Citrus Sinensis ID: 033113

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------
Protein Sequence
MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKVCDRIFISSSVTVSFCIC
Secondary Structure (PSIPRED)
cEEEEEEEEccccEEEHHccccccHHHHHHHHHHHHHHHHccccccccccccccEEEEEEEcccEEEEEEEcccccHHHHHHHHHHHHHHcccccccccHHHHHHcHHHHHHHHHHccEEEEEEEcc
Secondary Structure Prediction (SSPRO)
ccEEEEEEccccccEHHEEEccccHHHHHHHHHHHHHHHHccccccccEEEEcccEEEEEEEEEEEEEEEEccccHHHHHHHHHHHHHHHHHHHHccccHEEEEEEHHHHHHHHHHcccHHcccccc
Coil and Loop (DISEMBL)
MIRFILLQNRQGKTRlakyyvpledsekhkvEYEVHRLVvnrdpkftnfveFRTHKVIYRRYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKVCDRIFISSSVTVSFCIC
Flexible Loop (DISEMBL)
mirfillqnrqgktrlakyyvpledsekhkveYEVHRlvvnrdpkftnfveFRTHKVIYRRYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKVCDRIFIsssvtvsfcic
Low Complexity Region (SEG)
MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKVCDRIFISSSVTVSFCIC
Disordered region (IsUnstruct)
**RFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKVCDRIFISSSVTVSFCI*
Disordered Region (DISOPRED)
MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKVCDRIFISSSVTVSFCIC
Disordered Region (DISEMBL)
MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKVCDRIFISSSVTVSFCIC
Disordered Region (DISPRO)
MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKVCDRIFISSSVTVS***C
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKVCDRIFISSSVTVSFCIC
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	127	2.2.26 [Sep-21-2011]
O50016	132	AP-2 complex subunit sigm	N/A	no	0.866	0.833	0.990	1e-58
Q84WL9	142	AP-2 complex subunit sigm	yes	no	0.866	0.774	0.963	4e-57
Q54H39	142	AP-2 complex subunit sigm	yes	no	0.944	0.845	0.658	1e-42
Q7SAQ1	143	AP-2 complex subunit sigm	N/A	no	0.944	0.839	0.669	1e-42
Q4ICG5	143	AP-2 complex subunit sigm	yes	no	0.944	0.839	0.637	7e-41
Q4WS49	145	AP-2 complex subunit sigm	yes	no	0.944	0.827	0.648	2e-40
Q5BFF8	145	AP-2 complex subunit sigm	yes	no	0.944	0.827	0.648	3e-40
P62744	142	AP-2 complex subunit sigm	yes	no	0.944	0.845	0.626	3e-39
Q5R940	142	AP-2 complex subunit sigm	yes	no	0.944	0.845	0.626	3e-39
P62743	142	AP-2 complex subunit sigm	yes	no	0.944	0.845	0.626	3e-39

>sp|O50016|AP2S1_MAIZE AP-2 complex subunit sigma OS=Zea mays GN=AP-17 PE=2 SV=1

 Score =  224 bits (571), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 109/110 (99%), Positives = 110/110 (100%)

Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
           MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR
Sbjct: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60

Query: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110
           RYAGLFFS+CVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV
Sbjct: 61  RYAGLFFSICVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110

Component of the adaptor complexes which 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. AP2S1/AP17 is a subunit of the plasma membrane adaptor. The complex binds polyphosphoinositides.
Zea mays (taxid: 4577)

>sp|Q84WL9|AP2S_ARATH AP-2 complex subunit sigma OS=Arabidopsis thaliana GN=AP17 PE=2 SV=1

 Score =  219 bits (558), Expect = 4e-57,   Method: Compositional matrix adjust.
 Identities = 106/110 (96%), Positives = 108/110 (98%)

Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
           MIRFILLQNRQGKTRLAKYYVPLE+SEKHKVEYEVHRLVVNRD KFTNFVEFRTHKVIYR
Sbjct: 1   MIRFILLQNRQGKTRLAKYYVPLEESEKHKVEYEVHRLVVNRDAKFTNFVEFRTHKVIYR 60

Query: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110
           RYAGLFFS+CVDITDNELAYLE IHLFVEILDHFFSNVCELDLVFNFHKV
Sbjct: 61  RYAGLFFSVCVDITDNELAYLESIHLFVEILDHFFSNVCELDLVFNFHKV 110

Component of the adaptor complexes which 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. AP2S1/AP17 is a subunit of the plasma membrane adaptor. The complex binds polyphosphoinositides.

Arabidopsis thaliana (taxid: 3702)

>sp|Q54H39|AP2S_DICDI AP-2 complex subunit sigma OS=Dictyostelium discoideum GN=ap2s1 PE=3 SV=2

 Score =  171 bits (434), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 81/123 (65%), Positives = 102/123 (82%), Gaps = 3/123 (2%)

Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
           MI FIL+QNRQGKTRL+K+Y P ED EK K+ +E+H++V +R+ KFTNFVEFRTH+++YR
Sbjct: 1   MIHFILIQNRQGKTRLSKWYTPYEDVEKRKLSHEIHKIVNSRETKFTNFVEFRTHRIVYR 60

Query: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV---CDRIFIS 117
           RYAGLFFS+CVD TDNEL  LE IHLFVE+LD +F NVCELDLVFNF+KV    D +F++
Sbjct: 61  RYAGLFFSVCVDPTDNELFCLEAIHLFVEVLDAYFGNVCELDLVFNFYKVYAIIDEVFLA 120

Query: 118 SSV 120
             +
Sbjct: 121 GEL 123

Component of the adaptor complexes which 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.

Dictyostelium discoideum (taxid: 44689)

>sp|Q7SAQ1|AP2S_NEUCR AP-2 complex subunit sigma OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) GN=aps-2 PE=3 SV=1

 Score =  171 bits (433), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 83/124 (66%), Positives = 98/124 (79%), Gaps = 4/124 (3%)

Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKF-TNFVEFRTHKVIY 59
           M+ FIL+QNRQGKTRLAK+YVP  D EK K++ E+HRLV  RD K+ +NFVEFR HKV+Y
Sbjct: 1   MLSFILIQNRQGKTRLAKWYVPYSDEEKIKLKGEIHRLVAPRDQKYQSNFVEFRNHKVVY 60

Query: 60  RRYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV---CDRIFI 116
           RRYAGLFF  CVD  DNELAYLE IH FVE+LD FF NVCELDLVFNF+KV    D +F+
Sbjct: 61  RRYAGLFFCACVDTNDNELAYLEAIHFFVEVLDSFFGNVCELDLVFNFYKVYAILDEVFL 120

Query: 117 SSSV 120
           +  +
Sbjct: 121 AGEI 124

Component of the adaptor complexes which 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.

Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) (taxid: 367110)

>sp|Q4ICG5|AP2S_GIBZE AP-2 complex subunit sigma OS=Gibberella zeae (strain PH-1 / ATCC MYA-4620 / FGSC 9075 / NRRL 31084) GN=APS2 PE=3 SV=1

 Score =  165 bits (418), Expect = 7e-41,   Method: Compositional matrix adjust.
 Identities = 79/124 (63%), Positives = 97/124 (78%), Gaps = 4/124 (3%)

Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKF-TNFVEFRTHKVIY 59
           M+ FIL+QNRQGKTRLAK+Y P  D +K K++ EVHRLV  RD K+ +NFVEFR +K++Y
Sbjct: 1   MLSFILIQNRQGKTRLAKWYAPFSDEQKIKLKGEVHRLVAPRDQKYQSNFVEFRNNKIVY 60

Query: 60  RRYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV---CDRIFI 116
           RRYAGLFF  CVD  DNELA+LE IH FVE+LD FF NVCELDLVFNF+KV    D +F+
Sbjct: 61  RRYAGLFFCACVDTNDNELAFLEAIHFFVEVLDAFFGNVCELDLVFNFYKVYAILDEVFL 120

Query: 117 SSSV 120
           +  +
Sbjct: 121 AGEI 124

Component of the adaptor complexes which 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.

Gibberella zeae (strain PH-1 / ATCC MYA-4620 / FGSC 9075 / NRRL 31084) (taxid: 229533)

>sp|Q4WS49|AP2S_ASPFU AP-2 complex subunit sigma OS=Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) GN=aps2 PE=3 SV=1

 Score =  164 bits (414), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 81/125 (64%), Positives = 99/125 (79%), Gaps = 5/125 (4%)

Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKF-TNFVEF-RTHKVI 58
           ++ FIL+QNRQGKTRLAK+Y P  D EK K++ EVHRLV  RD K+ +NFVEF R+ K++
Sbjct: 2   VLSFILVQNRQGKTRLAKWYAPYSDEEKVKLKGEVHRLVAPRDQKYQSNFVEFKRSTKIV 61

Query: 59  YRRYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV---CDRIF 115
           YRRYAGLFF +CVD TDNELAYLE IH FVE+LD FF NVCELDLVFNF+KV    D +F
Sbjct: 62  YRRYAGLFFCVCVDATDNELAYLEAIHFFVEVLDQFFGNVCELDLVFNFYKVYAILDEVF 121

Query: 116 ISSSV 120
           ++  +
Sbjct: 122 LAGEI 126

Component of the adaptor complexes which 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.

Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) (taxid: 330879)

>sp|Q5BFF8|AP2S_EMENI AP-2 complex subunit sigma OS=Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) GN=aps2 PE=3 SV=1

 Score =  163 bits (413), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 81/125 (64%), Positives = 98/125 (78%), Gaps = 5/125 (4%)

Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKF-TNFVEF-RTHKVI 58
           ++ FIL+QNRQGKTRLAK+Y P  D EK K++ EVHRLV  RD K+ +NFVEF R+ K++
Sbjct: 2   VLSFILVQNRQGKTRLAKWYAPYSDEEKVKLKGEVHRLVAPRDQKYQSNFVEFKRSTKIV 61

Query: 59  YRRYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV---CDRIF 115
           YRRYAGLFF  CVD TDNELAYLE IH FVE+LD FF NVCELDLVFNF+KV    D +F
Sbjct: 62  YRRYAGLFFCACVDATDNELAYLEAIHFFVEVLDQFFGNVCELDLVFNFYKVYAILDEVF 121

Query: 116 ISSSV 120
           ++  +
Sbjct: 122 LAGEI 126

Component of the adaptor complexes which 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.

Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) (taxid: 227321)

>sp|P62744|AP2S1_RAT AP-2 complex subunit sigma OS=Rattus norvegicus GN=Ap2s1 PE=2 SV=1

 Score =  159 bits (403), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 77/123 (62%), Positives = 95/123 (77%), Gaps = 3/123 (2%)

Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
           MIRFIL+QNR GKTRLAK+Y+  +D EK K+  EVH +V  RD K TNFVEFR  K+IYR
Sbjct: 1   MIRFILIQNRAGKTRLAKWYMQFDDDEKQKLIEEVHAVVTVRDAKHTNFVEFRNFKIIYR 60

Query: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHK---VCDRIFIS 117
           RYAGL+F +CVD+ DN LAYLE IH FVE+L+ +F NVCELDLVFNF+K   V D +F++
Sbjct: 61  RYAGLYFCICVDVNDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNFYKVYTVVDEMFLA 120

Query: 118 SSV 120
             +
Sbjct: 121 GEI 123

Component of the adaptor protein complex 2 (AP-2). Adaptor protein complexes function in protein Transport via Transport vesicles in different membrane traffic pathways. Adaptor protein complexes are vesicle coat components and appear to be involved in cargo selection and vesicle formation. AP-2 is involved in clathrin-dependent endocytosis in which cargo proteins are incorporated into vesicles surrrounded by clathrin (clathrin-coated vesicles, CCVs) which are destined for fusion with the early endosome. The clathrin lattice serves as a mechanical scaffold but is itself unable to bind directly to membrane components. Clathrin-associated adaptor protein (AP) complexes which can bind directly to both the clathrin lattice and to the lipid and protein components of membranes are considered to be the major clathrin adaptors contributing the CCV formation. AP-2 also serves as a cargo receptor to selectively sort the membrane proteins involved in receptor-mediated endocytosis. AP-2 seems to play a role in the recycling of synaptic vesicle membranes from the presynaptic surface. AP-2 recognizes Y-X-X-[FILMV] (Y-X-X-Phi) and [ED]-X-X-X-L-[LI] endocytosis signal motifs within the cytosolic tails of transmembrane cargo molecules. AP-2 may also play a role in maintaining normal post-endocytic trafficking through the ARF6-regulated, non-clathrin pathway. The AP-2 alpha and AP-2 sigma subunits are thought to contribute to the recognition of the [ED]-X-X-X-L-[LI] motif.

Rattus norvegicus (taxid: 10116)

>sp|Q5R940|AP2S1_PONAB AP-2 complex subunit sigma OS=Pongo abelii GN=AP2S1 PE=2 SV=1

 Score =  159 bits (403), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 77/123 (62%), Positives = 95/123 (77%), Gaps = 3/123 (2%)

Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
           MIRFIL+QNR GKTRLAK+Y+  +D EK K+  EVH +V  RD K TNFVEFR  K+IYR
Sbjct: 1   MIRFILIQNRAGKTRLAKWYMQFDDDEKQKLIEEVHAVVTVRDAKHTNFVEFRNFKIIYR 60

Query: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHK---VCDRIFIS 117
           RYAGL+F +CVD+ DN LAYLE IH FVE+L+ +F NVCELDLVFNF+K   V D +F++
Sbjct: 61  RYAGLYFCICVDVNDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNFYKVYTVVDEMFLA 120

Query: 118 SSV 120
             +
Sbjct: 121 GEI 123

Component of the adaptor protein complex 2 (AP-2). Adaptor protein complexes function in protein Transport via Transport vesicles in different membrane traffic pathways. Adaptor protein complexes are vesicle coat components and appear to be involved in cargo selection and vesicle formation. AP-2 is involved in clathrin-dependent endocytosis in which cargo proteins are incorporated into vesicles surrrounded by clathrin (clathrin-coated vesicles, CCVs) which are destined for fusion with the early endosome. The clathrin lattice serves as a mechanical scaffold but is itself unable to bind directly to membrane components. Clathrin-associated adaptor protein (AP) complexes which can bind directly to both the clathrin lattice and to the lipid and protein components of membranes are considered to be the major clathrin adaptors contributing the CCV formation. AP-2 also serves as a cargo receptor to selectively sort the membrane proteins involved in receptor-mediated endocytosis. AP-2 seems to play a role in the recycling of synaptic vesicle membranes from the presynaptic surface. AP-2 recognizes Y-X-X-[FILMV] (Y-X-X-Phi) and [ED]-X-X-X-L-[LI] endocytosis signal motifs within the cytosolic tails of transmembrane cargo molecules. AP-2 may also play a role in maintaining normal post-endocytic trafficking through the ARF6-regulated, non-clathrin pathway. The AP-2 alpha and AP-2 sigma subunits are thought to contribute to the recognition of the [ED]-X-X-X-L-[LI] motif.

Pongo abelii (taxid: 9601)

>sp|P62743|AP2S1_MOUSE AP-2 complex subunit sigma OS=Mus musculus GN=Ap2s1 PE=1 SV=1

 Score =  159 bits (403), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 77/123 (62%), Positives = 95/123 (77%), Gaps = 3/123 (2%)

Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
           MIRFIL+QNR GKTRLAK+Y+  +D EK K+  EVH +V  RD K TNFVEFR  K+IYR
Sbjct: 1   MIRFILIQNRAGKTRLAKWYMQFDDDEKQKLIEEVHAVVTVRDAKHTNFVEFRNFKIIYR 60

Query: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHK---VCDRIFIS 117
           RYAGL+F +CVD+ DN LAYLE IH FVE+L+ +F NVCELDLVFNF+K   V D +F++
Sbjct: 61  RYAGLYFCICVDVNDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNFYKVYTVVDEMFLA 120

Query: 118 SSV 120
             +
Sbjct: 121 GEI 123

Component of the adaptor protein complex 2 (AP-2). Adaptor protein complexes function in protein transport via Transport vesicles in different membrane traffic pathways. Adaptor protein complexes are vesicle coat components and appear to be involved in cargo selection and vesicle formation. AP-2 is involved in clathrin-dependent endocytosis in which cargo proteins are incorporated into vesicles surrrounded by clathrin (clathrin-coated vesicles, CCVs) which are destined for fusion with the early endosome. The clathrin lattice serves as a mechanical scaffold but is itself unable to bind directly to membrane components. Clathrin-associated adaptor protein (AP) complexes which can bind directly to both the clathrin lattice and to the lipid and protein components of membranes are considered to be the major clathrin adaptors contributing the CCV formation. AP-2 also serves as a cargo receptor to selectively sort the membrane proteins involved in receptor-mediated endocytosis. AP-2 seems to play a role in the recycling of synaptic vesicle membranes from the presynaptic surface. AP-2 recognizes Y-X-X-[FILMV] (Y-X-X-Phi) and [ED]-X-X-X-L-[LI] endocytosis signal motifs within the cytosolic tails of transmembrane cargo molecules. AP-2 may also play a role in maintaining normal post-endocytic trafficking through the ARF6-regulated, non-clathrin pathway. The AP-2 alpha and AP-2 sigma subunits are thought to contribute to the recognition of the [ED]-X-X-X-L-[LI] motif.

Mus musculus (taxid: 10090)

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	127
255538924	142	clathrin coat assembly protein ap17, put	0.866	0.774	1.0	2e-57
115487800	142	Os12g0207300 [Oryza sativa Japonica Grou	0.866	0.774	0.990	3e-57
357438415	142	AP-2 complex subunit sigma-1 [Medicago t	0.866	0.774	0.990	3e-57
242067999	142	hypothetical protein SORBIDRAFT_05g00704	0.866	0.774	0.990	4e-57
224083002	142	predicted protein [Populus trichocarpa]	0.866	0.774	0.990	4e-57
388503672	142	unknown [Lotus japonicus]	0.866	0.774	0.981	4e-57
351721716	142	uncharacterized protein LOC100500054 [Gl	0.866	0.774	0.981	5e-57
449437206	142	PREDICTED: AP-2 complex subunit sigma-li	0.866	0.774	0.990	5e-57
47115580	132	RecName: Full=AP-2 complex subunit sigma	0.866	0.833	0.990	8e-57
125578822	151	hypothetical protein OsJ_35559 [Oryza sa	0.858	0.721	0.990	8e-57

>gi|255538924|ref|XP_002510527.1| clathrin coat assembly protein ap17, putative [Ricinus communis] gi|223551228|gb|EEF52714.1| clathrin coat assembly protein ap17, putative [Ricinus communis]

 Score =  226 bits (577), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 110/110 (100%), Positives = 110/110 (100%)

Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
           MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR
Sbjct: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60

Query: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110
           RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV
Sbjct: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115487800|ref|NP_001066387.1| Os12g0207300 [Oryza sativa Japonica Group] gi|242085198|ref|XP_002443024.1| hypothetical protein SORBIDRAFT_08g006500 [Sorghum bicolor] gi|17149110|gb|AAL35901.1|AF443601_1 clathrin assembly protein AP17-like protein [Oryza sativa] gi|77553342|gb|ABA96138.1| Clathrin coat assembly protein AP17, putative, expressed [Oryza sativa Japonica Group] gi|113648894|dbj|BAF29406.1| Os12g0207300 [Oryza sativa Japonica Group] gi|215697333|dbj|BAG91327.1| unnamed protein product [Oryza sativa Japonica Group] gi|241943717|gb|EES16862.1| hypothetical protein SORBIDRAFT_08g006500 [Sorghum bicolor]

 Score =  226 bits (575), Expect = 3e-57,   Method: Compositional matrix adjust.
 Identities = 109/110 (99%), Positives = 110/110 (100%)

Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
           MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR
Sbjct: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60

Query: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110
           RYAGLFFS+CVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV
Sbjct: 61  RYAGLFFSMCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357438415|ref|XP_003589483.1| AP-2 complex subunit sigma-1 [Medicago truncatula] gi|217075070|gb|ACJ85895.1| unknown [Medicago truncatula] gi|355478531|gb|AES59734.1| AP-2 complex subunit sigma-1 [Medicago truncatula] gi|388497856|gb|AFK36994.1| unknown [Medicago truncatula]

 Score =  226 bits (575), Expect = 3e-57,   Method: Compositional matrix adjust.
 Identities = 109/110 (99%), Positives = 110/110 (100%)

Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
           MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPK+TNFVEFRTHKVIYR
Sbjct: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKYTNFVEFRTHKVIYR 60

Query: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110
           RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV
Sbjct: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242067999|ref|XP_002449276.1| hypothetical protein SORBIDRAFT_05g007040 [Sorghum bicolor] gi|223942567|gb|ACN25367.1| unknown [Zea mays] gi|241935119|gb|EES08264.1| hypothetical protein SORBIDRAFT_05g007040 [Sorghum bicolor] gi|414591316|tpg|DAA41887.1| TPA: hypothetical protein ZEAMMB73_842750 [Zea mays]

 Score =  225 bits (574), Expect = 4e-57,   Method: Compositional matrix adjust.
 Identities = 109/110 (99%), Positives = 110/110 (100%)

Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
           MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR
Sbjct: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60

Query: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110
           RYAGLFFS+CVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV
Sbjct: 61  RYAGLFFSICVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224083002|ref|XP_002306925.1| predicted protein [Populus trichocarpa] gi|118482928|gb|ABK93377.1| unknown [Populus trichocarpa] gi|118487844|gb|ABK95745.1| unknown [Populus trichocarpa] gi|118488818|gb|ABK96219.1| unknown [Populus trichocarpa x Populus deltoides] gi|222856374|gb|EEE93921.1| predicted protein [Populus trichocarpa]

 Score =  225 bits (574), Expect = 4e-57,   Method: Compositional matrix adjust.
 Identities = 109/110 (99%), Positives = 110/110 (100%)

Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
           MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR
Sbjct: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60

Query: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110
           RYAGLFF+LCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV
Sbjct: 61  RYAGLFFALCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388503672|gb|AFK39902.1| unknown [Lotus japonicus]

 Score =  225 bits (574), Expect = 4e-57,   Method: Compositional matrix adjust.
 Identities = 108/110 (98%), Positives = 110/110 (100%)

Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
           MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPK+TNFVEFRTHK+IYR
Sbjct: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKYTNFVEFRTHKIIYR 60

Query: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110
           RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV
Sbjct: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351721716|ref|NP_001236195.1| uncharacterized protein LOC100500054 [Glycine max] gi|255628845|gb|ACU14767.1| unknown [Glycine max] gi|388502922|gb|AFK39527.1| unknown [Lotus japonicus]

 Score =  225 bits (573), Expect = 5e-57,   Method: Compositional matrix adjust.
 Identities = 108/110 (98%), Positives = 110/110 (100%)

Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
           MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPK+TNFVEFRTHK+IYR
Sbjct: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKYTNFVEFRTHKIIYR 60

Query: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110
           RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV
Sbjct: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449437206|ref|XP_004136383.1| PREDICTED: AP-2 complex subunit sigma-like [Cucumis sativus] gi|449505752|ref|XP_004162559.1| PREDICTED: AP-2 complex subunit sigma-like [Cucumis sativus]

 Score =  225 bits (573), Expect = 5e-57,   Method: Compositional matrix adjust.
 Identities = 109/110 (99%), Positives = 110/110 (100%)

Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
           MIRFILLQNRQGKTRLAKYYVPLE+SEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR
Sbjct: 1   MIRFILLQNRQGKTRLAKYYVPLEESEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60

Query: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110
           RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV
Sbjct: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|47115580|sp|O50016.1|AP2S1_MAIZE RecName: Full=AP-2 complex subunit sigma; AltName: Full=Clathrin assembly protein 2 small chain; AltName: Full=Clathrin coat assembly protein AP17; AltName: Full=Clathrin coat-associated protein AP17; AltName: Full=Plasma membrane adaptor AP-2 17 kDa protein; AltName: Full=Sigma2-adaptin gi|2959358|emb|CAA65533.1| clathrin coat assembly protein AP17 [Zea mays]

 Score =  224 bits (571), Expect = 8e-57,   Method: Compositional matrix adjust.
 Identities = 109/110 (99%), Positives = 110/110 (100%)

Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
           MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR
Sbjct: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60

Query: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110
           RYAGLFFS+CVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV
Sbjct: 61  RYAGLFFSICVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|125578822|gb|EAZ19968.1| hypothetical protein OsJ_35559 [Oryza sativa Japonica Group]

 Score =  224 bits (571), Expect = 8e-57,   Method: Compositional matrix adjust.
 Identities = 108/109 (99%), Positives = 109/109 (100%)

Query: 2   IRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRR 61
           IRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRR
Sbjct: 11  IRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRR 70

Query: 62  YAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110
           YAGLFFS+CVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV
Sbjct: 71  YAGLFFSMCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 119

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

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	127
TAIR|locus:2202415	142	AT1G47830 [Arabidopsis thalian	0.866	0.774	0.963	4.3e-54
DICTYBASE|DDB_G0289721	142	ap2s1 "sigma adaptin" [Dictyos	0.944	0.845	0.658	5.2e-42
UNIPROTKB|G4MVD4	143	MGG_01762 "AP-2 complex subuni	0.944	0.839	0.645	2.3e-39
ASPGD|ASPL0000061212	145	AN0722 [Emericella nidulans (t	0.944	0.827	0.648	4.8e-39
ZFIN|ZDB-GENE-040426-2174	142	ap2s1 "adaptor-related protein	0.944	0.845	0.634	9.9e-39
UNIPROTKB|Q17QC5	142	AP2S1 "AP-2 complex subunit si	0.944	0.845	0.626	3.4e-38
UNIPROTKB|E2RSJ0	142	AP2S1 "Uncharacterized protein	0.944	0.845	0.626	3.4e-38
UNIPROTKB|P53680	142	AP2S1 "AP-2 complex subunit si	0.944	0.845	0.626	3.4e-38
UNIPROTKB|F2Z4Z5	142	AP2S1 "Uncharacterized protein	0.944	0.845	0.626	3.4e-38
MGI|MGI:2141861	142	Ap2s1 "adaptor-related protein	0.944	0.845	0.626	3.4e-38

TAIR|locus:2202415 AT1G47830 [Arabidopsis thaliana (taxid:3702)]

 Score = 559 (201.8 bits), Expect = 4.3e-54, P = 4.3e-54
 Identities = 106/110 (96%), Positives = 108/110 (98%)

Query:     1 MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
             MIRFILLQNRQGKTRLAKYYVPLE+SEKHKVEYEVHRLVVNRD KFTNFVEFRTHKVIYR
Sbjct:     1 MIRFILLQNRQGKTRLAKYYVPLEESEKHKVEYEVHRLVVNRDAKFTNFVEFRTHKVIYR 60

Query:    61 RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110
             RYAGLFFS+CVDITDNELAYLE IHLFVEILDHFFSNVCELDLVFNFHKV
Sbjct:    61 RYAGLFFSVCVDITDNELAYLESIHLFVEILDHFFSNVCELDLVFNFHKV 110

GO:0005794 "Golgi apparatus" evidence=ISM

GO:0006810 "transport" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=ISS

GO:0008565 "protein transporter activity" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0030125 "clathrin vesicle coat" evidence=ISS

DICTYBASE|DDB_G0289721 ap2s1 "sigma adaptin" [Dictyostelium discoideum (taxid:44689)]

 Score = 445 (161.7 bits), Expect = 5.2e-42, P = 5.2e-42
 Identities = 81/123 (65%), Positives = 102/123 (82%)

Query:     1 MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
             MI FIL+QNRQGKTRL+K+Y P ED EK K+ +E+H++V +R+ KFTNFVEFRTH+++YR
Sbjct:     1 MIHFILIQNRQGKTRLSKWYTPYEDVEKRKLSHEIHKIVNSRETKFTNFVEFRTHRIVYR 60

Query:    61 RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV---CDRIFIS 117
             RYAGLFFS+CVD TDNEL  LE IHLFVE+LD +F NVCELDLVFNF+KV    D +F++
Sbjct:    61 RYAGLFFSVCVDPTDNELFCLEAIHLFVEVLDAYFGNVCELDLVFNFYKVYAIIDEVFLA 120

Query:   118 SSV 120
               +
Sbjct:   121 GEL 123

GO:0030122 "AP-2 adaptor complex" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0008565 "protein transporter activity" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0005905 "coated pit" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

UNIPROTKB|G4MVD4 MGG_01762 "AP-2 complex subunit sigma" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 420 (152.9 bits), Expect = 2.3e-39, P = 2.3e-39
 Identities = 80/124 (64%), Positives = 97/124 (78%)

Query:     1 MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKF-TNFVEFRTHKVIY 59
             M+ FIL+QNRQGKTRLAK+Y P  D EK K++ EVHRLV  RD K+ +NFVEFR +K++Y
Sbjct:     1 MLSFILIQNRQGKTRLAKWYAPYSDEEKIKLKGEVHRLVAPRDQKYQSNFVEFRNNKLVY 60

Query:    60 RRYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV---CDRIFI 116
             RRYAGLFF  CVD  DNELA+LE IH FVE+LD FF NVCELDLVFNF+KV    D +F+
Sbjct:    61 RRYAGLFFCACVDTNDNELAFLEAIHFFVEVLDAFFGNVCELDLVFNFYKVYAILDEVFL 120

Query:   117 SSSV 120
             +  +
Sbjct:   121 AGEI 124

GO:0003674 "molecular_function" evidence=ND

ASPGD|ASPL0000061212 AN0722 [Emericella nidulans (taxid:162425)]

 Score = 417 (151.9 bits), Expect = 4.8e-39, P = 4.8e-39
 Identities = 81/125 (64%), Positives = 98/125 (78%)

Query:     1 MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKF-TNFVEF-RTHKVI 58
             ++ FIL+QNRQGKTRLAK+Y P  D EK K++ EVHRLV  RD K+ +NFVEF R+ K++
Sbjct:     2 VLSFILVQNRQGKTRLAKWYAPYSDEEKVKLKGEVHRLVAPRDQKYQSNFVEFKRSTKIV 61

Query:    59 YRRYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV---CDRIF 115
             YRRYAGLFF  CVD TDNELAYLE IH FVE+LD FF NVCELDLVFNF+KV    D +F
Sbjct:    62 YRRYAGLFFCACVDATDNELAYLEAIHFFVEVLDQFFGNVCELDLVFNFYKVYAILDEVF 121

Query:   116 ISSSV 120
             ++  +
Sbjct:   122 LAGEI 126

GO:0005634 "nucleus" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0030122 "AP-2 adaptor complex" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0008565 "protein transporter activity" evidence=IEA

ZFIN|ZDB-GENE-040426-2174 ap2s1 "adaptor-related protein complex 2, sigma 1 subunit" [Danio rerio (taxid:7955)]

 Score = 414 (150.8 bits), Expect = 9.9e-39, P = 9.9e-39
 Identities = 78/123 (63%), Positives = 96/123 (78%)

Query:     1 MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
             MIRFIL+QNR GKTRLAK+Y+  +D EK K+  EVH +V  RD K TNFVEFR  K+IYR
Sbjct:     1 MIRFILIQNRAGKTRLAKWYMQFDDDEKQKLIEEVHAVVTVRDAKHTNFVEFRNFKIIYR 60

Query:    61 RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV---CDRIFIS 117
             RYAGL+F +CVD+TDN LAYLE IH FVE+L+ +F NVCELDLVFNF+KV    D +F++
Sbjct:    61 RYAGLYFCICVDVTDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNFYKVYTVVDEMFLA 120

Query:   118 SSV 120
               +
Sbjct:   121 GEI 123

GO:0006810 "transport" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0030117 "membrane coat" evidence=IEA

GO:0008565 "protein transporter activity" evidence=IEA

UNIPROTKB|Q17QC5 AP2S1 "AP-2 complex subunit sigma" [Bos taurus (taxid:9913)]

 Score = 409 (149.0 bits), Expect = 3.4e-38, P = 3.4e-38
 Identities = 77/123 (62%), Positives = 95/123 (77%)

Query:     1 MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
             MIRFIL+QNR GKTRLAK+Y+  +D EK K+  EVH +V  RD K TNFVEFR  K+IYR
Sbjct:     1 MIRFILIQNRAGKTRLAKWYMQFDDDEKQKLIEEVHAVVTVRDAKHTNFVEFRNFKIIYR 60

Query:    61 RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV---CDRIFIS 117
             RYAGL+F +CVD+ DN LAYLE IH FVE+L+ +F NVCELDLVFNF+KV    D +F++
Sbjct:    61 RYAGLYFCICVDVNDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNFYKVYTVVDEMFLA 120

Query:   118 SSV 120
               +
Sbjct:   121 GEI 123

GO:0030122 "AP-2 adaptor complex" evidence=IEA

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

GO:0008565 "protein transporter activity" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

UNIPROTKB|E2RSJ0 AP2S1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 409 (149.0 bits), Expect = 3.4e-38, P = 3.4e-38
 Identities = 77/123 (62%), Positives = 95/123 (77%)

Query:     1 MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
             MIRFIL+QNR GKTRLAK+Y+  +D EK K+  EVH +V  RD K TNFVEFR  K+IYR
Sbjct:     1 MIRFILIQNRAGKTRLAKWYMQFDDDEKQKLIEEVHAVVTVRDAKHTNFVEFRNFKIIYR 60

Query:    61 RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV---CDRIFIS 117
             RYAGL+F +CVD+ DN LAYLE IH FVE+L+ +F NVCELDLVFNF+KV    D +F++
Sbjct:    61 RYAGLYFCICVDVNDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNFYKVYTVVDEMFLA 120

Query:   118 SSV 120
               +
Sbjct:   121 GEI 123

GO:0030122 "AP-2 adaptor complex" evidence=IEA

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

GO:0008565 "protein transporter activity" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

UNIPROTKB|P53680 AP2S1 "AP-2 complex subunit sigma" [Homo sapiens (taxid:9606)]

 Score = 409 (149.0 bits), Expect = 3.4e-38, P = 3.4e-38
 Identities = 77/123 (62%), Positives = 95/123 (77%)

Query:     1 MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
             MIRFIL+QNR GKTRLAK+Y+  +D EK K+  EVH +V  RD K TNFVEFR  K+IYR
Sbjct:     1 MIRFILIQNRAGKTRLAKWYMQFDDDEKQKLIEEVHAVVTVRDAKHTNFVEFRNFKIIYR 60

Query:    61 RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV---CDRIFIS 117
             RYAGL+F +CVD+ DN LAYLE IH FVE+L+ +F NVCELDLVFNF+KV    D +F++
Sbjct:    61 RYAGLYFCICVDVNDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNFYKVYTVVDEMFLA 120

Query:   118 SSV 120
               +
Sbjct:   121 GEI 123

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0030122 "AP-2 adaptor complex" evidence=TAS

GO:0048268 "clathrin coat assembly" evidence=TAS

GO:0008565 "protein transporter activity" evidence=NAS

GO:0030100 "regulation of endocytosis" evidence=TAS

GO:0005215 "transporter activity" evidence=NAS

GO:0005829 "cytosol" evidence=TAS

GO:0005886 "plasma membrane" evidence=TAS

GO:0007173 "epidermal growth factor receptor signaling pathway" evidence=TAS

GO:0007268 "synaptic transmission" evidence=TAS

GO:0007411 "axon guidance" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0019886 "antigen processing and presentation of exogenous peptide antigen via MHC class II" evidence=TAS

GO:0030666 "endocytic vesicle membrane" evidence=TAS

GO:0030669 "clathrin-coated endocytic vesicle membrane" evidence=TAS

GO:0042059 "negative regulation of epidermal growth factor receptor signaling pathway" evidence=TAS

GO:0048011 "neurotrophin TRK receptor signaling pathway" evidence=TAS

GO:0050690 "regulation of defense response to virus by virus" evidence=TAS

UNIPROTKB|F2Z4Z5 AP2S1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 409 (149.0 bits), Expect = 3.4e-38, P = 3.4e-38
 Identities = 77/123 (62%), Positives = 95/123 (77%)

Query:     1 MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
             MIRFIL+QNR GKTRLAK+Y+  +D EK K+  EVH +V  RD K TNFVEFR  K+IYR
Sbjct:     1 MIRFILIQNRAGKTRLAKWYMQFDDDEKQKLIEEVHAVVTVRDAKHTNFVEFRNFKIIYR 60

Query:    61 RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV---CDRIFIS 117
             RYAGL+F +CVD+ DN LAYLE IH FVE+L+ +F NVCELDLVFNF+KV    D +F++
Sbjct:    61 RYAGLYFCICVDVNDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNFYKVYTVVDEMFLA 120

Query:   118 SSV 120
               +
Sbjct:   121 GEI 123

GO:0030122 "AP-2 adaptor complex" evidence=IEA

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

GO:0008565 "protein transporter activity" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

MGI|MGI:2141861 Ap2s1 "adaptor-related protein complex 2, sigma 1 subunit" [Mus musculus (taxid:10090)]

 Score = 409 (149.0 bits), Expect = 3.4e-38, P = 3.4e-38
 Identities = 77/123 (62%), Positives = 95/123 (77%)

Query:     1 MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
             MIRFIL+QNR GKTRLAK+Y+  +D EK K+  EVH +V  RD K TNFVEFR  K+IYR
Sbjct:     1 MIRFILIQNRAGKTRLAKWYMQFDDDEKQKLIEEVHAVVTVRDAKHTNFVEFRNFKIIYR 60

Query:    61 RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV---CDRIFIS 117
             RYAGL+F +CVD+ DN LAYLE IH FVE+L+ +F NVCELDLVFNF+KV    D +F++
Sbjct:    61 RYAGLYFCICVDVNDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNFYKVYTVVDEMFLA 120

Query:   118 SSV 120
               +
Sbjct:   121 GEI 123

GO:0003674 "molecular_function" evidence=ND

GO:0005886 "plasma membrane" evidence=IEA

GO:0005905 "coated pit" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0008565 "protein transporter activity" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

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

GO:0030117 "membrane coat" evidence=IEA

GO:0030122 "AP-2 adaptor complex" evidence=ISO

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P53680	AP2S1_HUMAN	No assigned EC number	0.6260	0.9448	0.8450	yes	no
Q5BFF8	AP2S_EMENI	No assigned EC number	0.648	0.9448	0.8275	yes	no
Q54H39	AP2S_DICDI	No assigned EC number	0.6585	0.9448	0.8450	yes	no
Q5R940	AP2S1_PONAB	No assigned EC number	0.6260	0.9448	0.8450	yes	no
Q17QC5	AP2S1_BOVIN	No assigned EC number	0.6260	0.9448	0.8450	yes	no
Q9Y7L6	AP2S_SCHPO	No assigned EC number	0.5669	0.9685	0.8601	yes	no
O50016	AP2S1_MAIZE	No assigned EC number	0.9909	0.8661	0.8333	N/A	no
Q4WS49	AP2S_ASPFU	No assigned EC number	0.648	0.9448	0.8275	yes	no
P62744	AP2S1_RAT	No assigned EC number	0.6260	0.9448	0.8450	yes	no
Q84WL9	AP2S_ARATH	No assigned EC number	0.9636	0.8661	0.7746	yes	no
P62743	AP2S1_MOUSE	No assigned EC number	0.6260	0.9448	0.8450	yes	no
Q4ICG5	AP2S_GIBZE	No assigned EC number	0.6370	0.9448	0.8391	yes	no
Q7SAQ1	AP2S_NEUCR	No assigned EC number	0.6693	0.9448	0.8391	N/A	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	127
COG5030	152	COG5030, APS2, Clathrin adaptor complex, small sub	6e-48
pfam01217	142	pfam01217, Clat_adaptor_s, Clathrin adaptor comple	1e-47

>gnl|CDD|227363 COG5030, APS2, Clathrin adaptor complex, small subunit [Intracellular trafficking and secretion]

 Score =  150 bits (381), Expect = 6e-48
 Identities = 62/110 (56%), Positives = 80/110 (72%)

Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
           MI+F+L+ NRQGK RL K+Y P+ D E+ K+  +++ L+  R PK +NF+E +  K++YR
Sbjct: 1   MIKFVLIFNRQGKPRLVKWYTPVSDPEQAKLIADIYELISARKPKESNFIEGKNEKIVYR 60

Query: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110
           RYA L+F   VD  DNEL  LE IH FVEILD FF NVCELDL+FNF KV
Sbjct: 61  RYATLYFVFGVDNDDNELIILELIHNFVEILDRFFGNVCELDLIFNFQKV 110

Length = 152

>gnl|CDD|110234 pfam01217, Clat_adaptor_s, Clathrin adaptor complex small chain

 Score =  149 bits (378), Expect = 1e-47
 Identities = 63/110 (57%), Positives = 79/110 (71%)

Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
           MI+ IL+ NRQGK RLAK+Y P  D E+ K+  +++ L+  R PK +NF+EF   KVIY+
Sbjct: 1   MIKAILIFNRQGKPRLAKWYTPYSDPEQQKLIEQIYALISARKPKMSNFIEFNDLKVIYK 60

Query: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110
           RYA L+F + VD  DNEL  LE IH FVE LD +F NVCELDL+FNF KV
Sbjct: 61  RYATLYFVVIVDDQDNELIILELIHRFVESLDRYFGNVCELDLIFNFEKV 110

Length = 142

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	127
COG5030	152	APS2 Clathrin adaptor complex, small subunit [Intr	100.0
KOG0934	145	consensus Clathrin adaptor complex, small subunit	100.0
KOG0936	182	consensus Clathrin adaptor complex, small subunit	100.0
KOG0935	143	consensus Clathrin adaptor complex, small subunit	100.0
PF01217	141	Clat_adaptor_s: Clathrin adaptor complex small cha	100.0
KOG3343	175	consensus Vesicle coat complex COPI, zeta subunit	99.93
KOG0938	446	consensus Adaptor complexes medium subunit family	99.8
COG5541	187	RET3 Vesicle coat complex COPI, zeta subunit [Post	99.69
KOG0937	424	consensus Adaptor complexes medium subunit family	99.23
KOG2740	418	consensus Clathrin-associated protein medium chain	98.87
KOG2635	512	consensus Medium subunit of clathrin adaptor compl	97.86
PF15001	189	AP-5_subunit_s1: AP-5 complex subunit sigma-1	95.54
PF08923	119	MAPKK1_Int: Mitogen-activated protein kinase kinas	93.6
PF03164	415	Mon1: Trafficking protein Mon1; InterPro: IPR00435	91.53

>COG5030 APS2 Clathrin adaptor complex, small subunit [Intracellular trafficking and secretion]

Probab=100.00  E-value=3e-54  Score=313.74  Aligned_cols=125  Identities=51%  Similarity=0.871  Sum_probs=123.2

Q ss_pred             CeEEEEeecCCCCceeeecCCCCChHHHHHHHHHHhhhhcCCCCCccceEEeCCeEEEEEeeccEEEEEEecCCccHHHH
Q 033113            1 MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDITDNELAY   80 (127)
Q Consensus         1 MI~~vli~n~~Gk~rl~K~Y~~~~~~~~~~~~~~v~~~v~~r~~~~~~~~~~~~~~ivYrrya~L~f~~~~d~~eNel~~   80 (127)
                      ||+|+|++|+|||+||+|||+|.+.++|+++++++++++++|++++|||+++.+.|+||||||+|||++++|++||||++
T Consensus         1 ~i~~vli~nrqgk~RL~K~yt~~~~~e~~kli~~i~~lIs~R~~ke~N~~e~k~~kiVYrrYA~LyF~f~Vd~~dnEl~i   80 (152)
T COG5030           1 MIKFVLIFNRQGKPRLVKWYTPVSDPEQAKLIADIYELISARKPKESNFIEGKNEKIVYRRYATLYFVFGVDNDDNELII   80 (152)
T ss_pred             CeEEEEEEcCCCceeeeEeeccCCcHHHHHHHHHHHHHHHcCCchhcccccccCcEEEeeecCcEEEEEEEcCCCCcchH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhchhHHHHhHHHHH---HHHHhCCEeeeccc
Q 033113           81 LECIHLFVEILDHFFSNVCELDLVFNFHKVC---DRIFISSSVTVSFC  125 (127)
Q Consensus        81 le~I~~~ve~Ld~~f~nVcEldii~nf~k~~---DE~i~~G~v~e~~~  125 (127)
                      ||+||.|||+||+|||||||||+||||.|+|   |||+.||+++||..
T Consensus        81 L~lIh~FVE~lDr~FgnVCELdlIFNF~kv~~ILdE~i~gG~i~Es~~  128 (152)
T COG5030          81 LELIHNFVEILDRFFGNVCELDLIFNFQKVYAILDEMILGGEIIESSK  128 (152)
T ss_pred             HHHHHHHHHHHHHHhccceeeEeEeeHHHHHHHHHHHHhCCeeeecCH
Confidence            9999999999999999999999999999999   99999999999864

>KOG0934 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1e-51  Score=299.61  Aligned_cols=125  Identities=48%  Similarity=0.860  Sum_probs=122.7

Q ss_pred             CeEEEEeecCCCCceeeecCCCCChHHHHHHHHHHhhhhcCCCCCccceEEeCCeEEEEEeeccEEEEEEecCCccHHHH
Q 033113            1 MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDITDNELAY   80 (127)
Q Consensus         1 MI~~vli~n~~Gk~rl~K~Y~~~~~~~~~~~~~~v~~~v~~r~~~~~~~~~~~~~~ivYrrya~L~f~~~~d~~eNel~~   80 (127)
                      ||+|++++|+|||+||+|||.+.+.++|+++++++.+.+++|++++|+|+++++.|+||||||+|||+++++.+||||++
T Consensus         1 mi~f~LlvsrQGk~rL~k~y~~~~~~er~~i~re~i~~~Lar~pk~csfie~kd~kvVyrryasl~f~~~v~~~dNEL~~   80 (145)
T KOG0934|consen    1 MIKFFLLVSRQGKTRLQKWYEALSIKERKKIERELIKSVLARKPKMCSFIEYKDEKVVYRRYASLFFCVGVEDNDNELAI   80 (145)
T ss_pred             CeEEEEEEeccCceehhHHHhhhcHHHHHHHHHHHHHHHHhCCcccccchhccCceehhhhhhhEEEEEEEecCCchhhH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhchhHHHHhHHHHH---HHHHhCCEeeeccc
Q 033113           81 LECIHLFVEILDHFFSNVCELDLVFNFHKVC---DRIFISSSVTVSFC  125 (127)
Q Consensus        81 le~I~~~ve~Ld~~f~nVcEldii~nf~k~~---DE~i~~G~v~e~~~  125 (127)
                      ||+||.|||+||+|||||||||+||||+|+|   ||++.+|+++|+.-
T Consensus        81 LE~IH~~vE~lDkYFg~VCELDiiFNfekay~ILde~~~~g~~~e~~k  128 (145)
T KOG0934|consen   81 LEFIHNYVELLDKYFGSVCELDIIFNFEKAYFILDEFLLGGEIQETSK  128 (145)
T ss_pred             HHHHHHHHHHHHHHhccceeeEEEEehHhHHHHHHHHhcCcchHhhhc
Confidence            9999999999999999999999999999999   99999999988753

>KOG0936 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=3.9e-50  Score=296.66  Aligned_cols=124  Identities=41%  Similarity=0.740  Sum_probs=120.9

Q ss_pred             CeEEEEeecCCCCceeeecCCCCChHHHHHHHHHHhhhhcCCCCCccceEEe----C--CeEEEEEeeccEEEEEEecCC
Q 033113            1 MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEF----R--THKVIYRRYAGLFFSLCVDIT   74 (127)
Q Consensus         1 MI~~vli~n~~Gk~rl~K~Y~~~~~~~~~~~~~~v~~~v~~r~~~~~~~~~~----~--~~~ivYrrya~L~f~~~~d~~   74 (127)
                      ||+|++|+|++|||||+|||+|.+.+.||++++++|..+++|++..|||++-    +  +.+++||+||+|||++|+|++
T Consensus         1 MI~AvlifNn~gkPRL~KFY~p~~~~~Qq~lir~vf~lvs~R~~n~~nFLe~~~l~g~~d~rlIYrhYATLYFvfvvD~s   80 (182)
T KOG0936|consen    1 MIKAVLIFNNKGKPRLVKFYTPVDEEKQQQLIREVFHLVSKRPDNVCNFLEGNSLIGGSDNRLIYRHYATLYFVFVVDSS   80 (182)
T ss_pred             CeeEEEEecCCCCcceeeecCcCChHHHHHHHHHHHHHHHcCCchHhhhhccccccCCccceeehheeeeEEEEEEEcCC
Confidence            9999999999999999999999999999999999999999999999999985    3  799999999999999999999


Q ss_pred             ccHHHHHHHHHHHHHHHHHHhhhhchhHHHHhHHHHH---HHHHhCCEeeecc
Q 033113           75 DNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKVC---DRIFISSSVTVSF  124 (127)
Q Consensus        75 eNel~~le~I~~~ve~Ld~~f~nVcEldii~nf~k~~---DE~i~~G~v~e~~  124 (127)
                      ||||++||+||.|||+||++|+|||||||+||++|+|   +|+++||+|+||-
T Consensus        81 EsEL~iLDLIQvfVEtLDkCF~nVcELDliF~~~k~h~iL~EiV~GGmVlETn  133 (182)
T KOG0936|consen   81 ESELGILDLIQVFVETLDKCFENVCELDLIFNWQKVHAILAEIVMGGMVLETN  133 (182)
T ss_pred             cchhHHHHHHHHHHHHHHHHHHhhhhhhheeeHHHHHHHHHHHHhCCeEEecc
Confidence            9999999999999999999999999999999999999   9999999999984

>KOG0935 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.6e-49  Score=283.62  Aligned_cols=124  Identities=68%  Similarity=1.122  Sum_probs=118.5

Q ss_pred             CeEEEEeecCCCCceeeecCCCCChHHHHHHHHHHhhhhcCCCCCccceEEeCCeEEEEE-eeccEEEEEEecCCccHHH
Q 033113            1 MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR-RYAGLFFSLCVDITDNELA   79 (127)
Q Consensus         1 MI~~vli~n~~Gk~rl~K~Y~~~~~~~~~~~~~~v~~~v~~r~~~~~~~~~~~~~~ivYr-rya~L~f~~~~d~~eNel~   79 (127)
                      ||+|+|++|++||+||+|||.|.+.+++++++.+|++++++|+++..|+++.++.|++|| |||+|||++|+|..+||++
T Consensus         1 mi~FILiqNr~Gk~RLak~yv~~dd~ek~~~~~~vh~lvs~Rd~K~~~~~~~~~~~~~~~rryagLyf~~~vd~tDnela   80 (143)
T KOG0935|consen    1 MIRFILIQNRAGKTRLAKWYVQFDDDEKQKLIEEVHALVTVRDAKHTNFVEFRNFKIIYRRRYAGLYFCICVDVTDNELA   80 (143)
T ss_pred             CeEEEEEEccccceeheeeeeccCchHHHHHHHHHHHHHhhccchhhhheeeeeceEEEEEeeCCEEEEEEEecCCchHH
Confidence            999999999999999999999999999999999999999999999988888777776655 8999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhhhchhHHHHhHHHHH---HHHHhCCEeeecc
Q 033113           80 YLECIHLFVEILDHFFSNVCELDLVFNFHKVC---DRIFISSSVTVSF  124 (127)
Q Consensus        80 ~le~I~~~ve~Ld~~f~nVcEldii~nf~k~~---DE~i~~G~v~e~~  124 (127)
                      +||.||.|||+||.||+||||||++|||+|+|   |||+.||+++||.
T Consensus        81 yLe~IHlFVEvLd~fF~NVCELDlvFNFyKVy~i~DEm~l~GEi~Ets  128 (143)
T KOG0935|consen   81 YLEHIHLFVEVLDEFFHNVCELDLVFNFYKVYTIVDEMFLAGEIRETS  128 (143)
T ss_pred             HHHHHHHHHHHHHHHhccccceeeeeeeeeHHHHHHHHHHhhhhhhhh
Confidence            99999999999999999999999999999999   9999999999984

>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=100.00  E-value=1.7e-38  Score=230.46  Aligned_cols=125  Identities=34%  Similarity=0.552  Sum_probs=119.0

Q ss_pred             CeEEEEeecCCCCceeeecCCCCChHHHHHHHHHHhhhhcCCCCCccceEEeCCeEEEEEeeccEEEEEEecCCccHHHH
Q 033113            1 MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDITDNELAY   80 (127)
Q Consensus         1 MI~~vli~n~~Gk~rl~K~Y~~~~~~~~~~~~~~v~~~v~~r~~~~~~~~~~~~~~ivYrrya~L~f~~~~d~~eNel~~   80 (127)
                      ||+|++|+|++|+++++|||.+.+.++++++.+++.+.+.+|+++.||++.++++++|||++++|||+++++.++||+++
T Consensus         1 MI~~i~i~n~~G~~i~~k~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~vy~~~~dl~~~~v~~~~eNel~~   80 (141)
T PF01217_consen    1 MIKAILILNSQGKRILSKYYRDVSEEERQKLFEKFIKKKSSRNSKQSPIFEHDNYRIVYKRYSDLYFVVVGDENENELLL   80 (141)
T ss_dssp             SEEEEEEEETTSEEEEEEESSTSTSHHHHHHHHHHHHHHHTSSSSSTSEEEETTEEEEEEEETTEEEEEEESSTSBHHHH
T ss_pred             CEEEEEEEcCCCCEEEehhcCCccHHHHHHHHHHHHHHHHhcccccceeeecccceeeeEeeccEEEEEEeecccchHHH
Confidence            99999999999999999999999999999999999999888988889999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhchhHHHHhHHHHH---HHHHhCCEeeeccc
Q 033113           81 LECIHLFVEILDHFFSNVCELDLVFNFHKVC---DRIFISSSVTVSFC  125 (127)
Q Consensus        81 le~I~~~ve~Ld~~f~nVcEldii~nf~k~~---DE~i~~G~v~e~~~  125 (127)
                      +|+||.++++|+.|||+|||+++++||+++|   |||+++|+|+||.+
T Consensus        81 ~e~l~~~v~~l~~~~~~v~e~~i~~N~~~v~~~LDEiid~G~i~etd~  128 (141)
T PF01217_consen   81 LEFLHRLVEVLDDYFGNVSEKDILENFDLVYLILDEIIDGGIILETDP  128 (141)
T ss_dssp             HHHHHHHHHHHHHHHSS-SHHHHHHTHHHHHHHHHHHEETTEES--TH
T ss_pred             HHHHHHhhhhhhhhhccccHHHHHHCHHHHHHHHHHHHhCCEEEECCH
Confidence            9999999999999999999999999999999   99999999999975

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.

>KOG3343 consensus Vesicle coat complex COPI, zeta subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.93  E-value=8.8e-26  Score=167.88  Aligned_cols=121  Identities=21%  Similarity=0.303  Sum_probs=113.1

Q ss_pred             eEEEEeecCCCCceeeecCCC--CC-hHHHHHHHHHHhhhhcCCCCCccceEEeCCeEEEEEeeccEEEEEEecCCccHH
Q 033113            2 IRFILLQNRQGKTRLAKYYVP--LE-DSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDITDNEL   78 (127)
Q Consensus         2 I~~vli~n~~Gk~rl~K~Y~~--~~-~~~~~~~~~~v~~~v~~r~~~~~~~~~~~~~~ivYrrya~L~f~~~~d~~eNel   78 (127)
                      +++++|+|++|++.++|||.+  ++ .++|+.+|+.+|+++++   ..+.++.++|.++|||.+-+|+|++++...||||
T Consensus         9 vk~iliLD~~G~Ri~aKYY~~~~~s~vkeqkaFEK~lF~KT~k---t~~eI~~ldg~~vvYk~~~Dl~fyv~G~~~ENEl   85 (175)
T KOG3343|consen    9 VKAILILDSDGKRILAKYYDDPHPSTVKEQKAFEKNLFSKTSK---TESEILLLDGNTVVYKSVIDLHFYVVGSEEENEL   85 (175)
T ss_pred             hheEEEEcCCCCEeeeeecCCCcchhHHHHHHHHHHHhccccc---ccceeEEecCcEEEEEecccEEEEEecCcchhHH
Confidence            689999999999999999985  34 88999999999998874   3477999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHh-hhhchhHHHHhHHHHH---HHHHhCCEeeeccc
Q 033113           79 AYLECIHLFVEILDHFF-SNVCELDLVFNFHKVC---DRIFISSSVTVSFC  125 (127)
Q Consensus        79 ~~le~I~~~ve~Ld~~f-~nVcEldii~nf~k~~---DE~i~~G~v~e~~~  125 (127)
                      .+.+.++++.++++..+ .||.+..++.|+|.++   |||+++|.|+||+|
T Consensus        86 ~L~svL~~l~dal~llLr~nveKr~llEN~D~i~L~~DEiiD~GvILEtdp  136 (175)
T KOG3343|consen   86 MLMSVLTCLFDALSLLLRKNVEKRELLENLDLIFLALDEIIDGGVILETDP  136 (175)
T ss_pred             HHHHHHHHHHHHHHHHHHhChhHHHHHhhhccceeehhhhccCceEEecCH
Confidence            99999999999999999 5799999999999999   99999999999986

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

Probab=99.80  E-value=3.1e-19  Score=146.58  Aligned_cols=121  Identities=15%  Similarity=0.174  Sum_probs=116.2

Q ss_pred             CeEEEEeecCCCCceeeecCCCCChHHHHHHHHHHhhh-hcCCCCCccceEEeCCeEEEEEeeccEEEEEEecCCccHHH
Q 033113            1 MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRL-VVNRDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDITDNELA   79 (127)
Q Consensus         1 MI~~vli~n~~Gk~rl~K~Y~~~~~~~~~~~~~~v~~~-v~~r~~~~~~~~~~~~~~ivYrrya~L~f~~~~d~~eNel~   79 (127)
                      ||.+++++|.+|++.++|.|.+    +-++...++||. +++..+.+||++..++++++|-|..+||.++++.+|.|-.+
T Consensus         1 misglfi~n~rGevlink~fr~----dlkrs~~diFRv~vi~n~d~r~PV~~igsttf~~~r~~nl~lvaitksN~Nva~   76 (446)
T KOG0938|consen    1 MISGLFIYNLRGEVLINKTFRD----DLKRSIVDIFRVQVINNLDVRSPVLTIGSTTFHHIRSSNLWLVAITKSNANVAA   76 (446)
T ss_pred             CcceEEEEeccCcEEEehhhhh----hhhhhHHHHHHHhhhhccccCCCeeEecceeEEEEeeccEEEEEEecCCCchhh
Confidence            8999999999999999999998    899999999998 77776778999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhhhchhHHHHhHHHHH---HHHHhCCEeeeccc
Q 033113           80 YLECIHLFVEILDHFFSNVCELDLVFNFHKVC---DRIFISSSVTVSFC  125 (127)
Q Consensus        80 ~le~I~~~ve~Ld~~f~nVcEldii~nf~k~~---DE~i~~G~v~e~~~  125 (127)
                      ++||+..++..+..|||...|..|..||..+|   |||++.|++++|-+
T Consensus        77 v~eFl~kl~avm~aYfgk~~Eeaiknnf~lI~ElLDemld~G~pqnte~  125 (446)
T KOG0938|consen   77 VFEFLYKLDAVMNAYFGKDREEAIKNNFVLIYELLDEMLDFGIPQNTEP  125 (446)
T ss_pred             HHHHHHHHHHHHHHHhcccchhhhhhceEeHHHHHHHHHhcCCCccCCh
Confidence            99999999999999999999999999999999   99999999998864

>COG5541 RET3 Vesicle coat complex COPI, zeta subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.69  E-value=2.2e-16  Score=117.73  Aligned_cols=121  Identities=13%  Similarity=0.202  Sum_probs=109.8

Q ss_pred             eEEEEeecCCCCceeeecCCCC-----------ChHHHHHHHHHHhhhhcCCCCCccceEEeCCeEEEEEeeccEEEEEE
Q 033113            2 IRFILLQNRQGKTRLAKYYVPL-----------EDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRRYAGLFFSLC   70 (127)
Q Consensus         2 I~~vli~n~~Gk~rl~K~Y~~~-----------~~~~~~~~~~~v~~~v~~r~~~~~~~~~~~~~~ivYrrya~L~f~~~   70 (127)
                      ++|+||+|+||++..+|||.|+           |-++++.+++.+++++.+   .+++++.+.+.-++|+|+-++.++.+
T Consensus         8 v~a~LilDsqGeriy~kyy~pph~~eg~~~vFnsvkkekefek~l~eKt~k---~~~~Il~f~d~lV~~k~~~dv~~yiv   84 (187)
T COG5541           8 VEALLILDSQGERIYRKYYQPPHRSEGHQLVFNSVKKEKEFEKKLAEKTAK---DRESILMFYDRLVMCKRLDDVLLYIV   84 (187)
T ss_pred             eeeeEEecCCccchhhhhcCCcccccccchhhcchhHHHHHHHHHHHHhhc---CccceeeEcceeeeeeeehhEEEEEe
Confidence            6899999999999999999875           677899999999997653   23679999999999999999999999


Q ss_pred             ecCCccHHHHHHHHHHHHHHHHHHhhhh-chhHHHHhHHHHH---HHHHhCCEeeeccc
Q 033113           71 VDITDNELAYLECIHLFVEILDHFFSNV-CELDLVFNFHKVC---DRIFISSSVTVSFC  125 (127)
Q Consensus        71 ~d~~eNel~~le~I~~~ve~Ld~~f~nV-cEldii~nf~k~~---DE~i~~G~v~e~~~  125 (127)
                      ..-+|||..+.+....+..+|+..|..+ .+..+..|||.+-   ||.+++|.|+||.+
T Consensus        85 ~~meeNE~~l~q~f~~ir~Al~li~k~~~dkr~v~enYDqivl~vdEtid~Gvilet~s  143 (187)
T COG5541          85 SPMEENEPFLGQVFDEIRAALILIVKTPTDKRNVWENYDQIVLLVDETIDEGVILETKS  143 (187)
T ss_pred             cccccccHHHHHHHHHHHHHHHHHHcCCcchhhHHhhhceEEEeeehhcccceEeecCh
Confidence            9999999999999999999999999875 5666999999988   99999999999864

>KOG0937 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.23  E-value=1.3e-10  Score=97.96  Aligned_cols=121  Identities=12%  Similarity=0.138  Sum_probs=102.6

Q ss_pred             eEEEEeecCCCCceeeecCCC-CChHHHHHHHHHHhhhhcCCCCCccceEEeCCeEEEEEeeccEEEEEEecCCccHHHH
Q 033113            2 IRFILLQNRQGKTRLAKYYVP-LEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDITDNELAY   80 (127)
Q Consensus         2 I~~vli~n~~Gk~rl~K~Y~~-~~~~~~~~~~~~v~~~v~~r~~~~~~~~~~~~~~ivYrrya~L~f~~~~d~~eNel~~   80 (127)
                      +++++++|.+|+++++|=|.. .+...--++....+.+.  -.+...+++..++...+|-++.+||+++++..|.|...+
T Consensus         1 ~sa~fild~~G~~lisr~yr~dv~~s~~~~F~~~l~~~e--~~~~~~p~l~~~g~~~~~ik~s~lylv~~~~~n~~a~~v   78 (424)
T KOG0937|consen    1 ASAVFILDHKGEVLISRDYRGDVPMSSTEKFFRKLFEKE--EGDESPPFLVHDGSRFIHIKHSNLYLVAGTRPNVSAALV   78 (424)
T ss_pred             CceEEEEcCCCcEeEeecccccCChhhhhhHHHHHhhhc--ccCCCCCeEEeCCceEEEEeecceEEEEEeccCCCHHHH
Confidence            478999999999999998863 33334344444333332  123347899999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhchhHHHHhHHHHH---HHHHhCCEeeecc
Q 033113           81 LECIHLFVEILDHFFSNVCELDLVFNFHKVC---DRIFISSSVTVSF  124 (127)
Q Consensus        81 le~I~~~ve~Ld~~f~nVcEldii~nf~k~~---DE~i~~G~v~e~~  124 (127)
                      +++++.+++++..||+.+.|+.+..||..+|   ||+++.|.+|.|.
T Consensus        79 ~~~l~~~~~v~~~y~~~l~e~si~~n~vlvyElLde~mDFGypQ~t~  125 (424)
T KOG0937|consen   79 LSFLYAVADVFGDYLSELEEESIRDNFVLVYELLDEVMDFGYPQTTD  125 (424)
T ss_pred             HHHHHHHHHHHHHHhccCCccceecchHHHHHHHHHHhccCCcccch
Confidence            9999999999999999999999999999999   9999999998775

>KOG2740 consensus Clathrin-associated protein medium chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.87  E-value=9.2e-09  Score=85.60  Aligned_cols=120  Identities=19%  Similarity=0.209  Sum_probs=87.1

Q ss_pred             CeEEEEeecCCCCceeeecCCCCChHHHHHHHHHH-hhhhcC--CCCCccceEEeCCeEE--EEEeeccEEEEEEecCCc
Q 033113            1 MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEV-HRLVVN--RDPKFTNFVEFRTHKV--IYRRYAGLFFSLCVDITD   75 (127)
Q Consensus         1 MI~~vli~n~~Gk~rl~K~Y~~~~~~~~~~~~~~v-~~~v~~--r~~~~~~~~~~~~~~i--vYrrya~L~f~~~~d~~e   75 (127)
                      ||+++++.|..|+..|.|-.+..   .+.+.+-+. +..-.+  +.+..-+++....+.+  +||.  .++||++.-..-
T Consensus         1 mi~siflidtsg~l~lek~~~g~---t~~rsic~~f~e~~~~~~~~e~~ppvi~~p~hylfsv~~~--~i~~~~~st~e~   75 (418)
T KOG2740|consen    1 MILSIFLIDTSGDLLLEKHLKGS---TVVRSICDYFFEDQSSDDDLEHVPPVISTPHHYLFSVYRD--LIFFCAVSTVET   75 (418)
T ss_pred             CeeEEEEEcCCchhhhhHhhCCc---eeeeehHHHHHHhhhhccccccCCceecCCceeeeeeecc--CcEEEEEEeccC
Confidence            99999999999999999854410   111222222 222111  2233233443444444  3443  678888888777


Q ss_pred             cHHHHHHHHHHHHHHHHHHhhhhchhHHHHhHHHHH---HHHHhCCEeeeccc
Q 033113           76 NELAYLECIHLFVEILDHFFSNVCELDLVFNFHKVC---DRIFISSSVTVSFC  125 (127)
Q Consensus        76 Nel~~le~I~~~ve~Ld~~f~nVcEldii~nf~k~~---DE~i~~G~v~e~~~  125 (127)
                      -.|.+.||+|..++++..|||...|.-|..|+..+|   |||+++|.++-|.+
T Consensus        76 pPL~~iefL~rv~dv~~eyFg~~s~~~Ik~N~~vv~ell~emiDnGfpl~tE~  128 (418)
T KOG2740|consen   76 PPLMVIEFLHRVVDVLLEYFGGLSESKIKDNVVVVYELLDEMIDNGFPLVTEP  128 (418)
T ss_pred             CChhHHHHHHHHHHHHHHHhcccCHhHhhcceeeHHHHHHHHHHcCCCcccCh
Confidence            799999999999999999999999999999999999   99999999987753

>KOG2635 consensus Medium subunit of clathrin adaptor complex [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.86  E-value=0.00022  Score=61.16  Aligned_cols=114  Identities=21%  Similarity=0.330  Sum_probs=92.3

Q ss_pred             EEEEeecCCCCceeeecCCCCChHHHHHHHHHHhhhhcCCCCCccceEEeCCeEEEEEeeccEEEEEEecCCccHHHHHH
Q 033113            3 RFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDITDNELAYLE   82 (127)
Q Consensus         3 ~~vli~n~~Gk~rl~K~Y~~~~~~~~~~~~~~v~~~v~~r~~~~~~~~~~~~~~ivYrrya~L~f~~~~d~~eNel~~le   82 (127)
                      -+.-+.+++||..+++=|..++-..-..+...--+++.  ..++--|++-++++.||+..-.||+++++..+-|-|--|+
T Consensus         4 laa~i~t~~Gk~ivsRqf~~Msr~RIEgLl~aFpkLv~--~~~qhT~vEt~~VRYVYqP~d~lY~vLITtk~SNIleDl~   81 (512)
T KOG2635|consen    4 LAASINTKTGKAIVSRQFREMSRSRIEGLLAAFPKLVS--AGKQHTFVETDSVRYVYQPLDNLYIVLITTKQSNILEDLE   81 (512)
T ss_pred             EEEEEeecCCceeeehHhHhhhHHHHHHHHHHhHHhhc--cCCCccEEecccEEEEEEecccEEEEEEeccccchhhHHH
Confidence            45677899999999986655555444445555444443  3344669999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhchhHHHHh-HHHHH--HHHHhCC
Q 033113           83 CIHLFVEILDHFFSNVCELDLVFN-FHKVC--DRIFISS  118 (127)
Q Consensus        83 ~I~~~ve~Ld~~f~nVcEldii~n-f~k~~--DE~i~~G  118 (127)
                      .++.|..+.-.|-.++.|+.|..| |+.++  ||++.=|
T Consensus        82 TL~Lfskvipey~~slde~eI~~~~FelifAFDEivsLG  120 (512)
T KOG2635|consen   82 TLRLFSKVIPEYCSSLDEKEILENAFELIFAFDEIVSLG  120 (512)
T ss_pred             HHHHHHHhchhhhhhhhHHHHHHhhhhhhhccchhhhhc
Confidence            999999999999999999999876 45555  9999777

>PF15001 AP-5_subunit_s1: AP-5 complex subunit sigma-1

Probab=95.54  E-value=0.14  Score=39.55  Aligned_cols=67  Identities=15%  Similarity=0.309  Sum_probs=50.4

Q ss_pred             CeEEEEEeeccEEEEEEecCCccHHHHHHHHHHHHHHHHHHhhhhch-hHHHHhHHHHH---HHHHhCCEe
Q 033113           54 THKVIYRRYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCE-LDLVFNFHKVC---DRIFISSSV  120 (127)
Q Consensus        54 ~~~ivYrrya~L~f~~~~d~~eNel~~le~I~~~ve~Ld~~f~nVcE-ldii~nf~k~~---DE~i~~G~v  120 (127)
                      ...++.....++.|..+.|+.||-+..=.++..++..|-.+|..+.- ..+...-|.+.   +..+=.|..
T Consensus       103 ~k~vvW~~v~~l~ftLVce~hEN~lLa~~~L~~~~~~l~~~~~~l~~~~e~l~k~d~i~aiL~~fLP~GQL  173 (189)
T PF15001_consen  103 PKIVVWLGVGSLCFTLVCEPHENRLLAENTLRLFIRHLLEHLKILSQPSEVLLKSDRILAILHRFLPHGQL  173 (189)
T ss_pred             CcEEEeeccCCEEEEEEecCchhHHHHHHHHHHHHHHHHHHHHHhCcHHHhhhhHHHHHHHHHHhCCCCcE
Confidence            35678999999999999999999999999999999999888744322 33444555554   666655554

>PF08923 MAPKK1_Int: Mitogen-activated protein kinase kinase 1 interacting; InterPro: IPR015019 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=93.60  E-value=1  Score=32.11  Aligned_cols=91  Identities=10%  Similarity=0.129  Sum_probs=60.2

Q ss_pred             eEEEEeecCCCCceeeecCCCCCh-HHHHHHHHHHhhhhcCC------CCCccceEEeCCeEEEEEeeccEEEEEEecCC
Q 033113            2 IRFILLQNRQGKTRLAKYYVPLED-SEKHKVEYEVHRLVVNR------DPKFTNFVEFRTHKVIYRRYAGLFFSLCVDIT   74 (127)
Q Consensus         2 I~~vli~n~~Gk~rl~K~Y~~~~~-~~~~~~~~~v~~~v~~r------~~~~~~~~~~~~~~ivYrrya~L~f~~~~d~~   74 (127)
                      +.++++-|++|=+.+.=..+..+. .-+..+... |.....+      +...+-+..++++.++.-.+..|++.++++++
T Consensus        17 l~~I~itDrDGvpi~~v~~~~~~~~~~~~~~~~t-f~~a~~Q~~KL~lG~nk~ii~~Y~~~qvv~~~~~pl~it~ias~~   95 (119)
T PF08923_consen   17 LQAIVITDRDGVPIAKVSSDSAPESAMRPSLLST-FAMAIDQASKLGLGKNKSIIAYYDSYQVVQFNKLPLYITFIASSN   95 (119)
T ss_dssp             EEEEEEEETTS-EEEEEE-TTS-GGGGSHHHHCC-HHHHHHHHTTSSS-SEEEEEEEESSEEEEEEEETTEEEEEEEETT
T ss_pred             eEEEEEECCCCcEEEEecCCCCcchhhhhHHHHH-HHHHhhcccccCCCCceEEEEEeCCEEEEEEeCCCeEEEEEecCC
Confidence            578999999999886644333222 222333322 3332221      23335577789999999999999999999999


Q ss_pred             ccHHHHHHHHHHHHHHHHH
Q 033113           75 DNELAYLECIHLFVEILDH   93 (127)
Q Consensus        75 eNel~~le~I~~~ve~Ld~   93 (127)
                      .|--+++.+=+.+.+.|..
T Consensus        96 aN~G~il~l~~~L~~~l~~  114 (119)
T PF08923_consen   96 ANTGLILSLEEELAPILNE  114 (119)
T ss_dssp             S-HHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHhHHHHHHHHHH
Confidence            9999988887777666643

Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This entry represents Mitogen-activated protein kinase kinase 1 interacting protein, which is a small subcellular adaptor protein required for MAPK signalling and ERK1/2 activation. The overall topology of this domain has a central five-stranded beta-sheet sandwiched between a two alpha-helix and a one alpha-helix layer []. ; PDB: 1VEU_A 1VET_A 1SKO_A 2ZL1_A 3CPT_A.

>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=91.53  E-value=3.5  Score=35.04  Aligned_cols=76  Identities=8%  Similarity=0.172  Sum_probs=53.2

Q ss_pred             EEEeecCCCCceeeecCCCCChHHHHHHHHHHhhhhcC--CCCCccceEEeCCeEEEEEeeccEEEEEEecCCccHHHHH
Q 033113            4 FILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVN--RDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDITDNELAYL   81 (127)
Q Consensus         4 ~vli~n~~Gk~rl~K~Y~~~~~~~~~~~~~~v~~~v~~--r~~~~~~~~~~~~~~ivYrrya~L~f~~~~d~~eNel~~l   81 (127)
                      =++|+..-|||..+++   .++++-..+.+-+...++-  .++..--.+.-++.++|+-.=..||++++....|++..+.
T Consensus        13 h~fIlS~AGKPIysr~---G~e~~l~~~~g~~~aiiS~~~~~~d~l~~i~~~~~~ivfl~r~pl~lv~vS~~~e~~~~l~   89 (415)
T PF03164_consen   13 HFFILSSAGKPIYSRY---GDEDKLSSLMGVIQAIISFFQSNGDELRSIRAGDHRIVFLNRGPLILVAVSKTGESESQLR   89 (415)
T ss_pred             eEEEECCCCceeEEec---CChHHHHHHHHHHHHHHHHHHhCCCcEEEEEeCCEEEEEEecCCEEEEEEcCCcCCHHHHH
Confidence            4789999999999998   4444444555444444331  1222233556799999999999999999999999865543


Q ss_pred             H
Q 033113           82 E   82 (127)
Q Consensus        82 e   82 (127)
                      .
T Consensus        90 ~   90 (415)
T PF03164_consen   90 K   90 (415)
T ss_pred             H
Confidence            3

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 [, ].

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	127
2vgl_S	142	Ap2 Clathrin Adaptor Core Length = 142		3e-40
1w63_Q	158	Ap1 Clathrin Adaptor Core Length = 158		7e-28

>pdb|2VGL|S Chain S, Ap2 Clathrin Adaptor Core Length = 142

Iteration: 1
 Score =  159 bits (403), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 77/123 (62%), Positives = 95/123 (77%), Gaps = 3/123 (2%)
Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
           MIRFIL+QNR GKTRLAK+Y+  +D EK K+  EVH +V  RD K TNFVEFR  K+IYR
Sbjct: 1   MIRFILIQNRAGKTRLAKWYMQFDDDEKQKLIEEVHAVVTVRDAKHTNFVEFRNFKIIYR 60
Query: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHK---VCDRIFIS 117
           RYAGL+F +CVD+ DN LAYLE IH FVE+L+ +F NVCELDLVFNF+K   V D +F++
Sbjct: 61  RYAGLYFCICVDVNDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNFYKVYTVVDEMFLA 120
Query: 118 SSV 120
             +
Sbjct: 121 GEI 123

>pdb|1W63|Q Chain Q, Ap1 Clathrin Adaptor Core Length = 158

Iteration: 1
 Score =  118 bits (296), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 54/110 (49%), Positives = 79/110 (71%)
Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
           M+RF+LL +RQGK RL K+Y+   D E+ K+  E+ ++V+ R PK  +F+E+R  KV+Y+
Sbjct: 1   MMRFMLLFSRQGKLRLQKWYLATSDKERKKMVRELMQVVLARKPKMCSFLEWRDLKVVYK 60
Query: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110
           RYA L+F   ++  DNEL  LE IH +VE+LD +F +VCELD++FNF K 
Sbjct: 61  RYASLYFCCAIEGQDNELITLELIHRYVELLDKYFGSVCELDIIFNFEKA 110

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	127
2vgl_S	142	AP-2 complex subunit sigma-1; cytoplasmic vesicle,	2e-30
1w63_Q	158	Adapter-related protein complex 1 sigma 1A subunit	6e-30
3tjz_C	153	Coatomer subunit zeta-1; protein trafficking, golg	1e-25
2vgl_M	435	AP-2 complex subunit MU-1; cytoplasmic vesicle, al	1e-10

>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 Length = 142

 Score =  105 bits (263), Expect = 2e-30
 Identities = 75/110 (68%), Positives = 89/110 (80%)

Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
           MIRFIL+QNR GKTRLAK+Y+  +D EK K+  EVH +V  RD K TNFVEFR  K+IYR
Sbjct: 1   MIRFILIQNRAGKTRLAKWYMQFDDDEKQKLIEEVHAVVTVRDAKHTNFVEFRNFKIIYR 60

Query: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110
           RYAGL+F +CVD+ DN LAYLE IH FVE+L+ +F NVCELDLVFNF+KV
Sbjct: 61  RYAGLYFCICVDVNDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNFYKV 110

>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 Length = 158

 Score =  104 bits (260), Expect = 6e-30
 Identities = 54/110 (49%), Positives = 79/110 (71%)

Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
           M+RF+LL +RQGK RL K+Y+   D E+ K+  E+ ++V+ R PK  +F+E+R  KV+Y+
Sbjct: 1   MMRFMLLFSRQGKLRLQKWYLATSDKERKKMVRELMQVVLARKPKMCSFLEWRDLKVVYK 60

Query: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110
           RYA L+F   ++  DNEL  LE IH +VE+LD +F +VCELD++FNF K 
Sbjct: 61  RYASLYFCCAIEGQDNELITLELIHRYVELLDKYFGSVCELDIIFNFEKA 110

>3tjz_C Coatomer subunit zeta-1; protein trafficking, golgi membrane, protein transport-prote binding complex; HET: GNP; 2.90A {Bos taurus} PDB: 2hf6_A Length = 153

 Score = 93.5 bits (232), Expect = 1e-25
 Identities = 22/114 (19%), Positives = 42/114 (36%), Gaps = 6/114 (5%)

Query: 1   MIRFILLQNRQGKTRLAKYYVPL--EDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVI 58
            ++ IL+ +  G    AKYY        E+   E  +     +R       +E     V+
Sbjct: 12  TVKAILILDNDGDRLFAKYYDDTYPSVKEQKAFEKNIFN-KTHRTDSEIALLE--GLTVV 68

Query: 59  YRRYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSN-VCELDLVFNFHKVC 111
           Y+    L+F +     +NEL  +  ++   + L       V +  L+ N   + 
Sbjct: 69  YKSSIDLYFYVIGSSYENELMLMTVLNCLFDSLSQMLRKNVEKRALLENMEGLF 122

>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 Length = 435

 Score = 56.6 bits (135), Expect = 1e-10
 Identities = 14/110 (12%), Positives = 44/110 (40%), Gaps = 2/110 (1%)

Query: 1   MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYR 60
           MI  + + N +G+  +++ Y   +D  ++ V+     ++  R    +           + 
Sbjct: 1   MIGGLFIYNHKGEVLISRVYR--DDIGRNAVDAFRVNVIHARQQVRSPVTNIARTSFFHV 58

Query: 61  RYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFSNVCELDLVFNFHKV 110
           + + ++ +       N     E ++   +++  +F  + E ++  NF  +
Sbjct: 59  KRSNIWLAAVTKQNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNFVLI 108

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	127
3tjz_C	153	Coatomer subunit zeta-1; protein trafficking, golg	100.0
1w63_Q	158	Adapter-related protein complex 1 sigma 1A subunit	100.0
2vgl_S	142	AP-2 complex subunit sigma-1; cytoplasmic vesicle,	100.0
2vgl_M	435	AP-2 complex subunit MU-1; cytoplasmic vesicle, al	100.0
1w63_M	423	Adaptor-related protein complex 1, MU 1 subunit; e	99.97
2nut_C	196	Vesicle-trafficking protein SEC22B; human copii SE	95.89
2j3t_C	145	Trafficking protein particle complex subunit 1, tr	92.74
3cue_C	159	Transport protein particle 18 kDa subunit; membran	92.02
2vx8_A	169	Nucleoporin-like protein RIP, vesicle-associated m	91.03
4b93_A	189	Vesicle-associated membrane protein 7; endocytosis	90.87
3cpt_A	143	Mitogen-activated protein kinase kinase 1- interac	90.25
3bw6_A	144	Synaptobrevin homolog YKT6; YKT6P, farnesylation,	86.37

>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=100.00  E-value=1.7e-44  Score=266.45  Aligned_cols=122  Identities=20%  Similarity=0.302  Sum_probs=116.9

Q ss_pred             CeEEEEeecCCCCceeeecCCC--CChHHHHHHHHHHhhhhcCCCCCccceEEeCCeEEEEEeeccEEEEEEecCCccHH
Q 033113            1 MIRFILLQNRQGKTRLAKYYVP--LEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDITDNEL   78 (127)
Q Consensus         1 MI~~vli~n~~Gk~rl~K~Y~~--~~~~~~~~~~~~v~~~v~~r~~~~~~~~~~~~~~ivYrrya~L~f~~~~d~~eNel   78 (127)
                      ||+|++|+|++||+|++|||++  ++.++|+++++++|+++. |++  ||++++++++++|||||+|||++++|++||||
T Consensus        12 mI~~ililn~~Gk~~lsK~Y~~~~~~~~~~~~~e~~i~~~~~-r~~--~~i~~~~~~~~vy~~~~~Lyfv~~~~~~eNel   88 (153)
T 3tjz_C           12 TVKAILILDNDGDRLFAKYYDDTYPSVKEQKAFEKNIFNKTH-RTD--SEIALLEGLTVVYKSSIDLYFYVIGSSYENEL   88 (153)
T ss_dssp             CEEEEEEECTTSCEEEEEECSSSSCSHHHHHHHHHHHHHHHS-SCC--CCEEEETTEEEEEEECSSCEEEEEEETTSCHH
T ss_pred             HheEEEEECCCCCEEEEEeCCCCCCCHHHHHHHHHHHHHHHh-CCC--CCEEEECCEEEEEEEECCEEEEEEEcCCCChH
Confidence            8999999999999999999997  688999999999999984 543  89999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHh-hhhchhHHHHhHHHHH---HHHHhCCEeeeccc
Q 033113           79 AYLECIHLFVEILDHFF-SNVCELDLVFNFHKVC---DRIFISSSVTVSFC  125 (127)
Q Consensus        79 ~~le~I~~~ve~Ld~~f-~nVcEldii~nf~k~~---DE~i~~G~v~e~~~  125 (127)
                      +++|+||.|||+||+|| |+|||+||++||+++|   |||+++|+|+||.+
T Consensus        89 ~ile~L~~~ve~l~~yf~~~v~E~~I~~Nf~~vy~lLDE~id~G~~~eT~~  139 (153)
T 3tjz_C           89 MLMTVLNCLFDSLSQMLRKNVEKRALLENMEGLFLAVDEIVDGGVILESDP  139 (153)
T ss_dssp             HHHHHHHHHHHHHHHHHTSCCCHHHHHHTHHHHHHHHHHHEETTEECCCCH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHcCCEeeeCCH
Confidence            99999999999999999 9999999999999999   99999999999974

>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=100.00  E-value=3.5e-43  Score=259.80  Aligned_cols=125  Identities=45%  Similarity=0.824  Sum_probs=122.3

Q ss_pred             CeEEEEeecCCCCceeeecCCCCChHHHHHHHHHHhhhhcCCCCCccceEEeCCeEEEEEeeccEEEEEEecCCccHHHH
Q 033113            1 MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDITDNELAY   80 (127)
Q Consensus         1 MI~~vli~n~~Gk~rl~K~Y~~~~~~~~~~~~~~v~~~v~~r~~~~~~~~~~~~~~ivYrrya~L~f~~~~d~~eNel~~   80 (127)
                      ||+|++|+|++||+|++|||.+.+.++|+++++++++++.+|++++|||+++++++++|||||+|||+++++.++|||++
T Consensus         1 MI~~i~Il~~~Gk~~lsk~y~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~vy~~~~~Lyfv~~~~~~~Nel~~   80 (158)
T 1w63_Q            1 MMRFMLLFSRQGKLRLQKWYLATSDKERKKMVRELMQVVLARKPKMCSFLEWRDLKVVYKRYASLYFCCAIEGQDNELIT   80 (158)
T ss_dssp             CEEEEEEECSSSCEEEEEESSCCCHHHHHHHHHHHHHHHHTSCSSSCSEEEETTEEEEEEEETTEEEEEEECSSSCHHHH
T ss_pred             CeEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHHHHHHHhccCCCCCCeEEECCEEEEEEEECCEEEEEEecCCCCHHHH
Confidence            99999999999999999999999999999999999999998988889999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhchhHHHHhHHHHH---HHHHhCCEeeeccc
Q 033113           81 LECIHLFVEILDHFFSNVCELDLVFNFHKVC---DRIFISSSVTVSFC  125 (127)
Q Consensus        81 le~I~~~ve~Ld~~f~nVcEldii~nf~k~~---DE~i~~G~v~e~~~  125 (127)
                      +|+||.|+|+|+.|||+|||+||++||+++|   |||+++|+|+||.+
T Consensus        81 le~L~~~vevl~~yf~~v~E~~I~~Nf~~vy~lLDE~id~G~~~eT~~  128 (158)
T 1w63_Q           81 LELIHRYVELLDKYFGSVCELDIIFNFEKAYFILDEFLMGGDVQDTSK  128 (158)
T ss_dssp             HHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHTTEETTEESCCCH
T ss_pred             HHHHHHHHHHHHHHHccCCHHHHHHhHHHHHHHHHHHHhCCEEEecCH
Confidence            9999999999999999999999999999999   99999999999864

>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=100.00  E-value=1e-42  Score=252.64  Aligned_cols=124  Identities=62%  Similarity=1.073  Sum_probs=121.1

Q ss_pred             CeEEEEeecCCCCceeeecCCCCChHHHHHHHHHHhhhhcCCCCCccceEEeCCeEEEEEeeccEEEEEEecCCccHHHH
Q 033113            1 MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDITDNELAY   80 (127)
Q Consensus         1 MI~~vli~n~~Gk~rl~K~Y~~~~~~~~~~~~~~v~~~v~~r~~~~~~~~~~~~~~ivYrrya~L~f~~~~d~~eNel~~   80 (127)
                      ||+|++|+|++||+|++|||.+++.++++++++++++++.+|++++|||+++++++++|||||+|||+++++.++|||++
T Consensus         1 MI~~i~i~~~~Gk~~l~k~y~~~~~~~~~~~~~~f~~~v~~~~~~~~~~~~~~~~~~vy~~~~~Lyfv~~~~~~~N~l~~   80 (142)
T 2vgl_S            1 MIRFILIQNRAGKTRLAKWYMQFDDDEKQKLIEEVHAVVTVRDAKHTNFVEFRNFKIIYRRYAGLYFCICVDVNDNNLAY   80 (142)
T ss_dssp             CEEEEEEEETTSCEEEEEECSCCCHHHHHHHHHHHHHHHHTCCTTSCSEEEETTEEEEEEEETTEEEEEEECTTSCHHHH
T ss_pred             CeEEEEEEcCCCCEEEEEeCCCCChhhhHHHHHHHHHHHhcCCCCCCCEEEECCEEEEEEEECCEEEEEEeCCCCCHHHH
Confidence            99999999999999999999999999999999999999888887889999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhchhHHHHhHHHHH---HHHHhCCEeeecc
Q 033113           81 LECIHLFVEILDHFFSNVCELDLVFNFHKVC---DRIFISSSVTVSF  124 (127)
Q Consensus        81 le~I~~~ve~Ld~~f~nVcEldii~nf~k~~---DE~i~~G~v~e~~  124 (127)
                      +|+||.|+|+|+.|||+|||+||++||+++|   |||+++|+|+||.
T Consensus        81 le~L~~~ve~l~~yf~~v~E~~I~~Nf~~vy~lLDE~id~G~~~et~  127 (142)
T 2vgl_S           81 LEAIHNFVEVLNEYFHNVCELDLVFNFYKVYTVVDEMFLAGEIRETS  127 (142)
T ss_dssp             HHHHHHHHHHHHHHTTSCCHHHHHHTHHHHHHHHHHHEETTEECCCC
T ss_pred             HHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHHHhCCEEEEcC
Confidence            9999999999999999999999999999999   9999999999983

>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=100.00  E-value=9e-33  Score=230.29  Aligned_cols=122  Identities=13%  Similarity=0.180  Sum_probs=107.8

Q ss_pred             CeEEEEeecCCCCceeeecCCCCChHHHHHHHHHHhhhhcC-CCCCccceEEeCCeEEEEEeeccEEEEEEecCCccHHH
Q 033113            1 MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVN-RDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDITDNELA   79 (127)
Q Consensus         1 MI~~vli~n~~Gk~rl~K~Y~~~~~~~~~~~~~~v~~~v~~-r~~~~~~~~~~~~~~ivYrrya~L~f~~~~d~~eNel~   79 (127)
                      ||+|++|+|++||+|++|||.+...+..   ....++.+.+ |+.+++|++++++++++|+||++|||+++++.++|||+
T Consensus         1 MI~~i~I~~~~Gk~~l~k~y~~~~~~~~---~~~f~~~v~~~~~~~~~~ii~~~~~~~vy~~~~~Lyfv~~~~~~~n~l~   77 (435)
T 2vgl_M            1 MIGGLFIYNHKGEVLISRVYRDDIGRNA---VDAFRVNVIHARQQVRSPVTNIARTSFFHVKRSNIWLAAVTKQNVNAAM   77 (435)
T ss_dssp             CCCEEEEECTTCCEEEEEECSSSCCHHH---HHHHHHHTTTCSSCCCCSEEEETTEEEEEEEETTEEEEEEESSCCCHHH
T ss_pred             CeEEEEEECCCCCEEEEEecCCCCChhH---HHHHHHHHhccccCCCCCEEEECCEEEEEEEECCEEEEEEecCCCCHHH
Confidence            9999999999999999999997433221   2233344554 44467999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhhhchhHHHHhHHHHH---HHHHhCCEeeeccc
Q 033113           80 YLECIHLFVEILDHFFSNVCELDLVFNFHKVC---DRIFISSSVTVSFC  125 (127)
Q Consensus        80 ~le~I~~~ve~Ld~~f~nVcEldii~nf~k~~---DE~i~~G~v~e~~~  125 (127)
                      ++|+||.|+|+|+.|||+|||+||++||+++|   |||+++|++++|..
T Consensus        78 ~le~L~~~v~vl~~yf~~v~E~~I~~Nf~~vy~lLDE~id~G~~~~t~~  126 (435)
T 2vgl_M           78 VFEFLYKMCDVMAAYFGKISEENIKNNFVLIYELLDEILDFGYPQNSET  126 (435)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCHHHHHHTHHHHHHHHHHHEETTEECCCCH
T ss_pred             HHHHHHHHHHHHHHHHhccCHHHHHHhHHHHHHHHHHHhcCCEEEecCH
Confidence            99999999999999999999999999999999   99999999999864

>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=99.97  E-value=1.6e-32  Score=228.12  Aligned_cols=122  Identities=9%  Similarity=0.135  Sum_probs=107.8

Q ss_pred             CeEEEEeecCCCCceeeecCCCCChHHHHHHHHHHhhhhcCC-C-CCccceEEeCCeEEEEEeeccEEEEEEecCCccHH
Q 033113            1 MIRFILLQNRQGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNR-D-PKFTNFVEFRTHKVIYRRYAGLFFSLCVDITDNEL   78 (127)
Q Consensus         1 MI~~vli~n~~Gk~rl~K~Y~~~~~~~~~~~~~~v~~~v~~r-~-~~~~~~~~~~~~~ivYrrya~L~f~~~~d~~eNel   78 (127)
                      ||+|++|+|++||+|++|||.+...+.   .....++.+.+| + .++||++++++++++|++|++|||+++++.++|||
T Consensus         2 MI~~i~I~~~~Gk~~l~k~y~~~~~~~---~~~~f~~~v~~~~~~~~~~~~i~~~~~~~vy~~~~~Lyfv~~~~~~~n~l   78 (423)
T 1w63_M            2 SASAVYVLDLKGKVLICRNYRGDVDMS---EVEHFMPILMEKEEEGMLSPILAHGGVRFMWIKHNNLYLVATSKKNACVS   78 (423)
T ss_dssp             CCCEEEEEETTTEECSCBCCSCSCTTT---THHHHHHHHHHHHHTSCCCSEEEETTEEEEEEEETTEEEEEEESSCCCTH
T ss_pred             ceEEEEEECCCCCEEEEEecCCCCChH---HHHHHHHHHhhccccCCCCCEEEECCEEEEEEEECCEEEEEEecCCCCHH
Confidence            899999999999999999998643332   233344445544 2 46799999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhhhchhHHHHhHHHHH---HHHHhCCEeeeccc
Q 033113           79 AYLECIHLFVEILDHFFSNVCELDLVFNFHKVC---DRIFISSSVTVSFC  125 (127)
Q Consensus        79 ~~le~I~~~ve~Ld~~f~nVcEldii~nf~k~~---DE~i~~G~v~e~~~  125 (127)
                      +++|+||.|+++|+.|||+|||+||++||+++|   |||+++|++++|..
T Consensus        79 ~~le~L~~~v~~l~~yf~~v~E~~I~~Nf~~vy~lLDE~id~G~~~~t~~  128 (423)
T 1w63_M           79 LVFSFLYKVVQVFSEYFKELEEESIRDNFVIIYELLDELMDFGYPQTTDS  128 (423)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCSHHHHHHHHHHHHHHHHHHCSSSSCCCCCS
T ss_pred             HHHHHHHHHHHHHHHHHhhcCHHHHHHhHHHHHHHHHHHhcCCEEeecCH
Confidence            999999999999999999999999999999999   99999999999864

>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=95.89  E-value=0.21  Score=36.81  Aligned_cols=95  Identities=11%  Similarity=0.076  Sum_probs=67.3

Q ss_pred             CeEEEEeecCCCCceeeecCCCCC-----hHHHHHHHHHHhhhhcCCCCCccceEEeCCeEEEEEeeccEEEEEEecCCc
Q 033113            1 MIRFILLQNRQGKTRLAKYYVPLE-----DSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDITD   75 (127)
Q Consensus         1 MI~~vli~n~~Gk~rl~K~Y~~~~-----~~~~~~~~~~v~~~v~~r~~~~~~~~~~~~~~ivYrrya~L~f~~~~d~~e   75 (127)
                      ||.+.+|.-....+.|+.+++..+     ..+-+...+.+.+++.+.++..+. ++.+++.+.|.+-.++.+++++|.+-
T Consensus         2 Mi~ya~IaR~~d~~iLa~~~d~~~~~~~~~~~~~~~a~~il~ki~~~~~~r~s-~~~~~y~fhy~~~~gl~~l~i~d~~y   80 (196)
T 2nut_C            2 MVLLTMIARVADGLPLAASMQEDEQSGRDLQQYQSQAKQLFRKLNEQSPTRCT-LEAGAMTFHYIIEQGVCYLVLCEAAF   80 (196)
T ss_dssp             CCCCEEEEETTTCCEEEEECCCC-----CHHHHHHHHHHHHHHCCTTSCSEEE-EEETTEEEEEEEETTEEEEEEEETTS
T ss_pred             ceEEEEEEEcCCCcEEEEeecccccccccHHHHHHHHHHHHHhcCCCCCCeEE-EEeCCEEEEEEeCCCeEEEEEEcCCc
Confidence            788888866555677888776432     233455566666665432333343 46799999999999999999999999


Q ss_pred             cHHHHHHHHHHHHHHHHHHhh
Q 033113           76 NELAYLECIHLFVEILDHFFS   96 (127)
Q Consensus        76 Nel~~le~I~~~ve~Ld~~f~   96 (127)
                      ..-....+|..+.+-+..-|+
T Consensus        81 p~r~af~fL~~i~~~F~~~~~  101 (196)
T 2nut_C           81 PKKLAFAYLEDLHSEFDEQHG  101 (196)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHT
T ss_pred             chHHHHHHHHHHHHHHHHhcc
Confidence            988888888777666655554

>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=92.74  E-value=1.8  Score=30.49  Aligned_cols=78  Identities=13%  Similarity=0.042  Sum_probs=48.1

Q ss_pred             CeEEEEeecCCCCceeeecCCCC-----C-hHHHHHHHHHHhh------hhcCCCCCc-cceEEeCCeEEE-EEeeccEE
Q 033113            1 MIRFILLQNRQGKTRLAKYYVPL-----E-DSEKHKVEYEVHR------LVVNRDPKF-TNFVEFRTHKVI-YRRYAGLF   66 (127)
Q Consensus         1 MI~~vli~n~~Gk~rl~K~Y~~~-----~-~~~~~~~~~~v~~------~v~~r~~~~-~~~~~~~~~~iv-Yrrya~L~   66 (127)
                      ||..+.|+|++|.+...+=+.+.     + .++.+.+-.-+|.      ++...+.+. -.-++.+++++- |.--.++-
T Consensus         2 ~i~~~~Ii~k~g~~iy~~~~~~~~~~~~~~~~~~~ll~g~~~Sl~~i~~klsp~~~~~~~~~~~t~~ykl~~~~T~TgiK   81 (145)
T 2j3t_C            2 TVHNLYLFDRNGVCLHYSEWHRKKQAGIPKEEEYKLMYGMLFSIRSFVSKMSPLDMKDGFLSFQTSRYKLHYYETPTGIK   81 (145)
T ss_dssp             CEEEEEEECTTSCEEEEEESSCSSCCSSCHHHHHHHHHHHHHHHHHHHHHHCSSCCSSCEEEEECSSCEEEEEECTTSCE
T ss_pred             eEEEEEEEeCCCCEEEeeeecCCCcCCCCcchHHHHHHHHHHHHHHHHHHhCCCCCCCceEEEecCCEEEEEEEcCCCCE
Confidence            58899999999999999844432     2 3334333322232      222222211 122345778885 66677999


Q ss_pred             EEEEecCCccHH
Q 033113           67 FSLCVDITDNEL   78 (127)
Q Consensus        67 f~~~~d~~eNel   78 (127)
                      |++++|++++++
T Consensus        82 Fvl~td~~~~~i   93 (145)
T 2j3t_C           82 VVMNTDLGVGPI   93 (145)
T ss_dssp             EEEEECTTCCCC
T ss_pred             EEEEecCCcchH
Confidence            999999987764

>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=92.02  E-value=2.1  Score=30.78  Aligned_cols=89  Identities=15%  Similarity=0.210  Sum_probs=51.5

Q ss_pred             CeEEEEeecCCCCceeeecCCCC------------ChHHHHHHHHHHhhh---hcCCC--CCccceEEe--CCeEEE-EE
Q 033113            1 MIRFILLQNRQGKTRLAKYYVPL------------EDSEKHKVEYEVHRL---VVNRD--PKFTNFVEF--RTHKVI-YR   60 (127)
Q Consensus         1 MI~~vli~n~~Gk~rl~K~Y~~~------------~~~~~~~~~~~v~~~---v~~r~--~~~~~~~~~--~~~~iv-Yr   60 (127)
                      +|..+.|+|+.|.+...+=|.+.            +..+.+.+-.-+|.+   +.+-+  ...+.|..+  +.+++- |.
T Consensus         2 ~i~~~~Ii~r~g~~iy~~~~~~~~~~~~~~~~~~~~~~~~~ll~g~~~SL~~i~~kls~~~~~~~f~~~~T~~ykl~~~e   81 (159)
T 3cue_C            2 GIYSFWIFDRHCNCIFDREWTLASNSASGTINSKQNEEDAKLLYGMIFSLRSITQKLSKGSVKNDIRSISTGKYRVHTYC   81 (159)
T ss_dssp             CCCEEEEECSSSCEEECCCC-------------CCHHHHHHHHHHHHHHHHHHHHHSCCSSSCCCEEEEECSSCBEEEEC
T ss_pred             eEEEEEEEcCCCceEEeeeeccccccccccccCCCCchHHHHHHHHHHHHHHHHHHhCCCCCCCCeEEEeeCCEEEEEEE
Confidence            47889999999999988744321            122333333333332   11111  122345433  568885 55


Q ss_pred             eeccEEEEEEecCCccHH-HHHHHHH--HHHH
Q 033113           61 RYAGLFFSLCVDITDNEL-AYLECIH--LFVE   89 (127)
Q Consensus        61 rya~L~f~~~~d~~eNel-~~le~I~--~~ve   89 (127)
                      --.++-|++++|..++++ .+|.-||  .+|+
T Consensus        82 T~TgiKFvl~td~~~~~i~~~l~~iy~~lYv~  113 (159)
T 3cue_C           82 TASGLWFVLLSDFKQQSYTQVLQYIYSHIYVK  113 (159)
T ss_dssp             CSSCCEEEEECCSSSSCTHHHHHHHHHHHHHH
T ss_pred             eCCCCEEEEEeCCCcchHHHHHHHHHHHHHHH
Confidence            566899999999988766 4444444  4444

>2vx8_A Nucleoporin-like protein RIP, vesicle-associated membrane protein 7; endocytosis,exocytosis, endocytosis, exocytosis, acetylation, coiled coil; 2.2A {Homo sapiens} PDB: 2dmw_A

Probab=91.03  E-value=2.2  Score=30.92  Aligned_cols=83  Identities=11%  Similarity=0.032  Sum_probs=61.5

Q ss_pred             CCCceeeecCCCCChHHHHHHHHHHhhhhcCCCCCccceEEeCCeEEEEEeeccEEEEEEecCCccHHHHHHHHHHHHHH
Q 033113           11 QGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDITDNELAYLECIHLFVEI   90 (127)
Q Consensus        11 ~Gk~rl~K~Y~~~~~~~~~~~~~~v~~~v~~r~~~~~~~~~~~~~~ivYrrya~L~f~~~~d~~eNel~~le~I~~~ve~   90 (127)
                      +|.+.|+.+-..  ....+...+.+.+++..++++ +. ++.+++.+.|..-.+|.+++++|.+-.-.....+|..+.+-
T Consensus        53 RG~~VLae~t~~--~gnf~~iak~ll~kl~~~~~r-~s-~~~~~y~fHyl~~ngl~yl~I~D~~yp~r~AF~fLedI~~e  128 (169)
T 2vx8_A           53 RGTTILAKHAWC--GGNFLEVTEQILAKIPSENNK-LT-YSHGNYLFHYICQDRIVYLCITDDDFERSRAFSFLNEVKKR  128 (169)
T ss_dssp             ETTEEEEEEESS--CBSHHHHHHHHHTTSCSSCEE-EE-EEETTEEEEEEEETTEEEEEEEETTSCHHHHHHHHHHHHHH
T ss_pred             cCCEEEEEeccC--CCCHHHHHHHHHhhCCCCCCc-eE-EEECCEEEEEEEECCEEEEEEEccccchHHHHHHHHHHHHH
Confidence            377889986332  124555667777766543333 33 56799999999889999999999999988899988887777


Q ss_pred             HHHHhhh
Q 033113           91 LDHFFSN   97 (127)
Q Consensus        91 Ld~~f~n   97 (127)
                      +.+-|++
T Consensus       129 F~~~y~~  135 (169)
T 2vx8_A          129 FQTTYGS  135 (169)
T ss_dssp             HHHHHTT
T ss_pred             HHHHhhh
Confidence            7776664

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

Probab=90.87  E-value=2.1  Score=31.36  Aligned_cols=82  Identities=10%  Similarity=-0.009  Sum_probs=56.1

Q ss_pred             CCCceeeecCCCCChHHHHHHHHHHhhhhcCCCCCccceEEeCCeEEEEEeeccEEEEEEecCCccHHHHHHHHHHHHHH
Q 033113           11 QGKTRLAKYYVPLEDSEKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDITDNELAYLECIHLFVEI   90 (127)
Q Consensus        11 ~Gk~rl~K~Y~~~~~~~~~~~~~~v~~~v~~r~~~~~~~~~~~~~~ivYrrya~L~f~~~~d~~eNel~~le~I~~~ve~   90 (127)
                      .|.+.|+.|=.. + ..-..+.+.+..++.+ ++..+ -++.+++.+.|.+-.++.+++++|.+-..-....+|..+-+-
T Consensus        11 rg~~iLae~t~~-~-gnf~~ia~~iL~kip~-~~~k~-s~~~~~y~fHyl~~~gl~yl~i~d~~yp~r~af~fL~~i~~e   86 (189)
T 4b93_A           11 RGTTILAKHAWC-G-GNFLEVTEQILAKIPS-ENNKL-TYSHGNYLFHYICQDRIVYLCITDDDFERSRAFSFLNEVKKR   86 (189)
T ss_dssp             ETTEEEEEEESS-E-ECHHHHHHHHHTTCCS-SSEEE-EEEETTEEEEEEEETTEEEEEEEETTSCHHHHHHHHHHHHHH
T ss_pred             eCCEEEEeCCCC-C-CCHHHHHHHHHHhCCC-CCCeE-EEEECCEEEEEEEeCCeEEEEEEcCccCHHHHHHHHHHHHHH
Confidence            489999997322 1 2233344444444322 22223 356899999999999999999999999988888888777666


Q ss_pred             HHHHhh
Q 033113           91 LDHFFS   96 (127)
Q Consensus        91 Ld~~f~   96 (127)
                      +.+-|+
T Consensus        87 F~~~~~   92 (189)
T 4b93_A           87 FQTTYG   92 (189)
T ss_dssp             HHHHHG
T ss_pred             HHhhcc
Confidence            655554

>3cpt_A Mitogen-activated protein kinase kinase 1- interacting protein 1; scaffold, complex, alpha/beta, endosome, membrane, lysosome; 1.90A {Homo sapiens} SCOP: d.110.7.1 PDB: 1sko_A 2zl1_A 1vet_A 1veu_A

Probab=90.25  E-value=3.8  Score=29.34  Aligned_cols=90  Identities=11%  Similarity=0.082  Sum_probs=63.6

Q ss_pred             eEEEEeecCCCCceeeecCCCC-ChHHHHHHHHHHhhhhcC------CCCCccceEEeCCeEEEEEeeccEEEEEEecCC
Q 033113            2 IRFILLQNRQGKTRLAKYYVPL-EDSEKHKVEYEVHRLVVN------RDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDIT   74 (127)
Q Consensus         2 I~~vli~n~~Gk~rl~K~Y~~~-~~~~~~~~~~~v~~~v~~------r~~~~~~~~~~~~~~ivYrrya~L~f~~~~d~~   74 (127)
                      +++++|-|++|-+.+.--.+.. ..+-+..++.. |.....      =+.+.+-+..+.++.+|.-....|++.+++.++
T Consensus        38 l~aI~ItDrDGVpi~kv~~~~~~e~~~r~s~lsT-f~~A~dQ~sKLglGknksII~~Y~~yqvVq~n~~Plvit~Ias~~  116 (143)
T 3cpt_A           38 LHAIVVSDRDGVPVIKVANDNAPEHALRPGFLST-FALATDQGSKLGLSKNKSIICYYNTYQVVQFNRLPLVVSFIASSS  116 (143)
T ss_dssp             EEEEEEECTTSCEEEEEECTTSCGGGGSHHHHHH-HHHHHHHHHHHTCCCEEEEEEECSSEEEEEEEETTEEEEEEEETT
T ss_pred             eEEEEEECCCCcEEEEecCCCCchhhcccchhhh-HHHHHHHHhhcCCCCCceEEEEecCeEEEEEecCCEEEEEEecCC
Confidence            5799999999999887665543 33344455554 444322      123335566689999999999999999999999


Q ss_pred             ccHHHHHHHHHHHHHHHH
Q 033113           75 DNELAYLECIHLFVEILD   92 (127)
Q Consensus        75 eNel~~le~I~~~ve~Ld   92 (127)
                      .|--+++++=+.+...|.
T Consensus       117 aNtG~Il~Le~~L~p~l~  134 (143)
T 3cpt_A          117 ANTGLIVSLEKELAPLFE  134 (143)
T ss_dssp             SCHHHHHHHHHHHHHHHH
T ss_pred             CCchhHhhhHHHHHHHHH
Confidence            999998887555444443

>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=86.37  E-value=6.6  Score=27.38  Aligned_cols=94  Identities=13%  Similarity=-0.037  Sum_probs=61.5

Q ss_pred             eEEEEeecCCC--CceeeecCCC--CCh---HHHHHHHHHHhhhhcCCCC--CccceEEeCCeEEEEE-eeccEEEEEEe
Q 033113            2 IRFILLQNRQG--KTRLAKYYVP--LED---SEKHKVEYEVHRLVVNRDP--KFTNFVEFRTHKVIYR-RYAGLFFSLCV   71 (127)
Q Consensus         2 I~~vli~n~~G--k~rl~K~Y~~--~~~---~~~~~~~~~v~~~v~~r~~--~~~~~~~~~~~~ivYr-rya~L~f~~~~   71 (127)
                      |-++.|+-..+  .+.|+..++-  .+-   ...+++...+.+.++.|.+  .++. ++.+++.+.|- +-.++.+++++
T Consensus         7 l~~~~v~r~~~~~~~~L~~~~d~s~f~ffqr~sv~ef~~~~ar~i~~r~~~~~R~s-v~~~~y~fH~~~~~~gl~~l~i~   85 (144)
T 3bw6_A            7 IYYIGVFRSGGEKALELSEVKDLSQFGFFERSSVGQFMTFFAETVASRTGAGQRQS-IEEGNYIGHVYARSEGICGVLIT   85 (144)
T ss_dssp             EEEEEEEECCSSSCEEEEEEECCTTSCTTTTTHHHHHHHHHHHHHHHHCCTTEEEE-EEETTEEEEEEECTTSEEEEEEE
T ss_pred             EEEEEEEecCCCCCeEeEeeecccccChhhhhhHHHHHHHHHHHHHhhCCCCceEE-EEeCCEEEEEEEecCCEEEEEEE
Confidence            34554543322  4567775542  222   2336666677777665542  2343 46799999888 88999999999


Q ss_pred             cCCccHHHHHHHHHHHHHHHHHHhh
Q 033113           72 DITDNELAYLECIHLFVEILDHFFS   96 (127)
Q Consensus        72 d~~eNel~~le~I~~~ve~Ld~~f~   96 (127)
                      |.+=.......+|..+.+-..+-++
T Consensus        86 D~~yp~rvAF~~L~~i~~eF~~~y~  110 (144)
T 3bw6_A           86 DKEYPVRPAYTLLNKILDEYLVAHP  110 (144)
T ss_dssp             ETTSCHHHHHHHHHHHHHHHHHHSC
T ss_pred             CCCCChhHHHHHHHHHHHHHHHHcc
Confidence            9999888888888766665555444

---

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	127
d2vgls_	142	d.110.4.2 (S:) Sigma2 adaptin (clathrin coat assem	7e-33
d2vglm2	141	d.110.4.2 (M:1-141) Mu2 adaptin (clathrin coat ass	3e-21

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	127
d2vgls_	142	Sigma2 adaptin (clathrin coat assembly protein AP1	100.0
d2vglm2	141	Mu2 adaptin (clathrin coat assembly protein AP50)	99.98
d3cpta1	116	MEK binding partner 1, MP1 {Human (Homo sapiens) [	94.75
d1ifqa_	127	Sec22b {Mouse (Mus musculus) [TaxId: 10090]}	88.31

>d3cpta1 d.110.7.1 (A:3-118) MEK binding partner 1, MP1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Profilin-like
superfamily: Roadblock/LC7 domain
family: Roadblock/LC7 domain
domain: MEK binding partner 1, MP1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.75  E-value=0.27  Score=32.50  Aligned_cols=90  Identities=10%  Similarity=0.076  Sum_probs=63.9

Q ss_pred             eEEEEeecCCCCceeeecCCCCCh-HHHHHHHHHHhhhhcC------CCCCccceEEeCCeEEEEEeeccEEEEEEecCC
Q 033113            2 IRFILLQNRQGKTRLAKYYVPLED-SEKHKVEYEVHRLVVN------RDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDIT   74 (127)
Q Consensus         2 I~~vli~n~~Gk~rl~K~Y~~~~~-~~~~~~~~~v~~~v~~------r~~~~~~~~~~~~~~ivYrrya~L~f~~~~d~~   74 (127)
                      ++++++-|++|=+.++=.-...+. .-+..+... |.....      -+...+-+..+.++.+|.-.+..|++.+++.++
T Consensus        17 l~~I~iTDrDGVpv~~v~~~~~p~~~~~~~~lst-f~~a~dq~sKLglg~~ksii~~Y~~~qvv~~~~~pl~vt~ia~~~   95 (116)
T d3cpta1          17 LHAIVVSDRDGVPVIKVANDNAPEHALRPGFLST-FALATDQGSKLGLSKNKSIICYYNTYQVVQFNRLPLVVSFIASSS   95 (116)
T ss_dssp             EEEEEEECTTSCEEEEEECTTSCGGGGSHHHHHH-HHHHHHHHHHHTCCCEEEEEEECSSEEEEEEEETTEEEEEEEETT
T ss_pred             eEEEEEEcCCCcEEEEecCCCChhhhcchHHHHH-HHHHHHhhcccCCCCCcEEEEEecCeEEEEEecCceEEEEEecCC
Confidence            689999999999987654333222 333344433 433222      223345577789999999999999999999999


Q ss_pred             ccHHHHHHHHHHHHHHHH
Q 033113           75 DNELAYLECIHLFVEILD   92 (127)
Q Consensus        75 eNel~~le~I~~~ve~Ld   92 (127)
                      .|--+++.+-+.+-..|.
T Consensus        96 aNtG~Il~l~~~l~~~L~  113 (116)
T d3cpta1          96 ANTGLIVSLEKELAPLFE  113 (116)
T ss_dssp             SCHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHh
Confidence            999999988777666654

>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=88.31  E-value=2.2  Score=27.80  Aligned_cols=69  Identities=9%  Similarity=0.083  Sum_probs=48.8

Q ss_pred             HHHHHHHHHhhhhcCCCCCccceEEeCCeEEEEEeeccEEEEEEecCCccHHHHHHHHHHHHHHHHHHhh
Q 033113           27 EKHKVEYEVHRLVVNRDPKFTNFVEFRTHKVIYRRYAGLFFSLCVDITDNELAYLECIHLFVEILDHFFS   96 (127)
Q Consensus        27 ~~~~~~~~v~~~v~~r~~~~~~~~~~~~~~ivYrrya~L~f~~~~d~~eNel~~le~I~~~ve~Ld~~f~   96 (127)
                      +.++..+.+.+++.++++..+.+ +.+++.+.|-.-.++.+++++|.+-.--....++..+-+-+.+-++
T Consensus        32 ~~k~qak~ll~kl~~~~~~r~s~-~~~~y~fHy~~~~gi~yl~i~d~~~~~~laF~fLeei~~eF~~~y~  100 (127)
T d1ifqa_          32 QYQSQAKQLFRKLNEQSPTRCTL-EAGAMTFHYIIEQGVCYLVLCEAAFPKKLAFAYLEDLHSEFDEQHG  100 (127)
T ss_dssp             HHHHHHHHHHTTCCTTSCSEEEE-EETTEEEEEEEETTEEEEEEEETTSCHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCCCCCCCcEEE-EECCEEEEEEecCCeEEEEEEccccCchhHHHHHHHHHHHHHHhhh
Confidence            44455556666654444444555 5799999999999999999999998888888777655554444444