Citrus Sinensis ID: 036677

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------
Protein Sequence
VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNELEILDIIHHYVEILDLYF
Secondary Structure (PSIPRED)
cHHHHHHHHHccccccccEEEccccccccEEccccccccccccccEEEEEEEEEcccccHHHHHHHHHHHHHHHcccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHcccccccEEEEccccccEEEEEEcccccccEEEEEEEEEEEEEccccHHHHHHHHHHHHHHHHHHHc
Coil and Loop (DISEMBL)
VIRELsgiiltrspklcnfvewngglptsiifntkcyprenviiYSGLYfcmcvdpddneLEILDIIHHYVEILDLYF
Flexible Loop (DISEMBL)
virelsgiiltrspklcnFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNELEILDIIHHYVEILDLYF
Low Complexity Region (SEG)
VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNELEILDIIHHYVEILDLYF
Disordered region (IsUnstruct)
*****SGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNELEILDIIHHYVEILDLY*
Disordered Region (DISOPRED)
VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNELEILDIIHHYVEILDLYF
Disordered Region (DISEMBL)
VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNELEILDIIHHYVEILDLYF
Disordered Region (DISPRO)
VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNELEILDIIHHYVEILDLYF
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhhooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNELEILDIIHHYVEILDLYF
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	78	2.2.26 [Sep-21-2011]
O23685	162	AP-1 complex subunit sigm	yes	no	0.833	0.401	0.615	3e-20
Q8LEZ8	161	AP-1 complex subunit sigm	yes	no	0.833	0.403	0.602	1e-19
B0G185	154	AP-1 complex subunit sigm	yes	no	0.807	0.409	0.486	2e-12
Q9P7N2	162	AP-1 complex subunit sigm	yes	no	0.833	0.401	0.410	5e-11
P61967	158	AP-1 complex subunit sigm	yes	no	0.833	0.411	0.384	7e-11
P61966	158	AP-1 complex subunit sigm	yes	no	0.833	0.411	0.384	7e-11
Q1JQ98	157	AP-1 complex subunit sigm	yes	no	0.833	0.414	0.384	7e-11
Q9DB50	160	AP-1 complex subunit sigm	no	no	0.833	0.406	0.410	1e-10
Q3ZBS3	160	AP-1 complex subunit sigm	no	no	0.833	0.406	0.410	1e-10
P56377	157	AP-1 complex subunit sigm	no	no	0.833	0.414	0.410	1e-10

>sp|O23685|AP1S2_ARATH AP-1 complex subunit sigma-2 OS=Arabidopsis thaliana GN=AAP19-2 PE=2 SV=1

 Score = 97.1 bits (240), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 48/78 (61%), Positives = 54/78 (69%), Gaps = 13/78 (16%)

Query: 1  VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
          VIRELSG+IL R PKLCNFVEW G            Y R     Y+ LYFCMC+D +DNE
Sbjct: 31 VIRELSGVILNRGPKLCNFVEWRG--------YKVVYKR-----YASLYFCMCIDQEDNE 77

Query: 61 LEILDIIHHYVEILDLYF 78
          LE+L+IIHHYVEILD YF
Sbjct: 78 LEVLEIIHHYVEILDRYF 95

Subunit of clathrin-associated adaptor protein complex 1 that plays a role in protein sorting in the trans-Golgi network (TGN) and endosomes. The AP complexes mediate the recruitment of clathrin to membranes and the recognition of sorting signals within the cytosolic tails of transmembrane cargo molecules.
Arabidopsis thaliana (taxid: 3702)

>sp|Q8LEZ8|AP1S1_ARATH AP-1 complex subunit sigma-1 OS=Arabidopsis thaliana GN=AAP19-1 PE=2 SV=1

 Score = 95.5 bits (236), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 47/78 (60%), Positives = 53/78 (67%), Gaps = 13/78 (16%)

Query: 1  VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
          VIRELSG+IL R PKLCNF+EW G            Y R     Y+ LYFCMC+D  DNE
Sbjct: 31 VIRELSGVILNRGPKLCNFIEWRG--------YKVVYKR-----YASLYFCMCIDEADNE 77

Query: 61 LEILDIIHHYVEILDLYF 78
          LE+L+IIHHYVEILD YF
Sbjct: 78 LEVLEIIHHYVEILDRYF 95

Subunit of clathrin-associated adaptor protein complex 1 that plays a role in protein sorting in the trans-Golgi network (TGN) and endosomes. The AP complexes mediate the recruitment of clathrin to membranes and the recognition of sorting signals within the cytosolic tails of transmembrane cargo molecules.

Arabidopsis thaliana (taxid: 3702)

>sp|B0G185|AP1S2_DICDI AP-1 complex subunit sigma-2 OS=Dictyostelium discoideum GN=ap1s2 PE=3 SV=1

 Score = 71.2 bits (173), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 37/76 (48%), Positives = 47/76 (61%), Gaps = 13/76 (17%)

Query: 3  RELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNELE 62
          RE+  ++L R PKLCNF+EW       IIF            Y+ LYF +C D +DNEL 
Sbjct: 34 REIGNMVLNRPPKLCNFLEWK---EYKIIFKR----------YASLYFVVCCDREDNELI 80

Query: 63 ILDIIHHYVEILDLYF 78
          +L+IIHH+VEILD YF
Sbjct: 81 VLEIIHHFVEILDRYF 96

Subunit of clathrin-associated adaptor protein complex 1 that plays a role in protein sorting in the trans-Golgi network (TGN) and endosomes. The AP complexes mediate the recruitment of clathrin to membranes and the recognition of sorting signals within the cytosolic tails of transmembrane cargo molecules. Also involved in early steps of phagocytosis and macropinocytosis.

Dictyostelium discoideum (taxid: 44689)

>sp|Q9P7N2|AP1S1_SCHPO AP-1 complex subunit sigma-1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=vas2 PE=1 SV=1

 Score = 66.2 bits (160), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 32/78 (41%), Positives = 49/78 (62%), Gaps = 13/78 (16%)

Query: 1  VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
          +IR++S +++TR PK+CNFVE+ G     I++            Y+ L+F   ++ DDNE
Sbjct: 32 IIRDVSSLVITRKPKMCNFVEYKG---EKIVYRR----------YASLFFVCGIEQDDNE 78

Query: 61 LEILDIIHHYVEILDLYF 78
          L IL++IH +VE LD YF
Sbjct: 79 LIILEVIHKFVECLDKYF 96

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.

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

>sp|P61967|AP1S1_MOUSE AP-1 complex subunit sigma-1A OS=Mus musculus GN=Ap1s1 PE=1 SV=1

 Score = 65.9 bits (159), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 30/78 (38%), Positives = 46/78 (58%), Gaps = 13/78 (16%)

Query: 1  VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
          ++REL  ++L R PK+C+F+EW       +++            Y+ LYFC  ++  DNE
Sbjct: 31 MVRELMQVVLARKPKMCSFLEWR---DLKVVYKR----------YASLYFCCAIEGQDNE 77

Query: 61 LEILDIIHHYVEILDLYF 78
          L  L++IH YVE+LD YF
Sbjct: 78 LITLELIHRYVELLDKYF 95

Subunit of clathrin-associated adaptor protein complex 1 that plays a role in protein sorting in the late-Golgi/trans-Golgi network (TGN) and/or endosomes. The AP complexes mediate both the recruitment of clathrin to membranes and the recognition of sorting signals within the cytosolic tails of transmembrane cargo molecules.

Mus musculus (taxid: 10090)

>sp|P61966|AP1S1_HUMAN AP-1 complex subunit sigma-1A OS=Homo sapiens GN=AP1S1 PE=1 SV=1

 Score = 65.9 bits (159), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 30/78 (38%), Positives = 46/78 (58%), Gaps = 13/78 (16%)

Query: 1  VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
          ++REL  ++L R PK+C+F+EW       +++            Y+ LYFC  ++  DNE
Sbjct: 31 MVRELMQVVLARKPKMCSFLEWR---DLKVVYKR----------YASLYFCCAIEGQDNE 77

Query: 61 LEILDIIHHYVEILDLYF 78
          L  L++IH YVE+LD YF
Sbjct: 78 LITLELIHRYVELLDKYF 95

Subunit of clathrin-associated adaptor protein complex 1 that plays a role in protein sorting in the late-Golgi/trans-Golgi network (TGN) and/or endosomes. The AP complexes mediate both the recruitment of clathrin to membranes and the recognition of sorting signals within the cytosolic tails of transmembrane cargo molecules.

Homo sapiens (taxid: 9606)

>sp|Q1JQ98|AP1S1_BOVIN AP-1 complex subunit sigma-1A OS=Bos taurus GN=AP1S1 PE=2 SV=1

 Score = 65.9 bits (159), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 30/78 (38%), Positives = 46/78 (58%), Gaps = 13/78 (16%)

Query: 1  VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
          ++REL  ++L R PK+C+F+EW       +++            Y+ LYFC  ++  DNE
Sbjct: 30 MVRELMQVVLARKPKMCSFLEWR---DLKVVYKR----------YASLYFCCAIEGQDNE 76

Query: 61 LEILDIIHHYVEILDLYF 78
          L  L++IH YVE+LD YF
Sbjct: 77 LITLELIHRYVELLDKYF 94

Subunit of clathrin-associated adaptor protein complex 1 that plays a role in protein sorting in the late-Golgi/trans-Golgi network (TGN) and/or endosomes. The AP complexes mediate both the recruitment of clathrin to membranes and the recognition of sorting signals within the cytosolic tails of transmembrane cargo molecules.

Bos taurus (taxid: 9913)

>sp|Q9DB50|AP1S2_MOUSE AP-1 complex subunit sigma-2 OS=Mus musculus GN=Ap1s2 PE=2 SV=1

 Score = 65.1 bits (157), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 32/78 (41%), Positives = 44/78 (56%), Gaps = 13/78 (16%)

Query: 1  VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
          + REL   +L R PK+C+F+EW       I++            Y+ LYFC  ++  DNE
Sbjct: 30 ITRELVQTVLARKPKMCSFLEWRD---LKIVYKR----------YASLYFCCAIEDQDNE 76

Query: 61 LEILDIIHHYVEILDLYF 78
          L  L+IIH YVE+LD YF
Sbjct: 77 LITLEIIHRYVELLDKYF 94

Subunit of clathrin-associated adaptor protein complex 1 that plays a role in protein sorting in the late-Golgi/trans-Golgi network (TGN) and/or endosomes. The AP complexes mediate both the recruitment of clathrin to membranes and the recognition of sorting signals within the cytosolic tails of transmembrane cargo molecules.

Mus musculus (taxid: 10090)

>sp|Q3ZBS3|AP1S2_BOVIN AP-1 complex subunit sigma-2 OS=Bos taurus GN=AP1S2 PE=2 SV=1

 Score = 65.1 bits (157), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 32/78 (41%), Positives = 44/78 (56%), Gaps = 13/78 (16%)

Query: 1  VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
          + REL   +L R PK+C+F+EW       I++            Y+ LYFC  ++  DNE
Sbjct: 30 ITRELVQTVLARKPKMCSFLEWRD---LKIVYKR----------YASLYFCCAIEDQDNE 76

Query: 61 LEILDIIHHYVEILDLYF 78
          L  L+IIH YVE+LD YF
Sbjct: 77 LITLEIIHRYVELLDKYF 94

Subunit of clathrin-associated adaptor protein complex 1 that plays a role in protein sorting in the late-Golgi/trans-Golgi network (TGN) and/or endosomes. The AP complexes mediate both the recruitment of clathrin to membranes and the recognition of sorting signals within the cytosolic tails of transmembrane cargo molecules.

Bos taurus (taxid: 9913)

>sp|P56377|AP1S2_HUMAN AP-1 complex subunit sigma-2 OS=Homo sapiens GN=AP1S2 PE=1 SV=1

 Score = 65.1 bits (157), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 32/78 (41%), Positives = 44/78 (56%), Gaps = 13/78 (16%)

Query: 1  VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
          + REL   +L R PK+C+F+EW       I++            Y+ LYFC  ++  DNE
Sbjct: 30 ITRELVQTVLARKPKMCSFLEWRD---LKIVYKR----------YASLYFCCAIEDQDNE 76

Query: 61 LEILDIIHHYVEILDLYF 78
          L  L+IIH YVE+LD YF
Sbjct: 77 LITLEIIHRYVELLDKYF 94

Subunit of clathrin-associated adaptor protein complex 1 that plays a role in protein sorting in the late-Golgi/trans-Golgi network (TGN) and/or endosomes. The AP complexes mediate both the recruitment of clathrin to membranes and the recognition of sorting signals within the cytosolic tails of transmembrane cargo molecules.

Homo sapiens (taxid: 9606)

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	78
1762309	161	AP-1 Golgi-related complex component; cl	0.833	0.403	0.653	7e-20
218193851	272	hypothetical protein OsI_13777 [Oryza sa	0.833	0.238	0.576	8e-20
224121234	161	predicted protein [Populus trichocarpa]	0.833	0.403	0.628	8e-20
225464497	161	PREDICTED: AP-1 complex subunit sigma-1	0.833	0.403	0.641	8e-20
302143840	190	unnamed protein product [Vitis vinifera]	0.833	0.342	0.641	8e-20
224065617	161	predicted protein [Populus trichocarpa]	0.833	0.403	0.679	1e-19
255546658	161	clathrin coat assembly protein ap19, put	0.833	0.403	0.628	2e-19
297739027	178	unnamed protein product [Vitis vinifera]	0.833	0.365	0.628	2e-19
225425515	161	PREDICTED: AP-1 complex subunit sigma-2-	0.833	0.403	0.628	2e-19
224127562	161	predicted protein [Populus trichocarpa]	0.833	0.403	0.589	4e-19

>gi|1762309|gb|AAB39510.1| AP-1 Golgi-related complex component; clathrin coated vesicles; clathrin assembly protein [Camptotheca acuminata]

 Score =  101 bits (251), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 51/78 (65%), Positives = 56/78 (71%), Gaps = 13/78 (16%)

Query: 1  VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
          VIRELSG+ILTR PKLCNFVEW G       F    Y R     Y+ LYFCMC+D DDNE
Sbjct: 31 VIRELSGLILTRGPKLCNFVEWRG-------FKV-VYKR-----YASLYFCMCIDQDDNE 77

Query: 61 LEILDIIHHYVEILDLYF 78
          LE+L+IIHHYVEILD YF
Sbjct: 78 LEVLEIIHHYVEILDRYF 95

Source: Camptotheca acuminata

Species: Camptotheca acuminata

Genus: Camptotheca

Family: Cornaceae

Order: Cornales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|218193851|gb|EEC76278.1| hypothetical protein OsI_13777 [Oryza sativa Indica Group] gi|222625915|gb|EEE60047.1| hypothetical protein OsJ_12842 [Oryza sativa Japonica Group]

 Score =  100 bits (250), Expect = 8e-20,   Method: Composition-based stats.
 Identities = 45/78 (57%), Positives = 56/78 (71%), Gaps = 13/78 (16%)

Query: 1   VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
           VIRELSG+ILTR PKLCNFVEW G     +++            Y+ LYFCMC+D +DNE
Sbjct: 142 VIRELSGLILTRGPKLCNFVEWKG---YKVVYRR----------YASLYFCMCIDAEDNE 188

Query: 61  LEILDIIHHYVEILDLYF 78
           LE+L+IIHH+VE+LD YF
Sbjct: 189 LEVLEIIHHFVEVLDRYF 206

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224121234|ref|XP_002318532.1| predicted protein [Populus trichocarpa] gi|222859205|gb|EEE96752.1| predicted protein [Populus trichocarpa]

 Score =  100 bits (250), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 49/78 (62%), Positives = 54/78 (69%), Gaps = 13/78 (16%)

Query: 1  VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
          VIRELSG+ILTR PKLCNFVEW G            Y R     Y+ LYFCMC D DDNE
Sbjct: 31 VIRELSGVILTRGPKLCNFVEWRG--------QKVVYKR-----YASLYFCMCTDQDDNE 77

Query: 61 LEILDIIHHYVEILDLYF 78
          LE+L+IIHH+VEILD YF
Sbjct: 78 LEVLEIIHHFVEILDRYF 95

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225464497|ref|XP_002269251.1| PREDICTED: AP-1 complex subunit sigma-1 [Vitis vinifera] gi|147853756|emb|CAN79566.1| hypothetical protein VITISV_017884 [Vitis vinifera]

 Score =  100 bits (250), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 50/78 (64%), Positives = 55/78 (70%), Gaps = 13/78 (16%)

Query: 1  VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
          VIRELSG+ILTR PKLCNFVEW G            Y R     Y+ LYFCMC+D DDNE
Sbjct: 31 VIRELSGVILTRGPKLCNFVEWRG--------YKVVYKR-----YASLYFCMCIDQDDNE 77

Query: 61 LEILDIIHHYVEILDLYF 78
          LE+L+IIHHYVEILD YF
Sbjct: 78 LEVLEIIHHYVEILDRYF 95

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302143840|emb|CBI22701.3| unnamed protein product [Vitis vinifera]

 Score =  100 bits (250), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 50/78 (64%), Positives = 55/78 (70%), Gaps = 13/78 (16%)

Query: 1   VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
           VIRELSG+ILTR PKLCNFVEW G            Y R     Y+ LYFCMC+D DDNE
Sbjct: 60  VIRELSGVILTRGPKLCNFVEWRG--------YKVVYKR-----YASLYFCMCIDQDDNE 106

Query: 61  LEILDIIHHYVEILDLYF 78
           LE+L+IIHHYVEILD YF
Sbjct: 107 LEVLEIIHHYVEILDRYF 124

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224065617|ref|XP_002301886.1| predicted protein [Populus trichocarpa] gi|222843612|gb|EEE81159.1| predicted protein [Populus trichocarpa]

 Score =  100 bits (248), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 53/78 (67%), Positives = 55/78 (70%), Gaps = 13/78 (16%)

Query: 1  VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
          VIRELSGIIL R PKLCNFVEW G       F    Y R     Y+GLYFCMCVD  DNE
Sbjct: 31 VIRELSGIILNRGPKLCNFVEWRG-------FRV-VYRR-----YAGLYFCMCVDEKDNE 77

Query: 61 LEILDIIHHYVEILDLYF 78
          LE+LDIIHHYVEILD YF
Sbjct: 78 LEVLDIIHHYVEILDRYF 95

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255546658|ref|XP_002514388.1| clathrin coat assembly protein ap19, putative [Ricinus communis] gi|223546485|gb|EEF47984.1| clathrin coat assembly protein ap19, putative [Ricinus communis]

 Score = 99.8 bits (247), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 49/78 (62%), Positives = 55/78 (70%), Gaps = 13/78 (16%)

Query: 1  VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
          VIRELSG+ILTR PKLCNFVEW G            Y R     Y+ LYFCMC+D DDNE
Sbjct: 31 VIRELSGVILTRGPKLCNFVEWRG--------YKVVYKR-----YASLYFCMCIDQDDNE 77

Query: 61 LEILDIIHHYVEILDLYF 78
          LE+L+IIHH+VEILD YF
Sbjct: 78 LEVLEIIHHFVEILDRYF 95

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297739027|emb|CBI28516.3| unnamed protein product [Vitis vinifera]

 Score = 99.8 bits (247), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 49/78 (62%), Positives = 55/78 (70%), Gaps = 13/78 (16%)

Query: 1   VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
           VIRELSG+ILTR PKLCNFVEW G            Y R     Y+ LYFCMC+D DDNE
Sbjct: 48  VIRELSGVILTRGPKLCNFVEWRG--------YKVVYKR-----YASLYFCMCIDQDDNE 94

Query: 61  LEILDIIHHYVEILDLYF 78
           LE+L+IIHH+VEILD YF
Sbjct: 95  LEVLEIIHHFVEILDRYF 112

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225425515|ref|XP_002263114.1| PREDICTED: AP-1 complex subunit sigma-2-like [Vitis vinifera]

 Score = 99.8 bits (247), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 49/78 (62%), Positives = 55/78 (70%), Gaps = 13/78 (16%)

Query: 1  VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
          VIRELSG+ILTR PKLCNFVEW G            Y R     Y+ LYFCMC+D DDNE
Sbjct: 31 VIRELSGVILTRGPKLCNFVEWRG--------YKVVYKR-----YASLYFCMCIDQDDNE 77

Query: 61 LEILDIIHHYVEILDLYF 78
          LE+L+IIHH+VEILD YF
Sbjct: 78 LEVLEIIHHFVEILDRYF 95

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224127562|ref|XP_002320105.1| predicted protein [Populus trichocarpa] gi|222860878|gb|EEE98420.1| predicted protein [Populus trichocarpa]

 Score = 99.0 bits (245), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 46/78 (58%), Positives = 56/78 (71%), Gaps = 13/78 (16%)

Query: 1  VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
          VIRELSG+IL+R PKLCNFVEW G     +++            Y+ LYFCMC+D +DNE
Sbjct: 31 VIRELSGVILSRGPKLCNFVEWRG---LKVVYKR----------YASLYFCMCIDQEDNE 77

Query: 61 LEILDIIHHYVEILDLYF 78
          LE+L+IIHHYVEILD YF
Sbjct: 78 LEVLEIIHHYVEILDRYF 95

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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	78
TAIR|locus:2122078	162	AT4G35410 "AT4G35410" [Arabido	0.833	0.401	0.615	5.7e-20
TAIR|locus:2827550	161	AP19 "associated protein 19" [	0.833	0.403	0.602	1.9e-19
GENEDB_PFALCIPARUM|PF11_0187	155	PF11_0187 "clathrin assembly p	0.833	0.419	0.5	1e-13
UNIPROTKB|Q8III7	155	PF11_0187 "Clathrin assembly p	0.833	0.419	0.5	1e-13
DICTYBASE|DDB_G0295711	154	ap1s2 "sigma adaptin" [Dictyos	0.807	0.409	0.486	2.1e-13
ZFIN|ZDB-GENE-050417-222	154	ap1s3a "adaptor-related protei	0.833	0.422	0.448	1e-11
UNIPROTKB|Q1JQ98	157	AP1S1 "AP-1 complex subunit si	0.833	0.414	0.410	1.7e-11
UNIPROTKB|E2RLN5	158	AP1S1 "Uncharacterized protein	0.833	0.411	0.410	1.7e-11
UNIPROTKB|E2RTH1	180	AP1S1 "Uncharacterized protein	0.833	0.361	0.410	1.7e-11
UNIPROTKB|H7C1E4	191	AP1S1 "AP-1 complex subunit si	0.833	0.340	0.410	1.7e-11

TAIR|locus:2122078 AT4G35410 "AT4G35410" [Arabidopsis thaliana (taxid:3702)]

 Score = 237 (88.5 bits), Expect = 5.7e-20, P = 5.7e-20
 Identities = 48/78 (61%), Positives = 56/78 (71%)

Query:     1 VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
             VIRELSG+IL R PKLCNFVEW G     ++     Y R     Y+ LYFCMC+D +DNE
Sbjct:    31 VIRELSGVILNRGPKLCNFVEWRG---YKVV-----YKR-----YASLYFCMCIDQEDNE 77

Query:    61 LEILDIIHHYVEILDLYF 78
             LE+L+IIHHYVEILD YF
Sbjct:    78 LEVLEIIHHYVEILDRYF 95

GO:0005622 "intracellular" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=ISM

GO:0006810 "transport" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA;ISS

GO:0008565 "protein transporter activity" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

GO:0030125 "clathrin vesicle coat" evidence=ISS

GO:0030244 "cellulose biosynthetic process" evidence=RCA

GO:0048193 "Golgi vesicle transport" evidence=RCA

TAIR|locus:2827550 AP19 "associated protein 19" [Arabidopsis thaliana (taxid:3702)]

 Score = 232 (86.7 bits), Expect = 1.9e-19, P = 1.9e-19
 Identities = 47/78 (60%), Positives = 55/78 (70%)

Query:     1 VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
             VIRELSG+IL R PKLCNF+EW G     ++     Y R     Y+ LYFCMC+D  DNE
Sbjct:    31 VIRELSGVILNRGPKLCNFIEWRG---YKVV-----YKR-----YASLYFCMCIDEADNE 77

Query:    61 LEILDIIHHYVEILDLYF 78
             LE+L+IIHHYVEILD YF
Sbjct:    78 LEVLEIIHHYVEILDRYF 95

GO:0005794 "Golgi apparatus" evidence=ISM

GO:0006810 "transport" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA;ISS

GO:0008565 "protein transporter activity" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

GO:0030117 "membrane coat" evidence=IEA

GO:0030125 "clathrin vesicle coat" evidence=ISS

GO:0006301 "postreplication repair" evidence=RCA

GENEDB_PFALCIPARUM|PF11_0187 PF11_0187 "clathrin assembly protein AP19, putative" [Plasmodium falciparum (taxid:5833)]

 Score = 178 (67.7 bits), Expect = 1.0e-13, P = 1.0e-13
 Identities = 39/78 (50%), Positives = 47/78 (60%)

Query:     1 VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
             +IRE S I L R+PKLCNFVEW       ++F            Y+ L+F  C+D  DNE
Sbjct:    31 IIRETSQITLNRTPKLCNFVEWR---EYKLVFKR----------YASLFFIACIDKGDNE 77

Query:    61 LEILDIIHHYVEILDLYF 78
             L  L+IIHHYVEILD YF
Sbjct:    78 LITLEIIHHYVEILDKYF 95

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

GO:0030131 "clathrin adaptor complex" evidence=ISS

GO:0003674 "molecular_function" evidence=ND

UNIPROTKB|Q8III7 PF11_0187 "Clathrin assembly protein AP19, putative" [Plasmodium falciparum 3D7 (taxid:36329)]

 Score = 178 (67.7 bits), Expect = 1.0e-13, P = 1.0e-13
 Identities = 39/78 (50%), Positives = 47/78 (60%)

Query:     1 VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
             +IRE S I L R+PKLCNFVEW       ++F            Y+ L+F  C+D  DNE
Sbjct:    31 IIRETSQITLNRTPKLCNFVEWR---EYKLVFKR----------YASLFFIACIDKGDNE 77

Query:    61 LEILDIIHHYVEILDLYF 78
             L  L+IIHHYVEILD YF
Sbjct:    78 LITLEIIHHYVEILDKYF 95

GO:0003674 "molecular_function" evidence=ND

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

GO:0030131 "clathrin adaptor complex" evidence=ISS

DICTYBASE|DDB_G0295711 ap1s2 "sigma adaptin" [Dictyostelium discoideum (taxid:44689)]

 Score = 175 (66.7 bits), Expect = 2.1e-13, P = 2.1e-13
 Identities = 37/76 (48%), Positives = 47/76 (61%)

Query:     3 RELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNELE 62
             RE+  ++L R PKLCNF+EW       IIF            Y+ LYF +C D +DNEL 
Sbjct:    34 REIGNMVLNRPPKLCNFLEWK---EYKIIFKR----------YASLYFVVCCDREDNELI 80

Query:    63 ILDIIHHYVEILDLYF 78
             +L+IIHH+VEILD YF
Sbjct:    81 VLEIIHHFVEILDRYF 96

GO:0015031 "protein transport" evidence=IEA

GO:0008565 "protein transporter activity" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0031410 "cytoplasmic vesicle" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0006897 "endocytosis" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0030665 "clathrin-coated vesicle membrane" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

ZFIN|ZDB-GENE-050417-222 ap1s3a "adaptor-related protein complex 1, sigma 3 subunit, a" [Danio rerio (taxid:7955)]

 Score = 159 (61.0 bits), Expect = 1.0e-11, P = 1.0e-11
 Identities = 35/78 (44%), Positives = 48/78 (61%)

Query:     1 VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
             +IR+L+ ++L+R PK CNF+ W       I+     Y R     Y+ LYFC  ++ DDNE
Sbjct:    31 IIRDLTQMVLSRPPKACNFLPWRD---LKIV-----YRR-----YASLYFCCGLEQDDNE 77

Query:    61 LEILDIIHHYVEILDLYF 78
             L  LDI+H YVE+LD YF
Sbjct:    78 LLTLDILHRYVELLDQYF 95

GO:0030117 "membrane coat" evidence=IEA

GO:0008565 "protein transporter activity" evidence=IEA

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

UNIPROTKB|Q1JQ98 AP1S1 "AP-1 complex subunit sigma-1A" [Bos taurus (taxid:9913)]

 Score = 157 (60.3 bits), Expect = 1.7e-11, P = 1.7e-11
 Identities = 32/78 (41%), Positives = 47/78 (60%)

Query:     1 VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
             ++REL  ++L R PK+C+F+EW       ++     Y R     Y+ LYFC  ++  DNE
Sbjct:    30 MVRELMQVVLARKPKMCSFLEWRD---LKVV-----YKR-----YASLYFCCAIEGQDNE 76

Query:    61 LEILDIIHHYVEILDLYF 78
             L  L++IH YVE+LD YF
Sbjct:    77 LITLELIHRYVELLDKYF 94

GO:0030659 "cytoplasmic vesicle membrane" evidence=IEA

GO:0005905 "coated pit" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0009615 "response to virus" evidence=IEA

GO:0006897 "endocytosis" evidence=IEA

GO:0030117 "membrane coat" evidence=IEA

GO:0008565 "protein transporter activity" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

UNIPROTKB|E2RLN5 AP1S1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 157 (60.3 bits), Expect = 1.7e-11, P = 1.7e-11
 Identities = 32/78 (41%), Positives = 47/78 (60%)

Query:     1 VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
             ++REL  ++L R PK+C+F+EW       ++     Y R     Y+ LYFC  ++  DNE
Sbjct:    31 MVRELMQVVLARKPKMCSFLEWRD---LKVV-----YKR-----YASLYFCCAIEGQDNE 77

Query:    61 LEILDIIHHYVEILDLYF 78
             L  L++IH YVE+LD YF
Sbjct:    78 LITLELIHRYVELLDKYF 95

GO:0009615 "response to virus" evidence=IEA

GO:0030117 "membrane coat" evidence=IEA

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

GO:0008565 "protein transporter activity" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

UNIPROTKB|E2RTH1 AP1S1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 157 (60.3 bits), Expect = 1.7e-11, P = 1.7e-11
 Identities = 32/78 (41%), Positives = 47/78 (60%)

Query:     1 VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
             ++REL  ++L R PK+C+F+EW       ++     Y R     Y+ LYFC  ++  DNE
Sbjct:    53 MVRELMQVVLARKPKMCSFLEWRD---LKVV-----YKR-----YASLYFCCAIEGQDNE 99

Query:    61 LEILDIIHHYVEILDLYF 78
             L  L++IH YVE+LD YF
Sbjct:   100 LITLELIHRYVELLDKYF 117

GO:0030117 "membrane coat" evidence=IEA

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

GO:0008565 "protein transporter activity" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

UNIPROTKB|H7C1E4 AP1S1 "AP-1 complex subunit sigma-1A" [Homo sapiens (taxid:9606)]

 Score = 157 (60.3 bits), Expect = 1.7e-11, P = 1.7e-11
 Identities = 32/78 (41%), Positives = 47/78 (60%)

Query:     1 VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
             ++REL  ++L R PK+C+F+EW       ++     Y R     Y+ LYFC  ++  DNE
Sbjct:    73 MVRELMQVVLARKPKMCSFLEWRD---LKVV-----YKR-----YASLYFCCAIEGQDNE 119

Query:    61 LEILDIIHHYVEILDLYF 78
             L  L++IH YVE+LD YF
Sbjct:   120 LITLELIHRYVELLDKYF 137

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0008565 "protein transporter activity" evidence=IEA

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

GO:0030117 "membrane coat" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	78
COG5030	152	COG5030, APS2, Clathrin adaptor complex, small sub	1e-18
pfam01217	142	pfam01217, Clat_adaptor_s, Clathrin adaptor comple	5e-16

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

 Score = 74.0 bits (182), Expect = 1e-18
 Identities = 30/78 (38%), Positives = 43/78 (55%), Gaps = 13/78 (16%)

Query: 1  VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
          +I ++  +I  R PK  NF+E        I++            Y+ LYF   VD DDNE
Sbjct: 31 LIADIYELISARKPKESNFIEGKN---EKIVYRR----------YATLYFVFGVDNDDNE 77

Query: 61 LEILDIIHHYVEILDLYF 78
          L IL++IH++VEILD +F
Sbjct: 78 LIILELIHNFVEILDRFF 95

Length = 152

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

 Score = 67.0 bits (164), Expect = 5e-16
 Identities = 32/77 (41%), Positives = 44/77 (57%), Gaps = 13/77 (16%)

Query: 2  IRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNEL 61
          I ++  +I  R PK+ NF+E+N      +I     Y R     Y+ LYF + VD  DNEL
Sbjct: 32 IEQIYALISARKPKMSNFIEFND---LKVI-----YKR-----YATLYFVVIVDDQDNEL 78

Query: 62 EILDIIHHYVEILDLYF 78
           IL++IH +VE LD YF
Sbjct: 79 IILELIHRFVESLDRYF 95

Length = 142

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	78
KOG0934	145	consensus Clathrin adaptor complex, small subunit	99.96
COG5030	152	APS2 Clathrin adaptor complex, small subunit [Intr	99.95
KOG0936	182	consensus Clathrin adaptor complex, small subunit	99.95
KOG0935	143	consensus Clathrin adaptor complex, small subunit	99.86
PF01217	141	Clat_adaptor_s: Clathrin adaptor complex small cha	99.58
KOG3343	175	consensus Vesicle coat complex COPI, zeta subunit	82.79

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

Probab=99.96  E-value=5.2e-31  Score=183.74  Aligned_cols=65  Identities=49%  Similarity=0.996  Sum_probs=63.8

Q ss_pred             CHHHHHHHHHhCCCCceeeeecCCCCCCccccceEEeecccceeeeceEEEEEeCCCCChhHHHHHHHHHHhhhccCC
Q 036677            1 VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNELEILDIIHHYVEILDLYF   78 (78)
Q Consensus         1 i~~ei~~~il~R~~~~cnf~e~~~~k~~~~~~~~iVYRr~~~~~YAsLyFi~~vD~~eNEL~~LelIh~fVE~LD~yF   78 (78)
                      ++||+.+.|++|+|++|||+||+++|        +||||     ||||||++|++.+||||++||+||+|||+||+||
T Consensus        31 i~re~i~~~Lar~pk~csfie~kd~k--------vVyrr-----yasl~f~~~v~~~dNEL~~LE~IH~~vE~lDkYF   95 (145)
T KOG0934|consen   31 IERELIKSVLARKPKMCSFIEYKDEK--------VVYRR-----YASLFFCVGVEDNDNELAILEFIHNYVELLDKYF   95 (145)
T ss_pred             HHHHHHHHHHhCCcccccchhccCce--------ehhhh-----hhhEEEEEEEecCCchhhHHHHHHHHHHHHHHHh
Confidence            47999999999999999999999999        99999     9999999999999999999999999999999998

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

Probab=99.95  E-value=5e-29  Score=174.57  Aligned_cols=65  Identities=48%  Similarity=0.812  Sum_probs=63.3

Q ss_pred             CHHHHHHHHHhCCCCceeeeecCCCCCCccccceEEeecccceeeeceEEEEEeCCCCChhHHHHHHHHHHhhhccCC
Q 036677            1 VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNELEILDIIHHYVEILDLYF   78 (78)
Q Consensus         1 i~~ei~~~il~R~~~~cnf~e~~~~k~~~~~~~~iVYRr~~~~~YAsLyFi~~vD~~eNEL~~LelIh~fVE~LD~yF   78 (78)
                      ++++|+++|++|+||+|||+|+++.|        +||||     ||||||++|||++||||++||+||.|||+||+||
T Consensus        31 li~~i~~lIs~R~~ke~N~~e~k~~k--------iVYrr-----YA~LyF~f~Vd~~dnEl~iL~lIh~FVE~lDr~F   95 (152)
T COG5030          31 LIADIYELISARKPKESNFIEGKNEK--------IVYRR-----YATLYFVFGVDNDDNELIILELIHNFVEILDRFF   95 (152)
T ss_pred             HHHHHHHHHHcCCchhcccccccCcE--------EEeee-----cCcEEEEEEEcCCCCcchHHHHHHHHHHHHHHHh
Confidence            47899999999999999999999988        99999     9999999999999999999999999999999998

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

Probab=99.95  E-value=1.2e-28  Score=175.74  Aligned_cols=71  Identities=39%  Similarity=0.645  Sum_probs=66.0

Q ss_pred             CHHHHHHHHHhCCCCceeeeecCCCCCCccccceEEeecccceeeeceEEEEEeCCCCChhHHHHHHHHHHhhhccCC
Q 036677            1 VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNELEILDIIHHYVEILDLYF   78 (78)
Q Consensus         1 i~~ei~~~il~R~~~~cnf~e~~~~k~~~~~~~~iVYRr~~~~~YAsLyFi~~vD~~eNEL~~LelIh~fVE~LD~yF   78 (78)
                      ++|++++++++|++..|||+|..+.-  .+.++|+|||+     ||+|||++++|.+||||++||+||+|||+|||||
T Consensus        31 lir~vf~lvs~R~~n~~nFLe~~~l~--g~~d~rlIYrh-----YATLYFvfvvD~sEsEL~iLDLIQvfVEtLDkCF  101 (182)
T KOG0936|consen   31 LIREVFHLVSKRPDNVCNFLEGNSLI--GGSDNRLIYRH-----YATLYFVFVVDSSESELGILDLIQVFVETLDKCF  101 (182)
T ss_pred             HHHHHHHHHHcCCchHhhhhcccccc--CCccceeehhe-----eeeEEEEEEEcCCcchhHHHHHHHHHHHHHHHHH
Confidence            57999999999999999999877543  45789999999     9999999999999999999999999999999998

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

Probab=99.86  E-value=3.6e-22  Score=138.24  Aligned_cols=64  Identities=48%  Similarity=0.893  Sum_probs=59.1

Q ss_pred             HHHHHHHHHhCCCCceeeeecCCCCCCccccceEEee-cccceeeeceEEEEEeCCCCChhHHHHHHHHHHhhhccCC
Q 036677            2 IRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYP-RENVIIYSGLYFCMCVDPDDNELEILDIIHHYVEILDLYF   78 (78)
Q Consensus         2 ~~ei~~~il~R~~~~cnf~e~~~~k~~~~~~~~iVYR-r~~~~~YAsLyFi~~vD~~eNEL~~LelIh~fVE~LD~yF   78 (78)
                      +.||++++.+|+.|.-||++.++.|        ++|| |     ||+|||++|||..||||++||.||.|||+||.||
T Consensus        32 ~~~vh~lvs~Rd~K~~~~~~~~~~~--------~~~~rr-----yagLyf~~~vd~tDnelayLe~IHlFVEvLd~fF   96 (143)
T KOG0935|consen   32 IEEVHALVTVRDAKHTNFVEFRNFK--------IIYRRR-----YAGLYFCICVDVTDNELAYLEHIHLFVEVLDEFF   96 (143)
T ss_pred             HHHHHHHHhhccchhhhheeeeece--------EEEEEe-----eCCEEEEEEEecCCchHHHHHHHHHHHHHHHHHh
Confidence            6799999999999998888888777        6655 7     9999999999999999999999999999999987

>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=99.58  E-value=2.4e-15  Score=100.70  Aligned_cols=64  Identities=34%  Similarity=0.564  Sum_probs=60.7

Q ss_pred             HHHHHHHHHhCCCCceeeeecCCCCCCccccceEEeecccceeeeceEEEEEeCCCCChhHHHHHHHHHHhhhccCC
Q 036677            2 IRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNELEILDIIHHYVEILDLYF   78 (78)
Q Consensus         2 ~~ei~~~il~R~~~~cnf~e~~~~k~~~~~~~~iVYRr~~~~~YAsLyFi~~vD~~eNEL~~LelIh~fVE~LD~yF   78 (78)
                      .+++.+.+.+|+++.|+++++++++        +|||+     |+.|||++++|.++|||+++|++|.+||+|+.||
T Consensus        32 ~~~~~~~~~~~~~~~~~i~~~~~~~--------~vy~~-----~~dl~~~~v~~~~eNel~~~e~l~~~v~~l~~~~   95 (141)
T PF01217_consen   32 FEKFIKKKSSRNSKQSPIFEHDNYR--------IVYKR-----YSDLYFVVVGDENENELLLLEFLHRLVEVLDDYF   95 (141)
T ss_dssp             HHHHHHHHHTSSSSSTSEEEETTEE--------EEEEE-----ETTEEEEEEESSTSBHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcccccceeeecccce--------eeeEe-----eccEEEEEEeecccchHHHHHHHHHhhhhhhhhh
Confidence            4677889999999999999999999        99999     9999999999999999999999999999999886

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=82.79  E-value=2.9  Score=30.44  Aligned_cols=40  Identities=23%  Similarity=0.319  Sum_probs=33.7

Q ss_pred             ccceEEeecccceeeeceEEEEEeCCCCChhHHHHHHHHHHhhhc
Q 036677           31 IFNTKCYPRENVIIYSGLYFCMCVDPDDNELEILDIIHHYVEILD   75 (78)
Q Consensus        31 ~~~~iVYRr~~~~~YAsLyFi~~vD~~eNEL~~LelIh~fVE~LD   75 (78)
                      .++.+|||-     +--|+|-+.--..||||......+.+-+.|+
T Consensus        60 dg~~vvYk~-----~~Dl~fyv~G~~~ENEl~L~svL~~l~dal~   99 (175)
T KOG3343|consen   60 DGNTVVYKS-----VIDLHFYVVGSEEENELMLMSVLTCLFDALS   99 (175)
T ss_pred             cCcEEEEEe-----cccEEEEEecCcchhHHHHHHHHHHHHHHHH
Confidence            356699999     9999999999999999999888877766654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	78
1w63_Q	158	Ap1 Clathrin Adaptor Core Length = 158		5e-12
2vgl_S	142	Ap2 Clathrin Adaptor Core Length = 142		3e-09

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

Iteration: 1
 Score = 65.9 bits (159), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 30/78 (38%), Positives = 46/78 (58%), Gaps = 13/78 (16%)
Query: 1  VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
          ++REL  ++L R PK+C+F+EW       +++            Y+ LYFC  ++  DNE
Sbjct: 31 MVRELMQVVLARKPKMCSFLEWR---DLKVVYKR----------YASLYFCCAIEGQDNE 77
Query: 61 LEILDIIHHYVEILDLYF 78
          L  L++IH YVE+LD YF
Sbjct: 78 LITLELIHRYVELLDKYF 95

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

Iteration: 1
 Score = 56.6 bits (135), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 31/78 (39%), Positives = 44/78 (56%), Gaps = 13/78 (16%)
Query: 1  VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
          +I E+  ++  R  K  NFVE+          N K   R     Y+GLYFC+CVD +DN 
Sbjct: 31 LIEEVHAVVTVRDAKHTNFVEFR---------NFKIIYRR----YAGLYFCICVDVNDNN 77
Query: 61 LEILDIIHHYVEILDLYF 78
          L  L+ IH++VE+L+ YF
Sbjct: 78 LAYLEAIHNFVEVLNEYF 95

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	78
1w63_Q	158	Adapter-related protein complex 1 sigma 1A subunit	4e-09
2vgl_S	142	AP-2 complex subunit sigma-1; cytoplasmic vesicle,	3e-08
3tjz_C	153	Coatomer subunit zeta-1; protein trafficking, golg	6e-07

>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 = 49.0 bits (116), Expect = 4e-09
 Identities = 30/78 (38%), Positives = 46/78 (58%), Gaps = 13/78 (16%)

Query: 1  VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
          ++REL  ++L R PK+C+F+EW       +++            Y+ LYFC  ++  DNE
Sbjct: 31 MVRELMQVVLARKPKMCSFLEWRD---LKVVY----------KRYASLYFCCAIEGQDNE 77

Query: 61 LEILDIIHHYVEILDLYF 78
          L  L++IH YVE+LD YF
Sbjct: 78 LITLELIHRYVELLDKYF 95

>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 = 46.5 bits (110), Expect = 3e-08
 Identities = 30/78 (38%), Positives = 44/78 (56%), Gaps = 13/78 (16%)

Query: 1  VIRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNE 60
          +I E+  ++  R  K  NFVE+       II+            Y+GLYFC+CVD +DN 
Sbjct: 31 LIEEVHAVVTVRDAKHTNFVEFRN---FKIIY----------RRYAGLYFCICVDVNDNN 77

Query: 61 LEILDIIHHYVEILDLYF 78
          L  L+ IH++VE+L+ YF
Sbjct: 78 LAYLEAIHNFVEVLNEYF 95

>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 = 43.0 bits (101), Expect = 6e-07
 Identities = 7/34 (20%), Positives = 15/34 (44%)

Query: 45  YSGLYFCMCVDPDDNELEILDIIHHYVEILDLYF 78
              LYF +     +NEL ++ +++   + L    
Sbjct: 72  SIDLYFYVIGSSYENELMLMTVLNCLFDSLSQML 105

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	78
1w63_Q	158	Adapter-related protein complex 1 sigma 1A subunit	99.77
2vgl_S	142	AP-2 complex subunit sigma-1; cytoplasmic vesicle,	99.76
3tjz_C	153	Coatomer subunit zeta-1; protein trafficking, golg	99.73
1w63_M	423	Adaptor-related protein complex 1, MU 1 subunit; e	99.46
2vgl_M	435	AP-2 complex subunit MU-1; cytoplasmic vesicle, al	99.44

>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=99.77  E-value=2.8e-19  Score=122.15  Aligned_cols=64  Identities=50%  Similarity=1.048  Sum_probs=61.2

Q ss_pred             HHHHHHHHHhCCCCceeeeecCCCCCCccccceEEeecccceeeeceEEEEEeCCCCChhHHHHHHHHHHhhhccCC
Q 036677            2 IRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNELEILDIIHHYVEILDLYF   78 (78)
Q Consensus         2 ~~ei~~~il~R~~~~cnf~e~~~~k~~~~~~~~iVYRr~~~~~YAsLyFi~~vD~~eNEL~~LelIh~fVE~LD~yF   78 (78)
                      ++++++++.+|++++|+|+++++.+        +||||     ||+|||++++|.++|||.++|+||.|||+||+||
T Consensus        32 ~~~~~~~i~~~~~~~~~~i~~~~~~--------~vy~~-----~~~Lyfv~~~~~~~Nel~~le~L~~~vevl~~yf   95 (158)
T 1w63_Q           32 VRELMQVVLARKPKMCSFLEWRDLK--------VVYKR-----YASLYFCCAIEGQDNELITLELIHRYVELLDKYF   95 (158)
T ss_dssp             HHHHHHHHHTSCSSSCSEEEETTEE--------EEEEE-----ETTEEEEEEECSSSCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccCCCCCCeEEECCEE--------EEEEE-----ECCEEEEEEecCCCCHHHHHHHHHHHHHHHHHHH
Confidence            5678899999999999999999998        99999     9999999999999999999999999999999987

>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=99.76  E-value=6.3e-19  Score=117.86  Aligned_cols=64  Identities=47%  Similarity=0.916  Sum_probs=61.3

Q ss_pred             HHHHHHHHHhCCCCceeeeecCCCCCCccccceEEeecccceeeeceEEEEEeCCCCChhHHHHHHHHHHhhhccCC
Q 036677            2 IRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNELEILDIIHHYVEILDLYF   78 (78)
Q Consensus         2 ~~ei~~~il~R~~~~cnf~e~~~~k~~~~~~~~iVYRr~~~~~YAsLyFi~~vD~~eNEL~~LelIh~fVE~LD~yF   78 (78)
                      ++++.+++.+|++++|+|+++++.+        +||||     ||+|||+++++.++|||+++|+||.|||+||+||
T Consensus        32 ~~~f~~~v~~~~~~~~~~~~~~~~~--------~vy~~-----~~~Lyfv~~~~~~~N~l~~le~L~~~ve~l~~yf   95 (142)
T 2vgl_S           32 IEEVHAVVTVRDAKHTNFVEFRNFK--------IIYRR-----YAGLYFCICVDVNDNNLAYLEAIHNFVEVLNEYF   95 (142)
T ss_dssp             HHHHHHHHHTCCTTSCSEEEETTEE--------EEEEE-----ETTEEEEEEECTTSCHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCCCCCCEEEECCEE--------EEEEE-----ECCEEEEEEeCCCCCHHHHHHHHHHHHHHHHHHH
Confidence            5778899999988999999999998        99999     9999999999999999999999999999999997

>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=99.73  E-value=1.5e-18  Score=119.02  Aligned_cols=61  Identities=16%  Similarity=0.268  Sum_probs=56.8

Q ss_pred             HHHHHHHHHhCCCCceeeeecCCCCCCccccceEEeecccceeeeceEEEEEeCCCCChhHHHHHHHHHHhhhccCC
Q 036677            2 IRELSGIILTRSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNELEILDIIHHYVEILDLYF   78 (78)
Q Consensus         2 ~~ei~~~il~R~~~~cnf~e~~~~k~~~~~~~~iVYRr~~~~~YAsLyFi~~vD~~eNEL~~LelIh~fVE~LD~yF   78 (78)
                      ++++++++ +|++  |+++++++.+        +||||     ||+|||++++|.+||||+++|+||.|||+||+||
T Consensus        45 e~~i~~~~-~r~~--~~i~~~~~~~--------~vy~~-----~~~Lyfv~~~~~~eNel~ile~L~~~ve~l~~yf  105 (153)
T 3tjz_C           45 EKNIFNKT-HRTD--SEIALLEGLT--------VVYKS-----SIDLYFYVIGSSYENELMLMTVLNCLFDSLSQML  105 (153)
T ss_dssp             HHHHHHHH-SSCC--CCEEEETTEE--------EEEEE-----CSSCEEEEEEETTSCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHH-hCCC--CCEEEECCEE--------EEEEE-----ECCEEEEEEEcCCCChHHHHHHHHHHHHHHHHHh
Confidence            56899997 6754  8999999999        99999     9999999999999999999999999999999987

>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=99.46  E-value=3.8e-14  Score=108.02  Aligned_cols=64  Identities=13%  Similarity=0.274  Sum_probs=57.7

Q ss_pred             HHHHHHHHHhCC--CCceeeeecCCCCCCccccceEEeecccceeeeceEEEEEeCCCCChhHHHHHHHHHHhhhccCC
Q 036677            2 IRELSGIILTRS--PKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNELEILDIIHHYVEILDLYF   78 (78)
Q Consensus         2 ~~ei~~~il~R~--~~~cnf~e~~~~k~~~~~~~~iVYRr~~~~~YAsLyFi~~vD~~eNEL~~LelIh~fVE~LD~yF   78 (78)
                      .+...+++.+|.  .++|+|+++++.+        +||++     ||+|||+++++.++|||.+||+||.|||+||.||
T Consensus        30 ~~~f~~~v~~~~~~~~~~~~i~~~~~~--------~vy~~-----~~~Lyfv~~~~~~~n~l~~le~L~~~v~~l~~yf   95 (423)
T 1w63_M           30 VEHFMPILMEKEEEGMLSPILAHGGVR--------FMWIK-----HNNLYLVATSKKNACVSLVFSFLYKVVQVFSEYF   95 (423)
T ss_dssp             HHHHHHHHHHHHHTSCCCSEEEETTEE--------EEEEE-----ETTEEEEEEESSCCCTHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHhhccccCCCCCEEEECCEE--------EEEEE-----ECCEEEEEEecCCCCHHHHHHHHHHHHHHHHHHH
Confidence            345567777763  5799999999988        99999     9999999999999999999999999999999997

>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=99.44  E-value=7e-14  Score=106.84  Aligned_cols=61  Identities=8%  Similarity=0.177  Sum_probs=54.9

Q ss_pred             HHHHHHh-CCCCceeeeecCCCCCCccccceEEeecccceeeeceEEEEEeCCCCChhHHHHHHHHHHhhhccCC
Q 036677            5 LSGIILT-RSPKLCNFVEWNGGLPTSIIFNTKCYPRENVIIYSGLYFCMCVDPDDNELEILDIIHHYVEILDLYF   78 (78)
Q Consensus         5 i~~~il~-R~~~~cnf~e~~~~k~~~~~~~~iVYRr~~~~~YAsLyFi~~vD~~eNEL~~LelIh~fVE~LD~yF   78 (78)
                      ..+.+.+ |++++|+|+++++.+        +||++     ||+|||+++++.++|||.+||+||.|||+||.||
T Consensus        32 f~~~v~~~~~~~~~~ii~~~~~~--------~vy~~-----~~~Lyfv~~~~~~~n~l~~le~L~~~v~vl~~yf   93 (435)
T 2vgl_M           32 FRVNVIHARQQVRSPVTNIARTS--------FFHVK-----RSNIWLAAVTKQNVNAAMVFEFLYKMCDVMAAYF   93 (435)
T ss_dssp             HHHHTTTCSSCCCCSEEEETTEE--------EEEEE-----ETTEEEEEEESSCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhccccCCCCCEEEECCEE--------EEEEE-----ECCEEEEEEecCCCCHHHHHHHHHHHHHHHHHHH
Confidence            3455554 555899999999998        99999     9999999999999999999999999999999987

---

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	78
d2vgls_	142	d.110.4.2 (S:) Sigma2 adaptin (clathrin coat assem	3e-07
d2vglm2	141	d.110.4.2 (M:1-141) Mu2 adaptin (clathrin coat ass	3e-04

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	78
d2vgls_	142	Sigma2 adaptin (clathrin coat assembly protein AP1	99.55
d2vglm2	141	Mu2 adaptin (clathrin coat assembly protein AP50)	99.07