~~~~--~~~l~~iy~lYv~~v  140 (169)
                      + .|....++-|+++++.+...+  -++++.+.++.-+|.
T Consensus        57 ~-vy~~~~~Lyfv~~~~~~~Nel~~le~L~~~vevl~~yf   95 (158)
T 1w63_Q           57 V-VYKRYASLYFCCAIEGQDNELITLELIHRYVELLDKYF   95 (158)
T ss_dssp             E-EEEEETTEEEEEEECSSSCHHHHHHHHHHHHHHHHHHH
T ss_pred             E-EEEEECCEEEEEEecCCCCHHHHHHHHHHHHHHHHHHH
Confidence            5 556677899999999876543  467777777666654

>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=94.29  E-value=1.4  Score=34.04  Aligned_cols=123  Identities=11%  Similarity=0.037  Sum_probs=72.5

Q ss_pred             ceeEEEEEEccCCceeeeecccccccCCChhhhHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcCCCCCcceeEEeeCC
Q 030934           21 NNAHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNT  100 (169)
Q Consensus        21 m~iys~~Iink~g~~Iy~~ef~~~~~~~~~~~e~~ll~g~lhSL~~i~~klsp~~~~~~~~g~~~~~~~~~~~~~~~T~~  100 (169)
                      |.+|++.--+.+|.+|....-.....   . ++   +...=--++.+.+++.+...               .-.+++.+.
T Consensus         2 Mi~ya~IaR~~d~~iLa~~~d~~~~~---~-~~---~~~~~~~a~~il~ki~~~~~---------------~r~s~~~~~   59 (196)
T 2nut_C            2 MVLLTMIARVADGLPLAASMQEDEQS---G-RD---LQQYQSQAKQLFRKLNEQSP---------------TRCTLEAGA   59 (196)
T ss_dssp             CCCCEEEEETTTCCEEEEECCCC---------C---HHHHHHHHHHHHHHCCTTSC---------------SEEEEEETT
T ss_pred             ceEEEEEEEcCCCcEEEEeecccccc---c-cc---HHHHHHHHHHHHHhcCCCCC---------------CeEEEEeCC
Confidence            66666666666677776532211100   0 11   11111224667778866221               125778899


Q ss_pred             eEEEEEecCCceEEEEEeCCCChh--HHHHHHHHHHHHHHHHhcCCCCCCCCCccchhHHHHHHHHHHh
Q 030934          101 YKLSFMESPSGIKIILVTHPRTGD--LRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRT  167 (169)
Q Consensus       101 ykl~~~~T~TgiKFvl~td~~~~~--~~~~l~~iy~lYv~~v~kNPfy~~~~pI~s~~F~~~v~~~~~~  167 (169)
                      |.+| |....|+=|++++|..-+.  .-.+|++|.+-|....- +-.-....|.....|+..|.++++.
T Consensus        60 y~fh-y~~~~gl~~l~i~d~~yp~r~af~fL~~i~~~F~~~~~-~~~~~~~~~~~~~~f~~~l~~~~~~  126 (196)
T 2nut_C           60 MTFH-YIIEQGVCYLVLCEAAFPKKLAFAYLEDLHSEFDEQHG-KKVPTVSRPYSFIEFDTFIQKTKKL  126 (196)
T ss_dssp             EEEE-EEEETTEEEEEEEETTSCHHHHHHHHHHHHHHHHHHHT-TTTTTCCSTTTTGGGHHHHHHHHTT
T ss_pred             EEEE-EEeCCCeEEEEEEcCCcchHHHHHHHHHHHHHHHHhcc-chhccccCCCchHHHHHHHHHHHHH
Confidence            9999 7778999999999987653  34688888886655321 2111112355555888888887654

>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=91.65  E-value=3.3  Score=31.03  Aligned_cols=96  Identities=9%  Similarity=0.183  Sum_probs=59.2

Q ss_pred             CCCceeEEEEEEccCCceeeeecccccccCCChhhhHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcCCCCCcceeEEe
Q 030934           18 ASGNNAHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFR   97 (169)
Q Consensus        18 ~~~m~iys~~Iink~g~~Iy~~ef~~~~~~~~~~~e~~ll~g~lhSL~~i~~klsp~~~~~~~~g~~~~~~~~~~~~~~~   97 (169)
                      +|-.+|..++|+|++|+++..|-|...-.  + ..+.+.+-.-+|.+      ++..+               +++  +.
T Consensus         8 ~sl~mI~~ililn~~Gk~~lsK~Y~~~~~--~-~~~~~~~e~~i~~~------~~r~~---------------~~i--~~   61 (153)
T 3tjz_C            8 PSLYTVKAILILDNDGDRLFAKYYDDTYP--S-VKEQKAFEKNIFNK------THRTD---------------SEI--AL   61 (153)
T ss_dssp             CCSBCEEEEEEECTTSCEEEEEECSSSSC--S-HHHHHHHHHHHHHH------HSSCC---------------CCE--EE
T ss_pred             ccHHHheEEEEECCCCCEEEEEeCCCCCC--C-HHHHHHHHHHHHHH------HhCCC---------------CCE--EE
Confidence            44556999999999999999998864101  1 12233333333333      21111               122  23


Q ss_pred             eCCeEEEEEecCCceEEEEEeCCCChh--HHHHHHHHHHHHHHHH
Q 030934           98 TNTYKLSFMESPSGIKIILVTHPRTGD--LRESLKYIYNLYVEYV  140 (169)
Q Consensus        98 T~~ykl~~~~T~TgiKFvl~td~~~~~--~~~~l~~iy~lYv~~v  140 (169)
                      .+.+++ .|.--.++-|+++++.+..+  +-++++.+.++.-+|.
T Consensus        62 ~~~~~~-vy~~~~~Lyfv~~~~~~eNel~ile~L~~~ve~l~~yf  105 (153)
T 3tjz_C           62 LEGLTV-VYKSSIDLYFYVIGSSYENELMLMTVLNCLFDSLSQML  105 (153)
T ss_dssp             ETTEEE-EEEECSSCEEEEEEETTSCHHHHHHHHHHHHHHHHHHH
T ss_pred             ECCEEE-EEEEECCEEEEEEEcCCCChHHHHHHHHHHHHHHHHHh
Confidence            356665 56667789999999887654  3578888887766654

>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=89.94  E-value=3.1  Score=35.79  Aligned_cols=93  Identities=12%  Similarity=0.211  Sum_probs=54.4

Q ss_pred             ceeEEEEEEccCCceeeeecccccccCCChhhhHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcCCCCCcceeEEeeCC
Q 030934           21 NNAHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNT  100 (169)
Q Consensus        21 m~iys~~Iink~g~~Iy~~ef~~~~~~~~~~~e~~ll~g~lhSL~~i~~klsp~~~~~~~~g~~~~~~~~~~~~~~~T~~  100 (169)
                      |+|.+++|+|++|+++..|.|.....+    +...    .++.+  +..+-....              .+.+  +..+.
T Consensus         1 mMI~~i~I~~~~Gk~~l~k~y~~~~~~----~~~~----~f~~~--v~~~~~~~~--------------~~~~--i~~~~   54 (423)
T 1w63_M            1 MSASAVYVLDLKGKVLICRNYRGDVDM----SEVE----HFMPI--LMEKEEEGM--------------LSPI--LAHGG   54 (423)
T ss_dssp             -CCCEEEEEETTTEECSCBCCSCSCTT----TTHH----HHHHH--HHHHHHTSC--------------CCSE--EEETT
T ss_pred             CceEEEEEECCCCCEEEEEecCCCCCh----HHHH----HHHHH--HhhccccCC--------------CCCE--EEECC
Confidence            679999999999999999999742221    1111    11111  111100000              1123  34566


Q ss_pred             eEEEEEecCCceEEEEEeCCCChhH--HHHHHHHHHHHHHHH
Q 030934          101 YKLSFMESPSGIKIILVTHPRTGDL--RESLKYIYNLYVEYV  140 (169)
Q Consensus       101 ykl~~~~T~TgiKFvl~td~~~~~~--~~~l~~iy~lYv~~v  140 (169)
                      +++ .|....++-|+++++.+...+  -++|+.+.++.-+|.
T Consensus        55 ~~~-vy~~~~~Lyfv~~~~~~~n~l~~le~L~~~v~~l~~yf   95 (423)
T 1w63_M           55 VRF-MWIKHNNLYLVATSKKNACVSLVFSFLYKVVQVFSEYF   95 (423)
T ss_dssp             EEE-EEEEETTEEEEEEESSCCCTHHHHHHHHHHHHHHHHHS
T ss_pred             EEE-EEEEECCEEEEEEecCCCCHHHHHHHHHHHHHHHHHHH
Confidence            654 456667899999998876543  467777777666654

>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=88.37  E-value=5.3  Score=34.46  Aligned_cols=90  Identities=13%  Similarity=0.197  Sum_probs=56.2

Q ss_pred             eEEEEEEccCCceeeeecccccccCCChhhhHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcCCCCCcceeEEeeCCeE
Q 030934           23 AHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYK  102 (169)
Q Consensus        23 iys~~Iink~g~~Iy~~ef~~~~~~~~~~~e~~ll~g~lhSL~~i~~klsp~~~~~~~~g~~~~~~~~~~~~~~~T~~yk  102 (169)
                      |.+++|+|++|+++..|.|.....   . + .         ++.+..++.......           .+.+  +.+++++
T Consensus         2 I~~i~I~~~~Gk~~l~k~y~~~~~---~-~-~---------~~~f~~~v~~~~~~~-----------~~~i--i~~~~~~   54 (435)
T 2vgl_M            2 IGGLFIYNHKGEVLISRVYRDDIG---R-N-A---------VDAFRVNVIHARQQV-----------RSPV--TNIARTS   54 (435)
T ss_dssp             CCEEEEECTTCCEEEEEECSSSCC---H-H-H---------HHHHHHHTTTCSSCC-----------CCSE--EEETTEE
T ss_pred             eEEEEEECCCCCEEEEEecCCCCC---h-h-H---------HHHHHHHHhccccCC-----------CCCE--EEECCEE
Confidence            789999999999999999974211   1 1 1         133333444322110           1223  4556665


Q ss_pred             EEEEecCCceEEEEEeCCCChhH--HHHHHHHHHHHHHHH
Q 030934          103 LSFMESPSGIKIILVTHPRTGDL--RESLKYIYNLYVEYV  140 (169)
Q Consensus       103 l~~~~T~TgiKFvl~td~~~~~~--~~~l~~iy~lYv~~v  140 (169)
                      + .|....++-|+++++.+...+  -++|+.+.++.-+|.
T Consensus        55 ~-vy~~~~~Lyfv~~~~~~~n~l~~le~L~~~v~vl~~yf   93 (435)
T 2vgl_M           55 F-FHVKRSNIWLAAVTKQNVNAAMVFEFLYKMCDVMAAYF   93 (435)
T ss_dssp             E-EEEEETTEEEEEEESSCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             E-EEEEECCEEEEEEecCCCCHHHHHHHHHHHHHHHHHHH
Confidence            4 556777899999998876543  367777777666654

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

Probab=88.07  E-value=7.5  Score=29.85  Aligned_cols=73  Identities=8%  Similarity=0.017  Sum_probs=46.3

Q ss_pred             eeEEeeCCeEEEEEecCCceEEEEEeCCCChh--HHHHHHHHHHHHHHHHhcCCCCCCCCCccchhHHHHHHHHHHh
Q 030934           93 FHSFRTNTYKLSFMESPSGIKIILVTHPRTGD--LRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRT  167 (169)
Q Consensus        93 ~~~~~T~~ykl~~~~T~TgiKFvl~td~~~~~--~~~~l~~iy~lYv~~v~kNPfy~~~~pI~s~~F~~~v~~~~~~  167 (169)
                      -.++..+.|.+| |..-.|+-|++++|..-+.  .-.+|.+|.+-|....- +--.....+--+..|+..++++++.
T Consensus        43 k~s~~~~~y~fH-yl~~~gl~yl~i~d~~yp~r~af~fL~~i~~eF~~~~~-~~~~~~~~~~~~~~f~~~l~~~~~~  117 (189)
T 4b93_A           43 KLTYSHGNYLFH-YICQDRIVYLCITDDDFERSRAFSFLNEVKKRFQTTYG-SRAQTALPYAMNSEFSSVLAAQLKH  117 (189)
T ss_dssp             EEEEEETTEEEE-EEEETTEEEEEEEETTSCHHHHHHHHHHHHHHHHHHHG-GGGGTCCTTTTHHHHHHHHHHHHHH
T ss_pred             eEEEEECCEEEE-EEEeCCeEEEEEEcCccCHHHHHHHHHHHHHHHHhhcc-ccccccCCccccchhhHHHHHHHHh
Confidence            367889999999 6778999999999987542  34577777775544221 1111111112345688777777654

---

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	169
d2j3wa1	140	d.110.4.3 (A:1-140) Sedlin (SEDL) {Mouse (Mus musc	6e-23

>d2j3wa1 d.110.4.3 (A:1-140) Sedlin (SEDL) {Mouse (Mus musculus) [TaxId: 10090]} Length = 140

class: Alpha and beta proteins (a+b)
fold: Profilin-like
superfamily: SNARE-like
family: Sedlin (SEDL)
domain: Sedlin (SEDL)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 86.5 bits (214), Expect = 6e-23
 Identities = 18/140 (12%), Positives = 41/140 (29%), Gaps = 12/140 (8%)

Query: 27  YVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQL 86
            +   +   +   E+       +      L   +  +   L  +    +     L     
Sbjct: 8   VIVGHHDNPVFEMEFLPPGKAESKDDHRHLNQFIAHAALDLVDENMWLSNNMY-LK---- 62

Query: 87  SGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGDLRESLKYIYNLYVEYVVKNPLY 146
                     + N + +S   +   ++ I++   R  D  ++              NP Y
Sbjct: 63  -------TVDKFNEWFVSAFVTAGHMRFIMLHDVRQEDGIKNFFTDVYDLYIKFAMNPFY 115

Query: 147 APGTPIRSELFNTSLDQYVR 166
            P +PIRS  F+  +    +
Sbjct: 116 EPNSPIRSSAFDRKVQFLGK 135

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	169
d2j3wa1	140	Sedlin (SEDL) {Mouse (Mus musculus) [TaxId: 10090]	100.0
d2vgls_	142	Sigma2 adaptin (clathrin coat assembly protein AP1	96.1
d2vglm2	141	Mu2 adaptin (clathrin coat assembly protein AP50)	95.62
d1ioua_	140	Synaptobrevin homolog 1 ykt6 {Baker's yeast (Sacch	94.97
d1ifqa_	127	Sec22b {Mouse (Mus musculus) [TaxId: 10090]}	86.93

>d2j3wa1 d.110.4.3 (A:1-140) Sedlin (SEDL) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Profilin-like
superfamily: SNARE-like
family: Sedlin (SEDL)
domain: Sedlin (SEDL)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=7.1e-37  Score=232.92  Aligned_cols=133  Identities=14%  Similarity=0.261  Sum_probs=113.9

Q ss_pred             eeEEEEEEccCCceeeeecccccccCCChhhhHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcCCCCCcceeE-EeeCC
Q 030934           22 NAHMMYVFNRNGVCLLYREWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHS-FRTNT  100 (169)
Q Consensus        22 ~iys~~Iink~g~~Iy~~ef~~~~~~~~~~~e~~ll~g~lhSL~~i~~klsp~~~~~~~~g~~~~~~~~~~~~~-~~T~~  100 (169)
                      +.|+|+||||+|+|||.++|....++...+++.++..+++||..+|.++++|....             .++.+ ..+++
T Consensus         3 ~~y~f~IIg~~~~pLY~~ef~~~~~~~~~~~~~~~~~fi~hssLDive~~~~~~~~-------------~~l~~l~~~~~   69 (140)
T d2j3wa1           3 GSFYFVIVGHHDNPVFEMEFLPPGKAESKDDHRHLNQFIAHAALDLVDENMWLSNN-------------MYLKTVDKFNE   69 (140)
T ss_dssp             CCEEEEEECTTSCEEEEEEECCSCCGGGHHHHHHHHHHHHHHHHHHHHHHGGGCSC-------------SEEEEEEEETT
T ss_pred             cEEEEEEEcCCCCeeEEEecCCcccccccchHHHHHHHHHHHHHHHHHHhcccCCC-------------ccceeEEecCC
Confidence            37999999999999999999864333333456777788999999999998886532             23444 46899


Q ss_pred             eEEEEEecCCceEEEEEeCCCCh-hHHHHHHHHHHHHHHHHhcCCCCCCCCCccchhHHHHHHHHHHhc
Q 030934          101 YKLSFMESPSGIKIILVTHPRTG-DLRESLKYIYNLYVEYVVKNPLYAPGTPIRSELFNTSLDQYVRTI  168 (169)
Q Consensus       101 ykl~~~~T~TgiKFvl~td~~~~-~~~~~l~~iy~lYv~~v~kNPfy~~~~pI~s~~F~~~v~~~~~~~  168 (169)
                      |++|||+|+||+||||+||++.+ .++.+|+++|++|+++|+ ||||++++||+|++||++|+++++++
T Consensus        70 ~~v~~y~T~tg~Kfvl~td~~~~~~i~~~~~~v~~lYv~~v~-NPfy~~~~pI~s~~Fd~~v~~~~~~~  137 (140)
T d2j3wa1          70 WFVSAFVTAGHMRFIMLHDVRQEDGIKNFFTDVYDLYIKFAM-NPFYEPNSPIRSSAFDRKVQFLGKKH  137 (140)
T ss_dssp             EEEEEEECTTCCEEEEEESSCCHHHHHHHHHHHHHHHHHHHH-STTCCTTCCCCCHHHHHHHHHHHHHH
T ss_pred             EEEEEEEcCCCcEEEEEeCCCcchHHHHHHHHHHHHHHHHhh-CccCCCCCcccCHHHHHHHHHHHHHH
Confidence            99999999999999999999765 589999999999999999 99999999999999999999999874

>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=94.97  E-value=0.36  Score=34.04  Aligned_cols=122  Identities=14%  Similarity=0.146  Sum_probs=72.6

Q ss_pred             ceeEEEEEEccCC-ceeee-ecccccccCCChhhhHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCcCCCCCcceeEEee
Q 030934           21 NNAHMMYVFNRNG-VCLLY-REWNRLLHTLNAQQDHKLMFGLLFSLKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRT   98 (169)
Q Consensus        21 m~iys~~Iink~g-~~Iy~-~ef~~~~~~~~~~~e~~ll~g~lhSL~~i~~klsp~~~~~~~~g~~~~~~~~~~~~~~~T   98 (169)
                      |-+|++.|+.+++ .++.. ..+.-..=..-.  ..-.--.+-+..+.++++..+..                 -.+++.
T Consensus         1 Mkl~~~~v~~~~~~~~~~L~~a~Dlssf~ffq--R~svkE~~~f~sr~i~~Rt~~g~-----------------r~sv~~   61 (140)
T d1ioua_           1 MRIYYIGVFRSGGEKALELSEVKDLSQFGFFE--RSSVGQFMTFFAETVASRTGAGE-----------------RQSIEE   61 (140)
T ss_dssp             CCCCEEEEEEEETTEEEEEEEEECCSSCCTTH--HHHHHHHHHHHHHHHHHHCCSSS-----------------EEEEEE
T ss_pred             CeEEEEEEEEcCCCCcEEEeeeccccccceee--hHhHHHHHHHHHHHHhhcCCCCc-----------------eEEEEc
Confidence            7789999987543 34433 222111000000  11112246667888888876532                 367888


Q ss_pred             CCeEEEEEecCCceEEEEEeCCCChh--HHHHHHHHHHHHHHHHhcCCC------CCCCCCccchhHHHHHHHH
Q 030934           99 NTYKLSFMESPSGIKIILVTHPRTGD--LRESLKYIYNLYVEYVVKNPL------YAPGTPIRSELFNTSLDQY  164 (169)
Q Consensus        99 ~~ykl~~~~T~TgiKFvl~td~~~~~--~~~~l~~iy~lYv~~v~kNPf------y~~~~pI~s~~F~~~v~~~  164 (169)
                      ++|.+|+|....|+=+++++|..=+.  .-.+|++|.+-|..   +.|-      -..+.++..+.|++.++++
T Consensus        62 ~~y~~h~yv~~~gl~~l~i~d~~Yp~r~AF~~L~~i~~eF~~---~~~~~~~~~i~~~~~~~~~~~l~~~l~kY  132 (140)
T d1ioua_          62 GNYIGHVYARSEGICGVLITDKQYPVRPAYTLLNKILDEYLV---AHPKEEWADVTETNDALKMKQLDTYISKY  132 (140)
T ss_dssp             TTEEEEEECCSSSCEEEEEBCTTSCHHHHHHHHHHHHHHHHH---SSCHHHHTTCSCCCTTTSCHHHHHHHHHT
T ss_pred             CCeEEEEEEeeCCEEEEEEECCCcchHHHHHHHHHHHHHHHH---HcChHhhhhhhccccccchHHHHHHHHHh
Confidence            99999999999999999999987542  23566777765544   2221      1123455556666665543

>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=86.93  E-value=3.3  Score=28.33  Aligned_cols=87  Identities=10%  Similarity=0.089  Sum_probs=52.8

Q ss_pred             HHHHHHhcCCCCCCCCCCCCCcCCCCCcceeEEeeCCeEEEEEecCCceEEEEEeCCCChh--HHHHHHHHHHHHHHHHh
Q 030934           64 LKSLTAKMDPTNAEKGNLGVPQLSGQGCSFHSFRTNTYKLSFMESPSGIKIILVTHPRTGD--LRESLKYIYNLYVEYVV  141 (169)
Q Consensus        64 L~~i~~klsp~~~~~~~~g~~~~~~~~~~~~~~~T~~ykl~~~~T~TgiKFvl~td~~~~~--~~~~l~~iy~lYv~~v~  141 (169)
                      ++.+.++|+|..+.               -.++..++|.+| |..-.|+-|++++|..-+.  .-.+|.+|-+-|..-- 
T Consensus        37 ak~ll~kl~~~~~~---------------r~s~~~~~y~fH-y~~~~gi~yl~i~d~~~~~~laF~fLeei~~eF~~~y-   99 (127)
T d1ifqa_          37 AKQLFRKLNEQSPT---------------RCTLEAGAMTFH-YIIEQGVCYLVLCEAAFPKKLAFAYLEDLHSEFDEQH-   99 (127)
T ss_dssp             HHHHHTTCCTTSCS---------------EEEEEETTEEEE-EEEETTEEEEEEEETTSCHHHHHHHHHHHHHHHHHHH-
T ss_pred             HHHHHHhCCCCCCC---------------cEEEEECCEEEE-EEecCCeEEEEEEccccCchhHHHHHHHHHHHHHHhh-
Confidence            34456777765431               367889999999 5567999999999987542  2356666666443311 


Q ss_pred             cCCCCCCCCCccchhHHHHHHHHHHh
Q 030934          142 KNPLYAPGTPIRSELFNTSLDQYVRT  167 (169)
Q Consensus       142 kNPfy~~~~pI~s~~F~~~v~~~~~~  167 (169)
                      .+=......|..=-.||+-|.+.-+.
T Consensus       100 ~~~i~~~~rpy~Fi~Fd~~iqk~k~~  125 (127)
T d1ifqa_         100 GKKVPTVSRPYSFIEFDTFIQKTKKL  125 (127)
T ss_dssp             TTTTTTCCSTTTTGGGHHHHHHHHHH
T ss_pred             hhhhhcccCCcchHHHHHHHHHHHHh
Confidence            11122223344434677777765443