Citrus Sinensis ID: 035597

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80------
Protein Sequence
MAVLLLRVRVWSPKPLKLHFEFPRVVSMRTCGNKLAILKFIYLLVETADCGIVIVEKVMDGCMAGTSKSNILTPDKTDGENILKHL
Secondary Structure (PSIPRED)
cEEEEEEEEEEccccEEEEEEccEEEEEEEcccHHHHHHHHHHHHHcccEEEEEEEEEccccccccccccccccccccHHHHHHcc
Secondary Structure Prediction (SSPRO)
cEEEEEEEEEEcccccEEEEcccEEEEEcccccHHHHHHHHHHHHHHccccEEEEEEEcccccccccccccccccccccHHHHHHc
Coil and Loop (DISEMBL)
MAVLLLRVRvwspkplklhfefprvvsmrtCGNKLAILKFIYLLVETADCGIVIVEKVMDgcmagtsksniltpdktdgenilkhl
Flexible Loop (DISEMBL)
MAVLLLRVrvwspkplklhfefprvvSMRTCGNKLAILKFIYLLVETADCGIVIVEKVMDGCMagtsksniltpdktdgenilkhl
Low Complexity Region (SEG)
MAVLLLRVRVWSPKPLKLHFEFPRVVSMRTCGNKLAILKFIYLLVETADCGIVIVEKVMDGCMAGTSKSNILTPDKTDGENILKHL
Disordered region (IsUnstruct)
**VLLLRVRVWSPKPLKLHFEFPRVVSMRTCGNKLAILKFIYLLVETADCGIVIVEKVMDGCMAG*********************
Disordered Region (DISOPRED)
*AVLLLRVRVWSPKPLKLHFEFPRVVSMRTCGNKLAILKFIYLLVETADCGIVIVEKVMDGCMAGTSKSNILTPDKTDG**ILKH*
Disordered Region (DISEMBL)
MAVLLLRVRVWSPKPLKLHFEFPRVVSMRTCGNKLAILKFIYLLVETADCGIVIVEKVMDGCMAGTSKSNILTPDKTDGENILKHL
Disordered Region (DISPRO)
MAVLLLRVRVWSPKPLKLHFEFPRVVSMRTCGNKLAILKFIYLLVETADCGIVIVEKVMDGCMAGTSKSNILTPDKTDGENIL**L
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MAVLLLRVRVWSPKPLKLHFEFPRVVSMRTCGNKLAILKFIYLLVETADCGIVIVEKVMDGCMAGTSKSNILTPDKTDGENILKHL
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	86	2.2.26 [Sep-21-2011]
O82201	143	AP-4 complex subunit sigm	yes	no	0.488	0.293	0.457	0.0002

>sp|O82201|AP4S_ARATH AP-4 complex subunit sigma OS=Arabidopsis thaliana GN=At2g19790 PE=2 SV=1

 Score = 44.7 bits (104), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 27/59 (45%), Positives = 36/59 (61%), Gaps = 17/59 (28%)

Query: 33  NKLAILKFIYLLVETAD------CGIVIV-----------EKVMDGCMAGTSKSNILTP 74
           N+LAIL+FI+LLVET D      C + I+           E VM+GC+  TSK+NIL+P
Sbjct: 77  NELAILEFIHLLVETMDKHFGNVCELDIMFHLEKAHFMLEEMVMNGCIVETSKANILSP 135

Subunit of novel type of clathrin- or non-clathrin-associated protein coat involved in targeting proteins from the trans-Golgi network (TGN) to the endosomal-lysosomal system.
Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	86
351722524	143	uncharacterized protein LOC100306047 [Gl	0.523	0.314	0.484	0.0008

>gi|351722524|ref|NP_001236735.1| uncharacterized protein LOC100306047 [Glycine max] gi|356494887|ref|XP_003516313.1| PREDICTED: AP-4 complex subunit sigma-like [Glycine max] gi|255627383|gb|ACU14036.1| unknown [Glycine max]

 Score = 47.8 bits (112), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 32/66 (48%), Positives = 39/66 (59%), Gaps = 21/66 (31%)

Query: 33  NKLAILKFIYLLVETAD------CGIVIV-----------EKVMDGCMAGTSKSNILTP- 74
           N+LAIL+FI+LLVET D      C + I+           E VM+GC+  TSKSNILTP 
Sbjct: 77  NELAILEFIHLLVETMDRHFGNVCELDIMFHLEKAHFMLEEMVMNGCIVETSKSNILTPI 136

Query: 75  ---DKT 77
              DKT
Sbjct: 137 QLMDKT 142

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	86
TAIR|locus:2051905	143	AT2G19790 [Arabidopsis thalian	0.255	0.153	0.545	6.2e-07

TAIR|locus:2051905 AT2G19790 [Arabidopsis thaliana (taxid:3702)]

 Score = 66 (28.3 bits), Expect = 6.2e-07, Sum P(2) = 6.2e-07
 Identities = 12/22 (54%), Positives = 18/22 (81%)

Query:    53 VIVEKVMDGCMAGTSKSNILTP 74
             ++ E VM+GC+  TSK+NIL+P
Sbjct:   114 MLEEMVMNGCIVETSKANILSP 135

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

GO:0006301 "postreplication repair" evidence=RCA

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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!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	86
COG5030	152	APS2 Clathrin adaptor complex, small subunit [Intr	99.89
KOG0936	182	consensus Clathrin adaptor complex, small subunit	99.87
KOG0934	145	consensus Clathrin adaptor complex, small subunit	99.86
KOG0935	143	consensus Clathrin adaptor complex, small subunit	99.86
PF01217	141	Clat_adaptor_s: Clathrin adaptor complex small cha	99.68
KOG3343	175	consensus Vesicle coat complex COPI, zeta subunit	97.08
KOG2740	418	consensus Clathrin-associated protein medium chain	96.29
KOG0938	446	consensus Adaptor complexes medium subunit family	90.37
KOG0937	424	consensus Adaptor complexes medium subunit family	88.08

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

Probab=99.89  E-value=4.8e-24  Score=154.47  Aligned_cols=66  Identities=24%  Similarity=0.261  Sum_probs=62.0

Q ss_pred             CCCceeEEE----eeeEEEEcCCCchhhhHHHHHHHHHHhhhhh-----------------hhheeecceeeeeechhhh
Q 035597           13 PKPLKLHFE----FPRVVSMRTCGNKLAILKFIYLLVETADCGI-----------------VIVEKVMDGCMAGTSKSNI   71 (86)
Q Consensus        13 ~~~~~~~y~----l~fi~~VD~~dNELa~LE~IH~fVE~LDkyF-----------------ILDEmil~Gev~ETsk~~I   71 (86)
                      .++.||+||    |||++|||.+||||++||+||+|||+||+||                 |||||++||+++||||++|
T Consensus        52 ~k~~kiVYrrYA~LyF~f~Vd~~dnEl~iL~lIh~FVE~lDr~FgnVCELdlIFNF~kv~~ILdE~i~gG~i~Es~~~~v  131 (152)
T COG5030          52 GKNEKIVYRRYATLYFVFGVDNDDNELIILELIHNFVEILDRFFGNVCELDLIFNFQKVYAILDEMILGGEIIESSKNEV  131 (152)
T ss_pred             ccCcEEEeeecCcEEEEEEEcCCCCcchHHHHHHHHHHHHHHHhccceeeEeEeeHHHHHHHHHHHHhCCeeeecCHHHH
Confidence            345699999    9999999999999999999999999999999                 9999999999999999999


Q ss_pred             cccchhc
Q 035597           72 LTPDKTD   78 (86)
Q Consensus        72 L~~i~~~   78 (86)
                      ++++...
T Consensus       132 l~~v~~l  138 (152)
T COG5030         132 LEHVYAL  138 (152)
T ss_pred             HHHHHHH
Confidence            9887655

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

Probab=99.87  E-value=1.1e-22  Score=150.05  Aligned_cols=69  Identities=23%  Similarity=0.318  Sum_probs=66.1

Q ss_pred             CCCceeEEE----eeeEEEEcCCCchhhhHHHHHHHHHHhhhhh-----------------hhheeecceeeeeechhhh
Q 035597           13 PKPLKLHFE----FPRVVSMRTCGNKLAILKFIYLLVETADCGI-----------------VIVEKVMDGCMAGTSKSNI   71 (86)
Q Consensus        13 ~~~~~~~y~----l~fi~~VD~~dNELa~LE~IH~fVE~LDkyF-----------------ILDEmil~Gev~ETsk~~I   71 (86)
                      +++.||.||    |||++|+|.+||||++||+||.|||+|||||                 ||+|+++||++.|||.++|
T Consensus        58 ~~d~rlIYrhYATLYFvfvvD~sEsEL~iLDLIQvfVEtLDkCF~nVcELDliF~~~k~h~iL~EiV~GGmVlETn~neI  137 (182)
T KOG0936|consen   58 GSDNRLIYRHYATLYFVFVVDSSESELGILDLIQVFVETLDKCFENVCELDLIFNWQKVHAILAEIVMGGMVLETNMNEI  137 (182)
T ss_pred             CccceeehheeeeEEEEEEEcCCcchhHHHHHHHHHHHHHHHHHHhhhhhhheeeHHHHHHHHHHHHhCCeEEeccHHHH
Confidence            489999999    9999999999999999999999999999999                 9999999999999999999


Q ss_pred             cccchhcchh
Q 035597           72 LTPDKTDGEN   81 (86)
Q Consensus        72 L~~i~~~~~~   81 (86)
                      +.++.++.|.
T Consensus       138 v~av~~~nkl  147 (182)
T KOG0936|consen  138 VAAVDEQNKL  147 (182)
T ss_pred             HHHHHHhchh
Confidence            9999887764

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

Probab=99.86  E-value=9.3e-23  Score=147.01  Aligned_cols=67  Identities=28%  Similarity=0.306  Sum_probs=63.6

Q ss_pred             CCCceeEEE----eeeEEEEcCCCchhhhHHHHHHHHHHhhhhh-----------------hhheeecceeeeeechhhh
Q 035597           13 PKPLKLHFE----FPRVVSMRTCGNKLAILKFIYLLVETADCGI-----------------VIVEKVMDGCMAGTSKSNI   71 (86)
Q Consensus        13 ~~~~~~~y~----l~fi~~VD~~dNELa~LE~IH~fVE~LDkyF-----------------ILDEmil~Gev~ETsk~~I   71 (86)
                      .++.|+|||    |+|++||+.+||||++||+||+|||+||+||                 ||||++++|+++|+||+.+
T Consensus        52 ~kd~kvVyrryasl~f~~~v~~~dNEL~~LE~IH~~vE~lDkYFg~VCELDiiFNfekay~ILde~~~~g~~~e~~k~~~  131 (145)
T KOG0934|consen   52 YKDEKVVYRRYASLFFCVGVEDNDNELAILEFIHNYVELLDKYFGSVCELDIIFNFEKAYFILDEFLLGGEIQETSKNDV  131 (145)
T ss_pred             ccCceehhhhhhhEEEEEEEecCCchhhHHHHHHHHHHHHHHHhccceeeEEEEehHhHHHHHHHHhcCcchHhhhcccH
Confidence            367899999    9999999999999999999999999999999                 9999999999999999999


Q ss_pred             cccchhcc
Q 035597           72 LTPDKTDG   79 (86)
Q Consensus        72 L~~i~~~~   79 (86)
                      ++.+.++|
T Consensus       132 ~~~i~~ad  139 (145)
T KOG0934|consen  132 LKAIAQAD  139 (145)
T ss_pred             HHHHHHhh
Confidence            99987765

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

Probab=99.86  E-value=1.6e-22  Score=144.79  Aligned_cols=65  Identities=23%  Similarity=0.196  Sum_probs=59.5

Q ss_pred             ceeEEE----eeeEEEEcCCCchhhhHHHHHHHHHHhhhhh-----------------hhheeecceeeeeechhhhccc
Q 035597           16 LKLHFE----FPRVVSMRTCGNKLAILKFIYLLVETADCGI-----------------VIVEKVMDGCMAGTSKSNILTP   74 (86)
Q Consensus        16 ~~~~y~----l~fi~~VD~~dNELa~LE~IH~fVE~LDkyF-----------------ILDEmil~Gev~ETsk~~IL~~   74 (86)
                      ..+.||    |||++|||..|||+++||.||+|||+||.||                 |+|||++|||++||||+.++++
T Consensus        56 ~~~~~rryagLyf~~~vd~tDnelayLe~IHlFVEvLd~fF~NVCELDlvFNFyKVy~i~DEm~l~GEi~Etsk~~vler  135 (143)
T KOG0935|consen   56 KIIYRRRYAGLYFCICVDVTDNELAYLEHIHLFVEVLDEFFHNVCELDLVFNFYKVYTIVDEMFLAGEIRETSKTKVLER  135 (143)
T ss_pred             eEEEEEeeCCEEEEEEEecCCchHHHHHHHHHHHHHHHHHhccccceeeeeeeeeHHHHHHHHHHhhhhhhhhHHHHHHH
Confidence            345554    9999999999999999999999999999999                 9999999999999999999999


Q ss_pred             chhcch
Q 035597           75 DKTDGE   80 (86)
Q Consensus        75 i~~~~~   80 (86)
                      +...++
T Consensus       136 l~~L~~  141 (143)
T KOG0935|consen  136 LLMLQS  141 (143)
T ss_pred             HHHHhc
Confidence            876553

>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=99.68  E-value=5.8e-17  Score=110.67  Aligned_cols=68  Identities=22%  Similarity=0.249  Sum_probs=62.4

Q ss_pred             CCceeEEE----eeeEEEEcCCCchhhhHHHHHHHHHHhhhhh-----------------hhheeecceeeeeechhhhc
Q 035597           14 KPLKLHFE----FPRVVSMRTCGNKLAILKFIYLLVETADCGI-----------------VIVEKVMDGCMAGTSKSNIL   72 (86)
Q Consensus        14 ~~~~~~y~----l~fi~~VD~~dNELa~LE~IH~fVE~LDkyF-----------------ILDEmil~Gev~ETsk~~IL   72 (86)
                      .+.+++|+    ++|+++.|.++||++++|++|.||++|+.||                 +||||+.+|.++||+++.|+
T Consensus        53 ~~~~~vy~~~~dl~~~~v~~~~eNel~~~e~l~~~v~~l~~~~~~v~e~~i~~N~~~v~~~LDEiid~G~i~etd~~~I~  132 (141)
T PF01217_consen   53 DNYRIVYKRYSDLYFVVVGDENENELLLLEFLHRLVEVLDDYFGNVSEKDILENFDLVYLILDEIIDGGIILETDPNVIL  132 (141)
T ss_dssp             TTEEEEEEEETTEEEEEEESSTSBHHHHHHHHHHHHHHHHHHHSS-SHHHHHHTHHHHHHHHHHHEETTEES--THHHHH
T ss_pred             ccceeeeEeeccEEEEEEeecccchHHHHHHHHHhhhhhhhhhccccHHHHHHCHHHHHHHHHHHHhCCEEEECCHHHHH
Confidence            45799999    9999999999999999999999999999999                 99999999999999999999


Q ss_pred             ccchhcchh
Q 035597           73 TPDKTDGEN   81 (86)
Q Consensus        73 ~~i~~~~~~   81 (86)
                      +++..++++
T Consensus       133 ~~v~~~~~~  141 (141)
T PF01217_consen  133 KRVTMQDSA  141 (141)
T ss_dssp             HHHHHCCC-
T ss_pred             HHHHHhhcC
Confidence            999998864

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=97.08  E-value=0.0012  Score=49.39  Aligned_cols=63  Identities=13%  Similarity=0.109  Sum_probs=52.1

Q ss_pred             CceeEEE----eeeEEEEcCCCchhhhHHHHHHHHHHhhhhh------------------hhheeecceeeeeechhhhc
Q 035597           15 PLKLHFE----FPRVVSMRTCGNKLAILKFIYLLVETADCGI------------------VIVEKVMDGCMAGTSKSNIL   72 (86)
Q Consensus        15 ~~~~~y~----l~fi~~VD~~dNELa~LE~IH~fVE~LDkyF------------------ILDEmil~Gev~ETsk~~IL   72 (86)
                      +.-++|+    ++|-+.--..||||........+-+.++--+                  ++||++-||-++||..+.|.
T Consensus        61 g~~vvYk~~~Dl~fyv~G~~~ENEl~L~svL~~l~dal~llLr~nveKr~llEN~D~i~L~~DEiiD~GvILEtdp~~ia  140 (175)
T KOG3343|consen   61 GNTVVYKSVIDLHFYVVGSEEENELMLMSVLTCLFDALSLLLRKNVEKRELLENLDLIFLALDEIIDGGVILETDPNQIA  140 (175)
T ss_pred             CcEEEEEecccEEEEEecCcchhHHHHHHHHHHHHHHHHHHHHhChhHHHHHhhhccceeehhhhccCceEEecCHHHHH
Confidence            3568899    7777777789999998888877776665555                  99999999999999999999


Q ss_pred             ccchh
Q 035597           73 TPDKT   77 (86)
Q Consensus        73 ~~i~~   77 (86)
                      +++..
T Consensus       141 ~rv~~  145 (175)
T KOG3343|consen  141 QRVAL  145 (175)
T ss_pred             HHhcc
Confidence            88764

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

Probab=96.29  E-value=0.0037  Score=51.84  Aligned_cols=47  Identities=13%  Similarity=0.042  Sum_probs=42.4

Q ss_pred             eeeEEEEcCCCchhhhHHHHHHHHHHhhhhh-----------------hhheeecceeeeeech
Q 035597           22 FPRVVSMRTCGNKLAILKFIYLLVETADCGI-----------------VIVEKVMDGCMAGTSK   68 (86)
Q Consensus        22 l~fi~~VD~~dNELa~LE~IH~fVE~LDkyF-----------------ILDEmil~Gev~ETsk   68 (86)
                      .+||.++..+--.|.+.|+.|+.|.++-.||                 +||||+-+|.-.-|..
T Consensus        65 i~~~~~st~e~pPL~~iefL~rv~dv~~eyFg~~s~~~Ik~N~~vv~ell~emiDnGfpl~tE~  128 (418)
T KOG2740|consen   65 IFFCAVSTVETPPLMVIEFLHRVVDVLLEYFGGLSESKIKDNVVVVYELLDEMIDNGFPLVTEP  128 (418)
T ss_pred             cEEEEEEeccCCChhHHHHHHHHHHHHHHHhcccCHhHhhcceeeHHHHHHHHHHcCCCcccCh
Confidence            8889998877779999999999999999999                 9999999998766655

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

Probab=90.37  E-value=0.42  Score=40.00  Aligned_cols=56  Identities=16%  Similarity=0.154  Sum_probs=51.0

Q ss_pred             eeeEEEEcCCCchhhhHHHHHHHHHHhhhhh-----------------hhheeecceeeeeechhhhcccchh
Q 035597           22 FPRVVSMRTCGNKLAILKFIYLLVETADCGI-----------------VIVEKVMDGCMAGTSKSNILTPDKT   77 (86)
Q Consensus        22 l~fi~~VD~~dNELa~LE~IH~fVE~LDkyF-----------------ILDEmil~Gev~ETsk~~IL~~i~~   77 (86)
                      ++.+...-.+-|-.+++||..-.+.++..||                 .||||+-.|..|.|+...+...+.+
T Consensus        62 l~lvaitksN~Nva~v~eFl~kl~avm~aYfgk~~Eeaiknnf~lI~ElLDemld~G~pqnte~~al~~~is~  134 (446)
T KOG0938|consen   62 LWLVAITKSNANVAAVFEFLYKLDAVMNAYFGKDREEAIKNNFVLIYELLDEMLDFGIPQNTEPNALKAQISQ  134 (446)
T ss_pred             EEEEEEecCCCchhhHHHHHHHHHHHHHHHhcccchhhhhhceEeHHHHHHHHHhcCCCccCChhHHHhhhhh
Confidence            8888888899999999999999999999999                 8999999999999998887766654

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

Probab=88.08  E-value=0.65  Score=38.91  Aligned_cols=57  Identities=21%  Similarity=0.189  Sum_probs=50.4

Q ss_pred             eeeEEEEcCCCchhhhHHHHHHHHHHhhhhh-----------------hhheeecceeeeeechhhhcccchhcc
Q 035597           22 FPRVVSMRTCGNKLAILKFIYLLVETADCGI-----------------VIVEKVMDGCMAGTSKSNILTPDKTDG   79 (86)
Q Consensus        22 l~fi~~VD~~dNELa~LE~IH~fVE~LDkyF-----------------ILDEmil~Gev~ETsk~~IL~~i~~~~   79 (86)
                      ++++++.-.+.|-..+++++|.+++++-.||                 .|||++-=|.. +|+..+|++..-++.
T Consensus        63 lylv~~~~~n~~a~~v~~~l~~~~~v~~~y~~~l~e~si~~n~vlvyElLde~mDFGyp-Q~t~s~iL~~yi~~~  136 (424)
T KOG0937|consen   63 LYLVAGTRPNVSAALVLSFLYAVADVFGDYLSELEEESIRDNFVLVYELLDEVMDFGYP-QTTDSEILKNYITQK  136 (424)
T ss_pred             eEEEEEeccCCCHHHHHHHHHHHHHHHHHHhccCCccceecchHHHHHHHHHHhccCCc-ccchHHHHHHHhccc
Confidence            9999999889999999999999999999999                 89999999999 677777777665554

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Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	86
3tjz_C	153	Coatomer subunit zeta-1; protein trafficking, golg	99.76
2vgl_S	142	AP-2 complex subunit sigma-1; cytoplasmic vesicle,	99.73
1w63_Q	158	Adapter-related protein complex 1 sigma 1A subunit	99.7
2vgl_M	435	AP-2 complex subunit MU-1; cytoplasmic vesicle, al	99.46
1w63_M	423	Adaptor-related protein complex 1, MU 1 subunit; e	99.45

>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=99.76  E-value=4.1e-19  Score=124.64  Aligned_cols=67  Identities=15%  Similarity=0.209  Sum_probs=60.3

Q ss_pred             CCceeEEE----eeeEEEEcCCCchhhhHHHHHHHHHHhhhhh------------------hhheeecceeeeeechhhh
Q 035597           14 KPLKLHFE----FPRVVSMRTCGNKLAILKFIYLLVETADCGI------------------VIVEKVMDGCMAGTSKSNI   71 (86)
Q Consensus        14 ~~~~~~y~----l~fi~~VD~~dNELa~LE~IH~fVE~LDkyF------------------ILDEmil~Gev~ETsk~~I   71 (86)
                      .+.+++||    |+|++++|.++|||+++|+||.|||+||+||                  +||||+.+|.++|||++.|
T Consensus        63 ~~~~~vy~~~~~Lyfv~~~~~~eNel~ile~L~~~ve~l~~yf~~~v~E~~I~~Nf~~vy~lLDE~id~G~~~eT~~~~I  142 (153)
T 3tjz_C           63 EGLTVVYKSSIDLYFYVIGSSYENELMLMTVLNCLFDSLSQMLRKNVEKRALLENMEGLFLAVDEIVDGGVILESDPQQV  142 (153)
T ss_dssp             TTEEEEEEECSSCEEEEEEETTSCHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHTHHHHHHHHHHHEETTEECCCCHHHH
T ss_pred             CCEEEEEEEECCEEEEEEEcCCCChHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHcCCEeeeCCHHHH
Confidence            46899999    9999999999999999999999999999999                  9999999999999999999


Q ss_pred             cccchhcch
Q 035597           72 LTPDKTDGE   80 (86)
Q Consensus        72 L~~i~~~~~   80 (86)
                      ++++...+.
T Consensus       143 ~~~v~~~~~  151 (153)
T 3tjz_C          143 VHRVALRGE  151 (153)
T ss_dssp             HHTC-----
T ss_pred             HHHHhcccC
Confidence            999986543

>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=99.73  E-value=2.1e-18  Score=117.65  Aligned_cols=67  Identities=21%  Similarity=0.224  Sum_probs=63.9

Q ss_pred             CCceeEEE----eeeEEEEcCCCchhhhHHHHHHHHHHhhhhh-----------------hhheeecceeeeeechhhhc
Q 035597           14 KPLKLHFE----FPRVVSMRTCGNKLAILKFIYLLVETADCGI-----------------VIVEKVMDGCMAGTSKSNIL   72 (86)
Q Consensus        14 ~~~~~~y~----l~fi~~VD~~dNELa~LE~IH~fVE~LDkyF-----------------ILDEmil~Gev~ETsk~~IL   72 (86)
                      ++.+++|+    |+|+++++.++|||+++|+||.|||+||+||                 +||||+.+|.++|||+++|+
T Consensus        53 ~~~~~vy~~~~~Lyfv~~~~~~~N~l~~le~L~~~ve~l~~yf~~v~E~~I~~Nf~~vy~lLDE~id~G~~~et~~~~il  132 (142)
T 2vgl_S           53 RNFKIIYRRYAGLYFCICVDVNDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNFYKVYTVVDEMFLAGEIRETSQTKVL  132 (142)
T ss_dssp             TTEEEEEEEETTEEEEEEECTTSCHHHHHHHHHHHHHHHHHHTTSCCHHHHHHTHHHHHHHHHHHEETTEECCCCHHHHH
T ss_pred             CCEEEEEEEECCEEEEEEeCCCCCHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHHHhCCEEEEcCHHHHH
Confidence            46899999    9999999999999999999999999999999                 99999999999999999999


Q ss_pred             ccchhcch
Q 035597           73 TPDKTDGE   80 (86)
Q Consensus        73 ~~i~~~~~   80 (86)
                      +++.++++
T Consensus       133 ~~~~~~~~  140 (142)
T 2vgl_S          133 KQLLMLQS  140 (142)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHhhhc
Confidence            99988775

>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=99.70  E-value=1.2e-17  Score=116.49  Aligned_cols=67  Identities=24%  Similarity=0.273  Sum_probs=63.3

Q ss_pred             CCceeEEE----eeeEEEEcCCCchhhhHHHHHHHHHHhhhhh-----------------hhheeecceeeeeechhhhc
Q 035597           14 KPLKLHFE----FPRVVSMRTCGNKLAILKFIYLLVETADCGI-----------------VIVEKVMDGCMAGTSKSNIL   72 (86)
Q Consensus        14 ~~~~~~y~----l~fi~~VD~~dNELa~LE~IH~fVE~LDkyF-----------------ILDEmil~Gev~ETsk~~IL   72 (86)
                      ++.+++||    |||++++|.++|||.++|+||.|||+||+||                 +||||+.+|.++||+++.|.
T Consensus        53 ~~~~~vy~~~~~Lyfv~~~~~~~Nel~~le~L~~~vevl~~yf~~v~E~~I~~Nf~~vy~lLDE~id~G~~~eT~~~~l~  132 (158)
T 1w63_Q           53 RDLKVVYKRYASLYFCCAIEGQDNELITLELIHRYVELLDKYFGSVCELDIIFNFEKAYFILDEFLMGGDVQDTSKKSVL  132 (158)
T ss_dssp             TTEEEEEEEETTEEEEEEECSSSCHHHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHTTEETTEESCCCHHHHH
T ss_pred             CCEEEEEEEECCEEEEEEecCCCCHHHHHHHHHHHHHHHHHHHccCCHHHHHHhHHHHHHHHHHHHhCCEEEecCHHHHH
Confidence            46899999    9999999999999999999999999999999                 99999999999999999999


Q ss_pred             ccchhcch
Q 035597           73 TPDKTDGE   80 (86)
Q Consensus        73 ~~i~~~~~   80 (86)
                      +.+...+.
T Consensus       133 ~~I~~~~~  140 (158)
T 1w63_Q          133 KAIEQADL  140 (158)
T ss_dssp             HHHHHHHH
T ss_pred             HHHhcchh
Confidence            99986654

>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=99.46  E-value=6.5e-14  Score=109.34  Aligned_cols=63  Identities=10%  Similarity=0.064  Sum_probs=57.7

Q ss_pred             CCceeEEE----eeeEEEEcCCCchhhhHHHHHHHHHHhhhhh-----------------hhheeecceeeeeechhhhc
Q 035597           14 KPLKLHFE----FPRVVSMRTCGNKLAILKFIYLLVETADCGI-----------------VIVEKVMDGCMAGTSKSNIL   72 (86)
Q Consensus        14 ~~~~~~y~----l~fi~~VD~~dNELa~LE~IH~fVE~LDkyF-----------------ILDEmil~Gev~ETsk~~IL   72 (86)
                      ++.+++|+    |||+++++.++|||.++|+||.|||+||+||                 +||||+.+|.++||+++.+.
T Consensus        51 ~~~~~vy~~~~~Lyfv~~~~~~~n~l~~le~L~~~v~vl~~yf~~v~E~~I~~Nf~~vy~lLDE~id~G~~~~t~~~~l~  130 (435)
T 2vgl_M           51 ARTSFFHVKRSNIWLAAVTKQNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNFVLIYELLDEILDFGYPQNSETGALK  130 (435)
T ss_dssp             TTEEEEEEEETTEEEEEEESSCCCHHHHHHHHHHHHHHHHHHHSSCCHHHHHHTHHHHHHHHHHHEETTEECCCCHHHHG
T ss_pred             CCEEEEEEEECCEEEEEEecCCCCHHHHHHHHHHHHHHHHHHHhccCHHHHHHhHHHHHHHHHHHhcCCEEEecCHHHHH
Confidence            46799999    9999999999999999999999999999999                 99999999999999998655


Q ss_pred             ccch
Q 035597           73 TPDK   76 (86)
Q Consensus        73 ~~i~   76 (86)
                      +.+.
T Consensus       131 ~~i~  134 (435)
T 2vgl_M          131 TFIT  134 (435)
T ss_dssp             GGCC
T ss_pred             HHhc
Confidence            5443

>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=99.45  E-value=5.4e-14  Score=109.46  Aligned_cols=65  Identities=11%  Similarity=0.077  Sum_probs=61.0

Q ss_pred             CCceeEEE----eeeEEEEcCCCchhhhHHHHHHHHHHhhhhh-----------------hhheeecceeeeeechhhhc
Q 035597           14 KPLKLHFE----FPRVVSMRTCGNKLAILKFIYLLVETADCGI-----------------VIVEKVMDGCMAGTSKSNIL   72 (86)
Q Consensus        14 ~~~~~~y~----l~fi~~VD~~dNELa~LE~IH~fVE~LDkyF-----------------ILDEmil~Gev~ETsk~~IL   72 (86)
                      ++.+++|+    |||+++++.++|||.++|+||.|||+||+||                 +||||+.+|.++||+++.|.
T Consensus        53 ~~~~~vy~~~~~Lyfv~~~~~~~n~l~~le~L~~~v~~l~~yf~~v~E~~I~~Nf~~vy~lLDE~id~G~~~~t~~~~l~  132 (423)
T 1w63_M           53 GGVRFMWIKHNNLYLVATSKKNACVSLVFSFLYKVVQVFSEYFKELEEESIRDNFVIIYELLDELMDFGYPQTTDSKILQ  132 (423)
T ss_dssp             TTEEEEEEEETTEEEEEEESSCCCTHHHHHHHHHHHHHHHHHSSCCSHHHHHHHHHHHHHHHHHHCSSSSCCCCCSTTTT
T ss_pred             CCEEEEEEEECCEEEEEEecCCCCHHHHHHHHHHHHHHHHHHHhhcCHHHHHHhHHHHHHHHHHHhcCCEEeecCHHHHH
Confidence            46899999    9999999999999999999999999999999                 99999999999999999988


Q ss_pred             ccchhc
Q 035597           73 TPDKTD   78 (86)
Q Consensus        73 ~~i~~~   78 (86)
                      +.+...
T Consensus       133 ~~i~~~  138 (423)
T 1w63_M          133 EFITQE  138 (423)
T ss_dssp             TTCCSC
T ss_pred             HhhcCC
Confidence            877654

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	86
d2vgls_	142	Sigma2 adaptin (clathrin coat assembly protein AP1	99.57
d2vglm2	141	Mu2 adaptin (clathrin coat assembly protein AP50)	99.29