Psyllid ID: psy12905

Local Sequence Feature Prediction

Prediction and (Method)	Result

Residue Number Marker

Protein Sequence

Secondary Structure (PSIPRED)

Secondary Structure Prediction (SSPRO)

Coil and Loop (DISEMBL)

Flexible Loop (DISEMBL)

Low Complexity Region (SEG)

Disordered region (IsUnstruct)

Disordered Region (DISOPRED)

Disordered Region (DISEMBL)

Disordered Region (DISPRO)

Transmembrane Helix (TMHMM)

Transmembrane Helix (HMMTOP)

Transmembrane Helix (MEMSAT)

TM Helix, Signal Peptide (Phobius)

Signal Peptide (SignalP HMM Mode)

Signal Peptide (SignalP NN Mode)

Coiled Coils (COILS)

Positional Conservation

--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-

PEYCRTLDENEVTDNAFSLIFAFDEIVALGYRESVNLAQVRTFVEMDSHEEKVYQAVRKVCYLSRTCRSIGIAIVSRQFVEMTRARIEGLLAAFPKLMSSGKQHTFVETDSVRYVYQPLEKLYMLLITTKTSNILEDLETLRLFSRVIPEYCRTLDENEVTDNAFSLIFAFDEIVALGYRESVNLAQVRTFVEMDSHEEKVYQAVRKREAENKMREKAKELKRQRMESAKKFPKMGSGVGVGSNPYFGSSSYSSSPVTPVLESADISIRSSYIAQTVQREKKFRDIRIGRKSLENESYPLRIKIAQAILWKPAVSAKAMKLGSKSHDVESFVDQLKSEGEKVISGPALSKVSTLSSKIPTTNISNMDSYSIFLFTLVMQVPKPRSFRFENTLKTPFATSVNYHVNFSHLNKLLSIMFLLHRIHLRQEEQLIISVGRNGGIETFELHGLLTLRISDEKYGYFGDLGHRLQIHLRQEEQLIISVGRNGGIETFELHGLLTLRISDEKYGRIKVLLANKDTRGIQMQTHPNVDKELFKSKTEIGLKNPSKPFPLNNDIGVLKWRFTSTDESCLPLSINCWPSDNGSGGCDVNIEYELEHEEKELNQVTISIPLP

ccccccccHHHHHHHHcHHHHHHHHHHHccccccccHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHccccEEEEEccccccHHHHHHHHHHHcccccccccccEEEEccEEEEEEEcccEEEEEEEcccHHHHHHHHHHHHHHHHHHHHcccccHHHHHccHHHHHHHHHHHHHccccccccHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHccccccccccccccccccccHHHHHHHHHHccccccccccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccccccccccccccccHHHHHccccccEEEEcccEEEEccccccccEEEEEEEEEEEEccccccccccccccccEEEEEEEEEEEEEcccccEEEEEEEEEEEEEEccccccEEEEEEcccccccccccccccccHHHHccccEEEEccccccccccccccEEEEEEcccccccccEEEEEEccccccccEEEEEEEEEccccccccEEEEEcccc

ccccccccHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHcHHcccccccEEEEEcccEEEEEccHHHEEEEEEEccccHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHcccEEEcccccccccccccccccccccccccccccccccccccccccccccHcccccccccEEEEEccccccccHcccccccccEEEEEEEEEEEEEEccccccEEEEEEEEEEEEEcccccccccccccccEEEEEEEEEEEEEEccccEEEEEEEEEEEEEEEcccccEEEEEEEccccccEEEEccccccHHHHccccEEEEcccccccccccccEEEEEEEEccccccccEEEEEEccccccccEEEEEEEEEcccccccccEEEEEccc

peycrtldenevtdnAFSLIFAFDEIVALGYRESVNLAQVRTFVEMDSHEEKVYQAVRKVCYLSRTCRSIGIAIVSRQFVEMTRARIEGLLAAFPklmssgkqhtfvetdsvryVYQPLEKLYMLLITTKTSNILEDLETLRLFSRVIPEycrtldenevtdnAFSLIFAFDEIVALGYRESVNLAQVRTFVEMDSHEEKVYQAVRKREAENKMREKAKELKRQRMESAkkfpkmgsgvgvgsnpyfgsssyssspvtpvlesadisIRSSYIAQTVQREKKFRDIRIGrkslenesyPLRIKIAQAILWKPAVSAKAMklgskshdVESFVDQLKSEgekvisgpalskvstlsskipttnisnmdsYSIFLFTLVmqvpkprsfrfentlktpfatsvnYHVNFSHLNKLLSIMFLLHRIHLRQEEQLIISVGrnggietfELHGLLtlrisdekygyfgdlgHRLQIHLRQEEQLIISVGrnggietfELHGLltlrisdekYGRIKVLLAnkdtrgiqmqthpnvdkelfkskteiglknpskpfplnndigvlkwrftstdesclplsincwpsdngsggcdvniEYELEHEEKELNQvtisiplp

peycrtldenevtdnAFSLIFAFDEIVALGYRESVNLAQVRTFVEMDSHEEKVYQAVRKVCYLSRTCRSIGIAIVSRQFVEMTRARIEGLLAAFPKLmssgkqhtfvetdSVRYVYQPLEKLYMLLITTKTSNILEDLETLRLFSRVIPEYCRTLDENEVTDNAFSLIFAFDEIVALGYRESVNLAQVRTFVEMDSHEEKVYQAvrkreaenkmrEKAKELKRQRMesakkfpkmgsgvgVGSNPYFGSSSYSSSPVTPVLESADISIRssyiaqtvqrekkfrdirigrkslenesyplRIKIAQAILWKPAVSAKAMKLGSKSHDVESFVDQLKSegekvisgpalskvstlsskipttnisnmdSYSIFLFTLVMQVPKPRSFRFENTLKTPFATSVNYHVNFSHLNKLLSIMFLLHRIHLRQEEQLIISVGRNGGIETFELHGLLTLRISDEKYGYFGDLGHRLQIHLRQEEQLIISVGRNGGIETFELHGLLTLRISDEKYGRIKVLLankdtrgiqmqthpnvdkelFKSKTEIglknpskpfplnnDIGVLKWRFTSTDESCLPLSINCWPSDNGSGGCDVNIEYELEHeekelnqvtisiplp

PEYCRTLDENEVTDNAFSLIFAFDEIVALGYRESVNLAQVRTFVEMDSHEEKVYQAVRKVCYLSRTCRSIGIAIVSRQFVEMTRARIEGLLAAFPKLMSSGKQHTFVETDSVRYVYQPLEKLYMLLITTKTSNILEDLETLRLFSRVIPEYCRTLDENEVTDNAFSLIFAFDEIVALGYRESVNLAQVRTFVEMDSHEEKVYQAVRKREAENKMREKAKELKRQRMESAKKFPKMGSGVGVGSNPYFGsssysssPVTPVLESADISIRSSYIAQTVQREKKFRDIRIGRKSLENESYPLRIKIAQAILWKPAVSAKAMKLGSKSHDVESFVDQLKSEGEKVISGPALSKVSTLSSKIPTTNISNMDSYSIFLFTLVMQVPKPRSFRFENTLKTPFATSVNYHVNFSHLNKLLSIMFLLHRIHLRQEEQLIISVGRNGGIETFELHGLLTLRISDEKYGYFGDLGHRLQIHLRQEEQLIISVGRNGGIETFELHGLLTLRISDEKYGRIKVLLANKDTRGIQMQTHPNVDKELFKSKTEIGLKNPSKPFPLNNDIGVLKWRFTSTDESCLPLSINCWPSDNGSGGCDVNIeyeleheekeLNQVTISIPLP

*********NEVTDNAFSLIFAFDEIVALGYRESVNLAQVRTFVEMDSHEEKVYQAVRKVCYLSRTCRSIGIAIVSRQFVEMTRARIEGLLAAFPKLMSSGKQHTFVETDSVRYVYQPLEKLYMLLITTKTSNILEDLETLRLFSRVIPEYCRTLDENEVTDNAFSLIFAFDEIVALGYRESVNLAQVRTFVEM***********************************************************************ISIRSSYIAQTVQREKKFRDIRIGRKSLENESYPLRIKIAQAILWKPAVSA********************************************TNISNMDSYSIFLFTLVMQVPKPRSFRFENTLKTPFATSVNYHVNFSHLNKLLSIMFLLHRIHLRQEEQLIISVGRNGGIETFELHGLLTLRISDEKYGYFGDLGHRLQIHLRQEEQLIISVGRNGGIETFELHGLLTLRISDEKYGRIKVLLANKDTRGI***************************FPLNNDIGVLKWRFTSTDESCLPLSINCWPSDNGSGGCDVNIEYEL*****************

PEYCRTLDENEVTDNAFSLIFAFDEIVALGYRESVNLAQVRTFVEMDSHEEKVYQAVRKVCYLSRTCRSIGIAIVSRQFVEMTRARIEGLLAAFPKLMSSGKQHTFVETDSVRYVYQPLEKLYMLLITTKTSNILEDLETLRLFSRVIPEYCRTLDENEVTDNAFSLIFAFDEIVALGYRESVNLAQVRTFVEMDSHE***************************************************************************************************************************************************************************************************************************************************************************HRLQIHLRQEEQLIISVGRNGGIETFELHGLLTLRISDEKYGRIKVLLANKDTRGIQMQTHPNVDKELFKSKTEIGLKNPSKPFPLNNDIGVLKWRFTSTDESCLPLSINCWPSDNGSGGCDVNIEYELEHEEKELNQVTISIPLP

PEYCRTLDENEVTDNAFSLIFAFDEIVALGYRESVNLAQVRTFVEMDSHEEKVYQAVRKVCYLSRTCRSIGIAIVSRQFVEMTRARIEGLLAAFPKLMSSGKQHTFVETDSVRYVYQPLEKLYMLLITTKTSNILEDLETLRLFSRVIPEYCRTLDENEVTDNAFSLIFAFDEIVALGYRESVNLAQVRTFVEMDSHEEKVYQAVRKREAENKMREKAKELKRQRMESAKKFPKMGSGVGVGSNPYFG***********VLESADISIRSSYIAQTVQREKKFRDIRIGRKSLENESYPLRIKIAQAILWKPAVSAKAMKLGSKSHDVESFVDQLKSEGEKVISGPALSKVSTLSSKIPTTNISNMDSYSIFLFTLVMQVPKPRSFRFENTLKTPFATSVNYHVNFSHLNKLLSIMFLLHRIHLRQEEQLIISVGRNGGIETFELHGLLTLRISDEKYGYFGDLGHRLQIHLRQEEQLIISVGRNGGIETFELHGLLTLRISDEKYGRIKVLLANKDTRGIQMQTHPNVDKELFKSKTEIGLKNPSKPFPLNNDIGVLKWRFTSTDESCLPLSINCWPSDNGSGGCDVNIEYELEHEEKELNQVTISIPLP

*EYCRTLDENEVTDNAFSLIFAFDEIVALGYRESVNLAQVRTFVEMDSHEEKVYQAVRKVCYLSRTCRSIGIAIVSRQFVEMTRARIEGLLAAFPKLMSSGKQHTFVETDSVRYVYQPLEKLYMLLITTKTSNILEDLETLRLFSRVIPEYCRTLDENEVTDNAFSLIFAFDEIVALGYRESVNLAQVRTFVEMDSHEEKVYQAVRKREAENKMREKAKELKRQRME*****************************************************************************************************ESFVDQLK*EG**VI**************************SIFLFTLVMQVPK*******NTLKTPFATSVNYHVNFSHLNKLLSIMFLLHRIHLRQEEQLIISVGRNGGIETFELHGLLTLRISDEKYGYFGDLGHRLQIHLRQEEQLIISVGRNGGIETFELHGLLTLRISDEKYGRIKVLLANKDTRGIQMQTHPNVDKELFKSKTEIGLKNPSKPFPLNNDIGVLKWRFTSTDESCLPLSINCWPSDNGSGGCDVNIEYELEHEEKELNQVTISIPLP

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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PEYCRTLDENEVTDNAFSLIFAFDEIVALGYRESVNLAQVRTFVEMDSHEEKVYQAVRKVCYLSRTCRSIGIAIVSRQFVEMTRARIEGLLAAFPKLMSSGKQHTFVETDSVRYVYQPLEKLYMLLITTKTSNILEDLETLRLFSRVIPEYCRTLDENEVTDNAFSLIFAFDEIVALGYRESVNLAQVRTFVEMDSHEEKVYQxxxxxxxxxxxxxxxxxxxxxxxxxxxxFPKMGSGVGVGSNPYFGSSSYSSSPVTPVLESADISIRSSYIAQTVQREKKFRDIRIGRKSLENESYPLRIKIAQAILWKPAVSAKAMKLGSKSHDVESFVDQLKSEGEKVISGPALSKVSTLSSKIPTTNISNMDSYSIFLFTLVMQVPKPRSFRFENTLKTPFATSVNYHVNFSHLNKLLSIMFLLHRIHLRQEEQLIISVGRNGGIETFELHGLLTLRISDEKYGYFGDLGHRLQIHLRQEEQLIISVGRNGGIETFELHGLLTLRISDEKYGRIKVLLANKDTRGIQMQTHPNVDKELFKSKTEIGLKNPSKPFPLNNDIGVLKWRFTSTDESCLPLSINCWPSDNGSGGCDVNIEYELEHEEKELNQVTISIPLP

no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Alignment graph	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query		611	2.2.26 [Sep-21-2011]
P53619		511	Coatomer subunit delta OS	yes	N/A	0.666	0.796	0.451	1e-124
Q5RA77		511	Coatomer subunit delta OS	yes	N/A	0.666	0.796	0.444	1e-123
P48444		511	Coatomer subunit delta OS	yes	N/A	0.666	0.796	0.442	1e-123
Q5XJY5		511	Coatomer subunit delta OS	yes	N/A	0.666	0.796	0.440	1e-123
Q5ZL57		510	Coatomer subunit delta OS	yes	N/A	0.669	0.801	0.445	1e-123
Q66H80		511	Coatomer subunit delta OS	yes	N/A	0.666	0.796	0.440	1e-123
Q09236		515	Probable coatomer subunit	yes	N/A	0.268	0.318	0.604	1e-54
Q0DJA0		524	Coatomer subunit delta-1	yes	N/A	0.427	0.498	0.415	3e-52
Q0DJ99		523	Coatomer subunit delta-2	yes	N/A	0.425	0.497	0.412	1e-51
Q93Y22		527	Coatomer subunit delta OS	yes	N/A	0.273	0.316	0.534	1e-48

>sp\|P53619\|COPD_BOVIN Coatomer subunit delta OS=Bos taurus GN=ARCN1 PE=1 SV=1	Back alignment and function desciption

 Score =  444 bits (1142), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 252/558 (45%), Positives = 337/558 (60%), Gaps = 151/558 (27%)

Query: 60  VCYLSRTCRSIGIAIVSRQFVEMTRARIEGLLAAFPKLMSSGKQHTFVETDSVRYVYQPL 119
           V   +  C   G AIVSRQFVEMTR RIEGLLAAFPKLM++GKQHTFVET+SVRYVYQP+
Sbjct: 2   VLLAAAVCTKAGKAIVSRQFVEMTRTRIEGLLAAFPKLMNTGKQHTFVETESVRYVYQPM 61

Query: 120 EKLYMLLITTKTSNILEDLETLRLFSRVIPEYCRTLDENEVTDNAFSLIFAFDEIVALGY 179
           EKLYM+LITTK SNILEDLETLRLFSRVIPEYCR L+ENE++++ F LIFAFDEIVALGY
Sbjct: 62  EKLYMVLITTKNSNILEDLETLRLFSRVIPEYCRALEENEISEHCFDLIFAFDEIVALGY 121

Query: 180 RESVNLAQVRTFVEMDSHEEKVYQAVR---KREAENKMREKAKELKRQRMES---AKKFP 233
           RE+VNLAQ+RTF EMDSHEEKV++AVR   +REA+ +MR KAKEL++ R ++    KK P
Sbjct: 122 RENVNLAQIRTFTEMDSHEEKVFRAVRETQEREAKAEMRRKAKELQQARRDAERQGKKAP 181

Query: 234 KMGSGVGVGSNPYFGSSSYSSSPVTPVLESADISIRSSYIAQTVQREKKFRDIRIGRKSL 293
             G          FGSS+ S    T            S I +T+               +
Sbjct: 182 GFGG---------FGSSTVSGGSTT------------SMITETI---------------I 205

Query: 294 ENESYPLRIKIAQAILWKPAVSAKAMKLGSKSHDVESFVDQLKSEGEKVISGPALSKVST 353
           E +    + K+A A   +P+  +KA+KLG+K  +V++FVD+LKSEGE +IS   + K ++
Sbjct: 206 ETD----KPKVAPAPA-RPSGPSKALKLGAKGKEVDNFVDKLKSEGENIISS-NMGKRTS 259

Query: 354 LSSKIPTTNISNMDSYSIFLFTLVMQVPKPRSFRFENTLKTPFATSVNYHVNFSHLNKLL 413
            ++K+    I NM+S                                             
Sbjct: 260 EATKVHAPPI-NMES--------------------------------------------- 273

Query: 414 SIMFLLHRIHLRQEEQLIISVGRNGGIETFELHGLLTLRISDEKYGYFGDLGHRLQIHLR 473
                   +H++ EE++ ++ GR+GG++  ELHG++ LRISD+K+G       R+++H+ 
Sbjct: 274 --------VHMKIEEKITLTCGRDGGLQNMELHGMIMLRISDDKFG-------RIRLHVE 318

Query: 474 QEEQLIISVGRNGGIETFELHGLLTLRISDEKYGRIKVLLANKDTRGIQMQTHPNVDKEL 533
                                                    N+D +G+Q+QTHPNVDK+L
Sbjct: 319 -----------------------------------------NEDKKGVQLQTHPNVDKKL 337

Query: 534 FKSKTEIGLKNPSKPFPLNNDIGVLKWRFTSTDESCLPLSINCWPSDNGSGGCDVNIEYE 593
           F +++ IGLKNP K FP+N+D+GVLKWR  +T+ES +PL+INCWPS++G+ GCDVNIEYE
Sbjct: 338 FTAESLIGLKNPEKSFPVNSDVGVLKWRLQTTEESFIPLTINCWPSESGN-GCDVNIEYE 396

Query: 594 LEHEEKELNQVTISIPLP 611
           L+ +  ELN V I+IPLP
Sbjct: 397 LQEDNLELNDVVITIPLP 414

The coatomer is a cytosolic protein complex that binds to dilysine motifs and reversibly associates with Golgi non-clathrin-coated vesicles, which further mediate biosynthetic protein transport from the ER, via the Golgi up to the trans Golgi network. Coatomer complex is required for budding from Golgi membranes, and is essential for the retrograde Golgi-to-ER transport of dilysine-tagged proteins. In mammals, the coatomer can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins; the complex also influences the Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors.
Bos taurus (taxid: 9913)

>sp\|Q5RA77\|COPD_PONAB Coatomer subunit delta OS=Pongo abelii GN=ARCN1 PE=2 SV=1	Back alignment and function description

>sp\|P48444\|COPD_HUMAN Coatomer subunit delta OS=Homo sapiens GN=ARCN1 PE=1 SV=1	Back alignment and function description

>sp\|Q5XJY5\|COPD_MOUSE Coatomer subunit delta OS=Mus musculus GN=Arcn1 PE=2 SV=2	Back alignment and function description

>sp\|Q5ZL57\|COPD_CHICK Coatomer subunit delta OS=Gallus gallus GN=ARCN1 PE=2 SV=1	Back alignment and function description

>sp\|Q66H80\|COPD_RAT Coatomer subunit delta OS=Rattus norvegicus GN=Arcn1 PE=2 SV=1	Back alignment and function description

>sp\|Q09236\|COPD_CAEEL Probable coatomer subunit delta OS=Caenorhabditis elegans GN=C13B9.3 PE=3 SV=1	Back alignment and function description

>sp\|Q0DJA0\|COPD1_ORYSJ Coatomer subunit delta-1 OS=Oryza sativa subsp. japonica GN=Os05g0310800 PE=2 SV=1	Back alignment and function description

>sp\|Q0DJ99\|COPD2_ORYSJ Coatomer subunit delta-2 OS=Oryza sativa subsp. japonica GN=Os05g0311000 PE=2 SV=1	Back alignment and function description

>sp\|Q93Y22\|COPD_ARATH Coatomer subunit delta OS=Arabidopsis thaliana GN=At5g05010 PE=1 SV=2	Back alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Alignment Graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		611
242011242		545	Coatomer subunit delta, putative [Pedicu	0.664	0.744	0.493	1e-133
270003747		601	hypothetical protein TcasGA2_TC003020 [T	0.713	0.725	0.481	1e-132
289740767		520	clathrin adaptor complex medium subunit	0.677	0.796	0.494	1e-132
189235224		513	PREDICTED: similar to coatomer delta sub	0.674	0.803	0.497	1e-132
380014779		514	PREDICTED: coatomer subunit delta-like [	0.664	0.789	0.489	1e-127
66551478		515	PREDICTED: coatomer subunit delta isofor	0.677	0.803	0.491	1e-127
332374960		508	unknown [Dendroctonus ponderosae]	0.666	0.801	0.479	1e-126
383850756		515	PREDICTED: coatomer subunit delta-like [	0.677	0.803	0.482	1e-125
348540371		512	PREDICTED: coatomer subunit delta-like [	0.666	0.794	0.461	1e-124
307198423		521	Coatomer subunit delta [Harpegnathos sal	0.685	0.804	0.464	1e-123

>gi\|242011242\|ref\|XP_002426364.1\| Coatomer subunit delta, putative [Pediculus humanus corporis] gi\|212510441\|gb\|EEB13626.1\| Coatomer subunit delta, putative [Pediculus humanus corporis]	Back alignment and taxonomy information

 Score =  482 bits (1240), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 280/567 (49%), Positives = 341/567 (60%), Gaps = 161/567 (28%)

Query: 59  KVCYLSRTCRSIGIAIVSRQFVEMTRARIEGLLAAFPKLMSSGKQHTFVETDSVRYVYQP 118
           +V   +  C   G  I+SRQFVEMT++RIEGLLAAFPKLMS+G+QHTFVETDSVRYVYQP
Sbjct: 29  QVLIAAAVCTKSGKTIISRQFVEMTKSRIEGLLAAFPKLMSTGRQHTFVETDSVRYVYQP 88

Query: 119 LEKLYMLLITTKTSNILEDLETLRLFSRVIPEYCRTLDENEVTDNAFSLIFAFDEIVALG 178
           LEKLYMLLITTK SNILEDLETLRLFS++IPEYCRT++E+E+ DNAF+LIFAFDEIVALG
Sbjct: 89  LEKLYMLLITTKASNILEDLETLRLFSKMIPEYCRTMEESEIIDNAFNLIFAFDEIVALG 148

Query: 179 YRESVNLAQVRTFVEMDSHEEKVYQAVRK---REAENKMREKAKELKRQRMESAK---KF 232
           YRESVNLAQ+RTFVEMDSHEEK+YQAVRK   REA+NKMREKAKEL+RQ++E+ K   K 
Sbjct: 149 YRESVNLAQIRTFVEMDSHEEKIYQAVRKTQEREAKNKMREKAKELQRQKLEAVKKGGKT 208

Query: 233 PKMGSGVGVGSNPYFGSSSYSSSPVTPVLESADISIRSSYIAQTVQREKKFRDIRIGRKS 292
           P   +G G      FGS++   +PV+ +                                
Sbjct: 209 PVFSTGTG------FGSNTGGYNPVSNI-------------------------------- 230

Query: 293 LENESYPLRIKIAQAILWKPAVSAKAMKLGSKSHDVESFVDQLKSEGEKVISGPALSKVS 352
              ES  LR +    I    + + KAMKLGSKS DVESFVDQLK+EGE ++  P ++K +
Sbjct: 231 ---ESLMLRDEEPSYIAPAKSTTNKAMKLGSKSKDVESFVDQLKNEGE-IVQTPLINKTA 286

Query: 353 TLSSKIPTTNISNMDSYSIFLFTLVMQVPKPRSFRFENTLKTPFATSVNYHVNFSHLNKL 412
             + K+ T  + N D                                        HL   
Sbjct: 287 N-TGKVHT--LENFDDV--------------------------------------HL--- 302

Query: 413 LSIMFLLHRIHLRQEEQLIISVGRNGGIETFELHGLLTLRISDEKYGYFGDLGHRLQIHL 472
                       RQEE+L + VGR+GGI++FELHGL+TLRISDEK+G       RL++ L
Sbjct: 303 ------------RQEERLTLRVGRDGGIQSFELHGLVTLRISDEKWG-------RLRVQL 343

Query: 473 RQEEQLIISVGRNGGIETFELHGLLTLRISDEKYGRIKVLLANKDTRGIQMQTHPNVDKE 532
                                                     NKD RGIQ+QTHPNVDKE
Sbjct: 344 E-----------------------------------------NKDDRGIQLQTHPNVDKE 362

Query: 533 LFKSKTEIGLKNPSKPFPLNNDIGVLKWRFTSTDESCLPLS--------INCWPSDNGSG 584
           LFK K++IGLKNP+KPFPLN D+GVLKWR+ + +ES +PL+        IN   S+N  G
Sbjct: 363 LFKMKSQIGLKNPTKPFPLNTDVGVLKWRYQTQEESSIPLTSKKLNFKYINA-ASENIDG 421

Query: 585 GCDVNIEYELEHEEKELNQVTISIPLP 611
           GCDVNIEYELEH+  ELN V+I IPLP
Sbjct: 422 GCDVNIEYELEHDHMELNDVSIVIPLP 448

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi\|270003747\|gb\|EFA00195.1\| hypothetical protein TcasGA2_TC003020 [Tribolium castaneum]	Back alignment and taxonomy information

>gi\|289740767\|gb\|ADD19131.1\| clathrin adaptor complex medium subunit [Glossina morsitans morsitans]	Back alignment and taxonomy information

>gi\|189235224\|ref\|XP_967725.2\| PREDICTED: similar to coatomer delta subunit [Tribolium castaneum]	Back alignment and taxonomy information

>gi\|380014779\|ref\|XP_003691395.1\| PREDICTED: coatomer subunit delta-like [Apis florea]	Back alignment and taxonomy information

>gi\|66551478\|ref\|XP_624725.1\| PREDICTED: coatomer subunit delta isoform 2 [Apis mellifera]	Back alignment and taxonomy information

>gi\|332374960\|gb\|AEE62621.1\| unknown [Dendroctonus ponderosae]	Back alignment and taxonomy information

>gi\|383850756\|ref\|XP_003700942.1\| PREDICTED: coatomer subunit delta-like [Megachile rotundata]	Back alignment and taxonomy information

>gi\|348540371\|ref\|XP_003457661.1\| PREDICTED: coatomer subunit delta-like [Oreochromis niloticus]	Back alignment and taxonomy information

>gi\|307198423\|gb\|EFN79365.1\| Coatomer subunit delta [Harpegnathos saltator]	Back alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Alignment graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		611
FB\|FBgn0028969		532	deltaCOP "delta-coatomer prote	0.304	0.349	0.732	7.3e-129
MGI\|MGI:2387591		511	Arcn1 "archain 1" [Mus musculu	0.332	0.397	0.652	7.3e-121
RGD\|1359110		511	Arcn1 "archain 1" [Rattus norv	0.332	0.397	0.652	7.3e-121
UNIPROTKB\|I3LBY0		511	ARCN1 "Uncharacterized protein	0.332	0.397	0.652	9.3e-121
UNIPROTKB\|F1PRT4		511	ARCN1 "Uncharacterized protein	0.332	0.397	0.652	9.3e-121
ZFIN\|ZDB-GENE-021031-2		509	arcn1a "archain 1a" [Danio rer	0.297	0.357	0.7	1.3e-117
UNIPROTKB\|B0YIW6		552	ARCN1 "Archain 1, isoform CRA_	0.451	0.5	0.506	2.1e-111
UNIPROTKB\|P48444		511	ARCN1 "Coatomer subunit delta"	0.450	0.538	0.508	2.7e-111
UNIPROTKB\|P53619		511	ARCN1 "Coatomer subunit delta"	0.389	0.465	0.576	4.3e-111
UNIPROTKB\|Q5ZL57		510	ARCN1 "Coatomer subunit delta"	0.389	0.466	0.572	1.9e-110

FB\|FBgn0028969 deltaCOP "delta-coatomer protein" [Drosophila melanogaster (taxid:7227)]	Back alignment and assigned GO terms

 Score = 691 (248.3 bits), Expect = 7.3e-129, Sum P(3) = 7.3e-129
 Identities = 140/191 (73%), Positives = 163/191 (85%)

Query:    60 VCYLSRTCRSIGIAIVSRQFVEMTRARIEGLLAAFPKLMSSGKQHTFVETDSVRYVYQPL 119
             V   +  C   G  I+SRQFVEMT+ARIEGLLAAFPKLM++GKQHT+VETDSVRYVYQP+
Sbjct:     2 VLIAAAVCTKNGKVILSRQFVEMTKARIEGLLAAFPKLMTAGKQHTYVETDSVRYVYQPM 61

Query:   120 EKLYMLLITTKTSNILEDLETLRLFSRVIPEYCRTLDENEVTDNAFSLIFAFDEIVALGY 179
             EKLYMLLITTK SNILEDLETLRLFS+VIPEY  +LDE E+ +NAF+LIFAFDEIVALGY
Sbjct:    62 EKLYMLLITTKASNILEDLETLRLFSKVIPEYSHSLDEKEIVENAFNLIFAFDEIVALGY 121

Query:   180 RESVNLAQVRTFVEMDSHEEKVYQAVRK---REAENKMREKAKELKRQRMESAKKF-PKM 235
             RESVNLAQ++TFVEMDSHEEKVYQAVR+   R+A  KMREKAKEL+RQRME++K+  P +
Sbjct:   122 RESVNLAQIKTFVEMDSHEEKVYQAVRQTQERDARQKMREKAKELQRQRMEASKRGGPSL 181

Query:   236 GSGVGVGSNPY 246
             G G+G  S  +
Sbjct:   182 G-GIGSRSGGF 191

GO:0006890 "retrograde vesicle-mediated transport, Golgi to ER" evidence=ISS

GO:0030126 "COPI vesicle coat" evidence=ISS;NAS

GO:0030131 "clathrin adaptor complex" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0006911 "phagocytosis, engulfment" evidence=IMP

GO:0010883 "regulation of lipid storage" evidence=IDA

GO:0009306 "protein secretion" evidence=IMP

GO:0007436 "larval salivary gland morphogenesis" evidence=IMP

GO:0035158 "regulation of tube diameter, open tracheal system" evidence=IMP

MGI\|MGI:2387591 Arcn1 "archain 1" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

RGD\|1359110 Arcn1 "archain 1" [Rattus norvegicus (taxid:10116)]	Back alignment and assigned GO terms

UNIPROTKB\|I3LBY0 ARCN1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]	Back alignment and assigned GO terms

UNIPROTKB\|F1PRT4 ARCN1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

ZFIN\|ZDB-GENE-021031-2 arcn1a "archain 1a" [Danio rerio (taxid:7955)]	Back alignment and assigned GO terms

UNIPROTKB\|B0YIW6 ARCN1 "Archain 1, isoform CRA_a" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|P48444 ARCN1 "Coatomer subunit delta" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|P53619 ARCN1 "Coatomer subunit delta" [Bos taurus (taxid:9913)]	Back alignment and assigned GO terms

UNIPROTKB\|Q5ZL57 ARCN1 "Coatomer subunit delta" [Gallus gallus (taxid:9031)]	Back alignment and assigned GO terms

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)
Q66H80	COPD_RAT	No assigned EC number	0.4408	0.6661	0.7964	yes	N/A
Q5ZL57	COPD_CHICK	No assigned EC number	0.4450	0.6693	0.8019	yes	N/A
Q5RA77	COPD_PONAB	No assigned EC number	0.4444	0.6661	0.7964	yes	N/A
P48444	COPD_HUMAN	No assigned EC number	0.4426	0.6661	0.7964	yes	N/A
P53619	COPD_BOVIN	No assigned EC number	0.4516	0.6661	0.7964	yes	N/A
Q5XJY5	COPD_MOUSE	No assigned EC number	0.4408	0.6661	0.7964	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Alignment Graph	Length	Definition	E-value
Query		611
cd09254		232	cd09254, AP_delta-COPI_MHD, Mu homology domain (MH	2e-66
cd07954		239	cd07954, AP_MHD_Cterm, C-terminal domain of adapto	3e-19
pfam00928		228	pfam00928, Adap_comp_sub, Adaptor complexes medium	3e-04

>gnl\|CDD\|211365 cd09254, AP_delta-COPI_MHD, Mu homology domain (MHD) of adaptor protein (AP) coat protein I (COPI) delta subunit	Back alignment and domain information

 Score =  216 bits (553), Expect = 2e-66
 Identities = 82/142 (57%), Positives = 111/142 (78%), Gaps = 1/142 (0%)

Query: 470 IHLRQEEQLIISVGRNGGIETFELHGLLTLRISDEKYGRIKVLLANKDTRGIQMQTHPNV 529
           +H+  EE++  ++ R+GG+E+ E+ G L+LRI+DE+  +IK+ LAN D +G Q +THPNV
Sbjct: 3   VHITVEEKISATLSRDGGLESLEVKGTLSLRINDEELAKIKIQLANNDDKGFQFKTHPNV 62

Query: 530 DKELFKSKTEIGLKNPSKPFPLNNDIGVLKWRFTSTDESCLPLSINCWPSDNGSGGCDVN 589
           DK+LF S + +GLK+PSKPFP+N+ +GVLKWR  S DES LPL+INCWPS++G GG DV 
Sbjct: 63  DKKLFTSDSVLGLKDPSKPFPVNDPVGVLKWRLQSKDESLLPLTINCWPSESG-GGTDVT 121

Query: 590 IEYELEHEEKELNQVTISIPLP 611
           IEYEL  ++ ELN V ISIPLP
Sbjct: 122 IEYELNRDDLELNDVVISIPLP 143

COPI complex-coated vesicles function in the early secretory pathway. They mediate the retrograde transport from the Golgi to the ER, and intra-Golgi transport. COPI complex-coated vesicles consist of a small GTPase, ADP-ribosylation factor 1 (ARF1) and a heteroheptameric coatomer composed of two subcomplexes, F-COPI and B-COPI. ARF1 regulates COPI vesicle formation by recruiting the coatomer onto Golgi membranes to initiate its coat function. Coatomer complexes then bind cargo molecules and self-assemble to form spherical cages that yield COPI-coated vesicles. The heterotetrameric F-COPI subcomplex contains beta-, gamma-, delta-, and zeta-COP subunits, where beta- and gamma-COP subunits are related to the large AP subunits, and delta- and zeta-COP subunits are related to the medium and small AP subunits, respectively. Due to the sequence similarity to the AP complexes, the F-COPI subcomplex might play a role in the cargo-binding. The heterotrimeric B-COPI contains alpha-, beta-, and epsilon-COP subunits, which are not related to the adaptins. This subcomplex is thought to participate in the cage-forming and might serve a function similar to that of clathrin. This family corresponds to the mu homology domain of delta-subunit of COPI complex (delta-COP), which is distantly related to the C-terminal domain of mu chains among AP complexes. The delta-COP subunit appears tightly associated with the beta-COP subunit to confer its interaction with ARF1. In addition, both delta- and beta-COP subunits contribute to a common binding site for arginine (R)-based signals, which are sorting motifs conferring transient endoplasmic reticulum (ER) localization to unassembled subunits of multimeric membrane proteins. Length = 232

>gnl\|CDD\|211360 cd07954, AP_MHD_Cterm, C-terminal domain of adaptor protein (AP) complexes medium mu subunits and its homologs (MHD)	Back alignment and domain information

>gnl\|CDD\|216199 pfam00928, Adap_comp_sub, Adaptor complexes medium subunit family	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		611
KOG2635\|consensus		512		100.0
KOG0938\|consensus		446		100.0
KOG0937\|consensus		424		100.0
KOG2635\|consensus		512		99.97
KOG2740\|consensus		418		99.92
PF00928		262	Adap_comp_sub: Adaptor complexes medium subunit fa	99.92
PF01217		141	Clat_adaptor_s: Clathrin adaptor complex small cha	99.89
COG5030		152	APS2 Clathrin adaptor complex, small subunit [Intr	98.29
KOG0934\|consensus		145		98.0
KOG2677\|consensus		922		97.94
KOG0935\|consensus		143		97.79
KOG3343\|consensus		175		97.07
PF10291		257	muHD: Muniscin C-terminal mu homology domain; Inte	97.03
KOG0936\|consensus		182		96.87
PF01217		141	Clat_adaptor_s: Clathrin adaptor complex small cha	93.17
PF03164		415	Mon1: Trafficking protein Mon1; InterPro: IPR00435	92.25
PF08923		119	MAPKK1_Int: Mitogen-activated protein kinase kinas	87.71

>KOG2635\|consensus	Back alignment and domain information

Probab=100.00  E-value=4.3e-110  Score=875.27  Aligned_cols=413  Identities=55%  Similarity=0.864  Sum_probs=353.4

Q ss_pred             HHhhhhhhccCCCceeeeecccccchHHHHHHHhhhhhcccCCCcccEEEeCCEEEEEEecCCEEEEEEecCcchHHHHH
Q psy12905         59 KVCYLSRTCRSIGIAIVSRQFVEMTRARIEGLLAAFPKLMSSGKQHTFVETDSVRYVYQPLEKLYMLLITTKTSNILEDL  138 (611)
Q Consensus        59 mvvlaa~Il~~~Gk~LIsRqyrdisr~riE~lL~~FpkL~~~g~~ht~ve~e~VrYvY~p~~~lYlvliT~knSNI~~dl  138 (611)
                      |||+||+||++.||+++|||||||+|.|||+||++||+|+..|+||||||+++|||||||+|++|+||||+++|||++||
T Consensus         1 Mvvlaa~i~t~~Gk~ivsRqf~~Msr~RIEgLl~aFpkLv~~~~qhT~vEt~~VRYVYqP~d~lY~vLITtk~SNIleDl   80 (512)
T KOG2635|consen    1 MVVLAASINTKTGKAIVSRQFREMSRSRIEGLLAAFPKLVSAGKQHTFVETDSVRYVYQPLDNLYIVLITTKQSNILEDL   80 (512)
T ss_pred             CeEEEEEEeecCCceeeehHhHhhhHHHHHHHHHHhHHhhccCCCccEEecccEEEEEEecccEEEEEEeccccchhhHH
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhccCcchhhHhhhhHHHHHHHHHHHHcCcccccchhhhhHHhhccchhHHHHHHHHH---HHHHHHHH
Q psy12905        139 ETLRLFSRVIPEYCRTLDENEVTDNAFSLIFAFDEIVALGYRESVNLAQVRTFVEMDSHEEKVYQAVRK---REAENKMR  215 (611)
Q Consensus       139 ~~L~~l~~V~~~y~~~l~EesIrdNff~IyellDEivd~GypE~~~~~qvk~yi~meSheEki~~~i~~---~EAke~~k  215 (611)
                      +||++|++++++||.+++|++|.+|+|+|+++|||++++||+|++++.|||+|++|||||||||++|+|   +|||++||
T Consensus        81 ~TL~Lfskvipey~~slde~eI~~~~FelifAFDEivsLGyre~v~laQikty~eMdSHEEKi~e~v~~nke~ea~q~mk  160 (512)
T KOG2635|consen   81 ETLRLFSKVIPEYCSSLDEKEILENAFELIFAFDEIVSLGYRENVNLAQIKTYLEMDSHEEKIHELVMRNKEREAKQEMK  160 (512)
T ss_pred             HHHHHHHHhchhhhhhhhHHHHHHhhhhhhhccchhhhhcccccccHHHhhhhhccccHHHHHHHHHHHhhhHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999999   99999999


Q ss_pred             HHHHHHHHHHHhhhccCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccccccccccchhhhhhhhhhhhhhhhccccccCC
Q psy12905        216 EKAKELKRQRMESAKKFPKMGSGVGVGSNPYFGSSSYSSSPVTPVLESADISIRSSYIAQTVQREKKFRDIRIGRKSLEN  295 (611)
Q Consensus       216 rkAkel~~~r~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~g~~~~~~  295 (611)
                      ||||||+|+|+|+.|+++.  ..+|+.   .++++++++.+...+ .       ..+.+.+                 ..
T Consensus       161 rKaKElqr~r~ea~rrgg~--~~~~~~---~~~s~g~~~~s~~~~-~-------~~~~~~~-----------------~~  210 (512)
T KOG2635|consen  161 RKAKELQRARKEAERRGGS--LNPGFD---AIGSSGYSSVSTTNA-I-------NRVESIA-----------------QK  210 (512)
T ss_pred             HHHHHHHHHHHhhhccccc--cCCCcc---ccccccccCCcccch-h-------hcccccc-----------------cc
Confidence            9999999999999998742  223332   233333322221111 1       1111110                 00


Q ss_pred             CcchhhhhhhcccccCCcccchhhhccCCCCcchhhHHhhhhcCcccccCCcccccccccCCCCcccccCCCchhhhhhh
Q psy12905        296 ESYPLRIKIAQAILWKPAVSAKAMKLGSKSHDVESFVDQLKSEGEKVISGPALSKVSTLSSKIPTTNISNMDSYSIFLFT  375 (611)
Q Consensus       296 ~~~~~~~~~~~~~~~~~~~~~kgmkLG~k~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  375 (611)
                      .      + ..++++.+.+++|||+||+|.+..+.|+|+|++||+.+..++.  .....++.+|.               
T Consensus       211 ~------~-~~sa~~~~s~pak~mklG~k~~~s~~~~d~Lk~ege~ia~~~s--~~g~~s~aap~---------------  266 (512)
T KOG2635|consen  211 P------K-QQSAAKASSAPAKAMKLGKKTKNSDTFVDKLKGEGERIAGASS--AIGSASSAAPP---------------  266 (512)
T ss_pred             c------c-ccccccCCCCCchhhhhcccccchhhHHHHhhccccccccccc--cccccccCCCC---------------
Confidence            0      0 1112223445589999999998899999999999998776321  11111111110               


Q ss_pred             hhccCCCCCccccccccCCCcccccccccccccchhhHHHHHHHhhhhhhhhhhhhhhhccCCCcceeeeccceeeeecc
Q psy12905        376 LVMQVPKPRSFRFENTLKTPFATSVNYHVNFSHLNKLLSIMFLLHRIHLRQEEQLIISVGRNGGIETFELHGLLTLRISD  455 (611)
Q Consensus       376 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  455 (611)
                                                                             +                        
T Consensus       267 -------------------------------------------------------~------------------------  267 (512)
T KOG2635|consen  267 -------------------------------------------------------P------------------------  267 (512)
T ss_pred             -------------------------------------------------------C------------------------
Confidence                                                                   0                        


Q ss_pred             cccCCCCCCCcccceeEEEEEEEEEEEeecCceeEEEEEEEEEEEEecCCCCeEEEEecCCCCCCCccccCcccCccccc
Q psy12905        456 EKYGYFGDLGHRLQIHLRQEEQLIISVGRNGGIETFELHGLLTLRISDEKYGRIKVLLANKDTRGIQMQTHPNVDKELFK  535 (611)
Q Consensus       456 ~~~~~~~~~~~q~qVHV~IeEKIs~~lsRDG~V~s~EVkG~L~LrI~d~~~~~ikI~L~~~~~~~~qfKtHPnVDK~~F~  535 (611)
                           .++.++.+.|||.|+|||++.|+|||+|.|+|++|+|+|+|.|+++++|.|+|+++.++++||||||||||+.|.
T Consensus       268 -----~~p~v~~e~v~i~ieEkln~~~~RDGgi~s~E~qG~lsLrI~d~e~~~i~lkl~n~~~~g~q~ktHPNlDK~~f~  342 (512)
T KOG2635|consen  268 -----TAPDVPEESVHIVIEEKLNVRLSRDGGIKSGEVQGTLSLRIKDEEYGDIELKLANGRDKGTQLKTHPNLDKKVFL  342 (512)
T ss_pred             -----CCCCCccceEEEEEeeeEeEEEcccCCccceeeeeeEEEEEccccccceEEEEcCCCCcceeeeeCCCcchhhhc
Confidence                 233457777999999999999999999999999999999999999999999999988899999999999999999


Q ss_pred             CCCeEEeeCCCCCCCCCCceeeEEeeccCCCCCcCCeEEEEecCCCCCCceEEEEEEEeeccccccceeEEEccCC
Q psy12905        536 SKTEIGLKNPSKPFPLNNDIGVLKWRFTSTDESCLPLSINCWPSDNGSGGCDVNIEYELEHEEKELNQVTISIPLP  611 (611)
Q Consensus       536 s~~iL~LKdp~K~FPvn~~vgVLKWR~~~~Des~lPLsIncWpse~~dg~~~V~IEYEl~~~~~~L~dV~I~IPlP  611 (611)
                      +.++|+||+|+|+||+|++|||||||++..||+.+||+|||||+++++ +|+|+||||+ ..+.+|+||.|+||+|
T Consensus       343 s~s~iglk~~~K~FPvn~~VGvLkWR~~~~des~iPlTincWPSes~~-g~dV~iEYe~-~~~~eL~dV~i~iPlP  416 (512)
T KOG2635|consen  343 SSSLIGLKRPEKPFPVNSDVGVLKWRMVDEDESEIPLTINCWPSESGN-GYDVNIEYEA-VLECELNDVIITIPLP  416 (512)
T ss_pred             cccccccccCCCCCCcCCcceEEEEeecccccccCceEEEeccccCCC-CeEEEEEEee-hhcccccceEEEeecc
Confidence            999999999999999999999999999999999999999999999995 5999999999 4558899999999998

>KOG0938\|consensus	Back alignment and domain information

>KOG0937\|consensus	Back alignment and domain information

>KOG2635\|consensus	Back alignment and domain information

>KOG2740\|consensus	Back alignment and domain information

>PF00928 Adap_comp_sub: Adaptor complexes medium subunit family; InterPro: IPR008968 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	Back alignment and domain information

>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	Back alignment and domain information

>COG5030 APS2 Clathrin adaptor complex, small subunit [Intracellular trafficking and secretion]	Back alignment and domain information

>KOG0934\|consensus	Back alignment and domain information

>KOG2677\|consensus	Back alignment and domain information

>KOG0935\|consensus	Back alignment and domain information

>KOG3343\|consensus	Back alignment and domain information

>PF10291 muHD: Muniscin C-terminal mu homology domain; InterPro: IPR018808 The muniscins are a family of endocytic adaptors that is conserved from yeast to humans	Back alignment and domain information

>KOG0936\|consensus	Back alignment and domain information

>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	Back alignment and domain information

>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	Back alignment and domain information

>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	Back alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		611
2vgl_S		142	AP-2 complex subunit sigma-1; cytoplasmic vesicle,	5e-31
2vgl_S		142	AP-2 complex subunit sigma-1; cytoplasmic vesicle,	2e-11
1w63_M		423	Adaptor-related protein complex 1, MU 1 subunit; e	1e-18
1w63_Q		158	Adapter-related protein complex 1 sigma 1A subunit	9e-16
1w63_Q		158	Adapter-related protein complex 1 sigma 1A subunit	1e-04
3l81_A		301	AP-4 complex subunit MU-1; immunoglobulin-like bet	3e-13
4en2_M		266	AP-1 complex subunit MU-1; human immunodeficiency	1e-12
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-11
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-10
1i31_A		314	Clathrin coat assembly protein AP50; beta-sandwich	1e-10
2vgl_M		435	AP-2 complex subunit MU-1; cytoplasmic vesicle, al	6e-09
2vgl_M		435	AP-2 complex subunit MU-1; cytoplasmic vesicle, al	3e-07
3ml6_A		385	Chimeric complex between protein dishevlled2 HOMO	2e-07

>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	Back alignment and structure

 Score =  116 bits (293), Expect = 5e-31
 Identities = 25/131 (19%), Positives = 54/131 (41%), Gaps = 3/131 (2%)

Query: 71  GIAIVSRQFVEMTRARIEGLLAAFPKLMSS--GKQHTFVETDSVRYVYQPLEKLYMLLIT 128
           G   +++ +++      + L+     +++    K   FVE  + + +Y+    LY  +  
Sbjct: 12  GKTRLAKWYMQFDDDEKQKLIEEVHAVVTVRDAKHTNFVEFRNFKIIYRRYAGLYFCICV 71

Query: 129 TKTSNILEDLETLRLFSRVIPEYCRTLDENEVTDNAFSLIFAFDEIVALGYRESVNLAQV 188
               N L  LE +  F  V+ EY   + E ++  N + +    DE+   G     +  +V
Sbjct: 72  DVNDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNFYKVYTVVDEMFLAGEIRETSQTKV 131

Query: 189 -RTFVEMDSHE 198
            +  + + S E
Sbjct: 132 LKQLLMLQSLE 142

PyMOL of 2vgl

>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	Back alignment and structure

>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 Length = 423	Back alignment and structure

>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	Back alignment and structure

>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	Back alignment and structure

>3l81_A AP-4 complex subunit MU-1; immunoglobulin-like beta-sandwich, coated PIT, golgi apparat membrane, phosphoprotein, protein transport, transport; 1.60A {Homo sapiens} Length = 301	Back alignment and structure

>4en2_M AP-1 complex subunit MU-1; human immunodeficiency virus 1, HIV, NEF, antigen presentation, HOST defense, adaptor protein complex 1, MU1 subunit; 2.58A {Mus musculus} PDB: 4emz_A Length = 266	Back alignment and structure

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221	Back alignment and structure

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221	Back alignment and structure

>1i31_A Clathrin coat assembly protein AP50; beta-sandwich, peptide-binding site, protein-peptide complex, clathrin adaptor; 2.50A {Rattus norvegicus} SCOP: b.2.7.1 PDB: 1bw8_A 2pr9_A 3h85_A 1bxx_A 1hes_A 1h6e_A Length = 314	Back alignment and structure

>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	Back alignment and structure

>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	Back alignment and structure

>3ml6_A Chimeric complex between protein dishevlled2 HOMO and clathrin adaptor AP-2 complex...; dishevelled, frizzled internalization; 3.50A {Mus musculus} Length = 385	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		611
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	100.0
1w63_Q		158	Adapter-related protein complex 1 sigma 1A subunit	99.96
2vgl_S		142	AP-2 complex subunit sigma-1; cytoplasmic vesicle,	99.95
4en2_M		266	AP-1 complex subunit MU-1; human immunodeficiency	99.94
1i31_A		314	Clathrin coat assembly protein AP50; beta-sandwich	99.93
3l81_A		301	AP-4 complex subunit MU-1; immunoglobulin-like bet	99.93
3ml6_A		385	Chimeric complex between protein dishevlled2 HOMO	99.93
3tjz_C		153	Coatomer subunit zeta-1; protein trafficking, golg	99.87
2vgl_M		435	AP-2 complex subunit MU-1; cytoplasmic vesicle, al	97.03
1w63_M		423	Adaptor-related protein complex 1, MU 1 subunit; e	96.88
3g9h_A		328	Suppressor of yeast profilin deletion; SYP1, MU, a	96.61
1w63_Q		158	Adapter-related protein complex 1 sigma 1A subunit	96.14
2vgl_S		142	AP-2 complex subunit sigma-1; cytoplasmic vesicle,	95.34
3cpt_A		143	Mitogen-activated protein kinase kinase 1- interac	87.24
2j3w_A		142	Sedlin, trafficking protein particle complex prote	84.42

>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	Back alignment and structure

Probab=100.00  E-value=2.5e-53  Score=454.36  Aligned_cols=297  Identities=17%  Similarity=0.251  Sum_probs=239.9

Q ss_pred             hhhhhhccCCCceeeeeccc-ccchHHHHHHHhhhhhcccC---CCcccEEEeCCEEEEEEecCCEEEEEEecCcchHHH
Q psy12905         61 CYLSRTCRSIGIAIVSRQFV-EMTRARIEGLLAAFPKLMSS---GKQHTFVETDSVRYVYQPLEKLYMLLITTKTSNILE  136 (611)
Q Consensus        61 vlaa~Il~~~Gk~LIsRqyr-disr~riE~lL~~FpkL~~~---g~~ht~ve~e~VrYvY~p~~~lYlvliT~knSNI~~  136 (611)
                      +.|++|+|++||++++|+|+ +++++.++    .|++++..   ..++|+++.++++|+|+++++||++++|+.|+|++.
T Consensus         2 I~~i~I~~~~Gk~~l~k~y~~~~~~~~~~----~f~~~v~~~~~~~~~~ii~~~~~~~vy~~~~~Lyfv~~~~~~~n~l~   77 (435)
T 2vgl_M            2 IGGLFIYNHKGEVLISRVYRDDIGRNAVD----AFRVNVIHARQQVRSPVTNIARTSFFHVKRSNIWLAAVTKQNVNAAM   77 (435)
T ss_dssp             CCEEEEECTTCCEEEEEECSSSCCHHHHH----HHHHHTTTCSSCCCCSEEEETTEEEEEEEETTEEEEEEESSCCCHHH
T ss_pred             eEEEEEECCCCCEEEEEecCCCCChhHHH----HHHHHHhccccCCCCCEEEECCEEEEEEEECCEEEEEEecCCCCHHH
Confidence            46889999999999999999 78876654    68777543   267899999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhccCcchhhHhhhhHHHHHHHHHHHHcCcccccchhhhhHHhhccchhHHHHHHHHHHHHHHHHHH
Q psy12905        137 DLETLRLFSRVIPEYCRTLDENEVTDNAFSLIFAFDEIVALGYRESVNLAQVRTFVEMDSHEEKVYQAVRKREAENKMRE  216 (611)
Q Consensus       137 dl~~L~~l~~V~~~y~~~l~EesIrdNff~IyellDEivd~GypE~~~~~qvk~yi~meSheEki~~~i~~~EAke~~kr  216 (611)
                      +|+|||+|++++.+||+.++|++|++||+.+|++||||||+||||.++.++|++|++|++|++|++.             
T Consensus        78 ~le~L~~~v~vl~~yf~~v~E~~I~~Nf~~vy~lLDE~id~G~~~~t~~~~l~~~i~~~~~~~~~~~-------------  144 (435)
T 2vgl_M           78 VFEFLYKMCDVMAAYFGKISEENIKNNFVLIYELLDEILDFGYPQNSETGALKTFITQQGIKSQHQT-------------  144 (435)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCHHHHHHTHHHHHHHHHHHEETTEECCCCHHHHGGGCCCCCCCCC----------------
T ss_pred             HHHHHHHHHHHHHHHHhccCHHHHHHhHHHHHHHHHHHhcCCEEEecCHHHHHHHhccccccccccc-------------
Confidence            9999999999999999999999999999999999999999999999999999999999999988531             


Q ss_pred             HHHHHHHHHHhhhccCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccccccccccchhhhhhhhhhhhhhhhccccccCCC
Q psy12905        217 KAKELKRQRMESAKKFPKMGSGVGVGSNPYFGSSSYSSSPVTPVLESADISIRSSYIAQTVQREKKFRDIRIGRKSLENE  296 (611)
Q Consensus       217 kAkel~~~r~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~g~~~~~~~  296 (611)
                        ++       .    ..                .    +  +.   +          .                     
T Consensus       145 --~~-------~----~~----------------~----~--~~---~----------~---------------------  155 (435)
T 2vgl_M          145 --KE-------E----QS----------------Q----I--TS---Q----------V---------------------  155 (435)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             --cc-------c----cc----------------c----c--cc---c----------c---------------------
Confidence              00       0    00                0    0  00   0          0                     


Q ss_pred             cchhhhhhhcccccCCcccchhhhccCCCCcchhhHHhhhhcCcccccCCcccccccccCCCCcccccCCCchhhhhhhh
Q psy12905        297 SYPLRIKIAQAILWKPAVSAKAMKLGSKSHDVESFVDQLKSEGEKVISGPALSKVSTLSSKIPTTNISNMDSYSIFLFTL  376 (611)
Q Consensus       297 ~~~~~~~~~~~~~~~~~~~~kgmkLG~k~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  376 (611)
                              ..+.+|.+                                                                
T Consensus       156 --------~~~i~wr~----------------------------------------------------------------  163 (435)
T 2vgl_M          156 --------TGQIGWRR----------------------------------------------------------------  163 (435)
T ss_dssp             -----------CCSSC----------------------------------------------------------------
T ss_pred             --------cccccccc----------------------------------------------------------------
Confidence                    00011110                                                                


Q ss_pred             hccCCCCCccccccccCCCcccccccccccccchhhHHHHHHHhhhhhhhhhhhhhhhccCCCcceeeeccceeeeeccc
Q psy12905        377 VMQVPKPRSFRFENTLKTPFATSVNYHVNFSHLNKLLSIMFLLHRIHLRQEEQLIISVGRNGGIETFELHGLLTLRISDE  456 (611)
Q Consensus       377 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  456 (611)
                                                                                   .|                 
T Consensus       164 -------------------------------------------------------------~g-----------------  165 (435)
T 2vgl_M          164 -------------------------------------------------------------EG-----------------  165 (435)
T ss_dssp             -------------------------------------------------------------SC-----------------
T ss_pred             -------------------------------------------------------------cc-----------------
Confidence                                                                         00                 


Q ss_pred             ccCCCCCCCcccceeEEEEEEEEEEEeecCceeEEEEEEEEEEEEecCCCCeEEEEecCCC-----------------CC
Q psy12905        457 KYGYFGDLGHRLQIHLRQEEQLIISVGRNGGIETFELHGLLTLRISDEKYGRIKVLLANKD-----------------TR  519 (611)
Q Consensus       457 ~~~~~~~~~~q~qVHV~IeEKIs~~lsRDG~V~s~EVkG~L~LrI~d~~~~~ikI~L~~~~-----------------~~  519 (611)
                            .+-.+++|||+|.|+|++.++++|.+.+++|+|+|+|+++++|+|.++|.|++..                 ..
T Consensus       166 ------i~~~~nei~vdV~E~v~~~~~~~G~v~~~eV~G~I~~~~~LsG~P~~~l~ln~~~~~~~~~~~~~~~~~~~~~~  239 (435)
T 2vgl_M          166 ------IKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQ  239 (435)
T ss_dssp             ------CCCSSCEEEEEEEEEEEEEECTTCCEEEEEEEEEEEEEEECSSCCEEEEEECSSSCC-----------------
T ss_pred             ------CCcCcceEEEEEEEEEEEEEcCCCCEEEEEEEEEEEEEEEeCCCCeEEEEeCchhhcccccccccccccccccC
Confidence                  0124678999999999999999999999999999999999999999999998640                 12


Q ss_pred             C---CccccCcccCcccccCCCeEEeeCCCCCCCCCCceeeEEeeccCCCCCcCCeEEEEecCCCCCCceEEEEEEEee-
Q psy12905        520 G---IQMQTHPNVDKELFKSKTEIGLKNPSKPFPLNNDIGVLKWRFTSTDESCLPLSINCWPSDNGSGGCDVNIEYELE-  595 (611)
Q Consensus       520 ~---~qfKtHPnVDK~~F~s~~iL~LKdp~K~FPvn~~vgVLKWR~~~~Des~lPLsIncWpse~~dg~~~V~IEYEl~-  595 (611)
                      +   +||+||||||++.|+++++|+|+||||+|++      |+||+++  +..+||+|+||+++.++  +  ++||++. 
T Consensus       240 ~~~l~d~~fH~cV~~~~f~~~r~isF~PPdg~F~L------m~Yr~~~--~~~~P~~i~~~~~~~~~--~--~ve~~l~~  307 (435)
T 2vgl_M          240 SIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFEL------MRYRTTK--DIILPFRVIPLVREVGR--T--KLEVKVVI  307 (435)
T ss_dssp             CCCCCEEEECTTEEEC-----CCEEECCCSEEEEE------EEEEECS--SCCCSEEEEEEEECCTT--T--EEEEEEEE
T ss_pred             ceEccccccceeecHhHhccCceEEEECCCCcEEE------EEEEecC--CcCCCeEEEEEEEecCC--C--EEEEEEEE
Confidence            2   5999999999999999999999999999987      9999987  57799999999998764  3  3555553 


Q ss_pred             -c---cccccceeEEEccCC
Q psy12905        596 -H---EEKELNQVTISIPLP  611 (611)
Q Consensus       596 -~---~~~~L~dV~I~IPlP  611 (611)
                       .   ....++||.|.||+|
T Consensus       308 ~~~~~~~~~~~~V~I~IP~P  327 (435)
T 2vgl_M          308 KSNFKPSLLAQKIEVRIPTP  327 (435)
T ss_dssp             EECSCTTSEEEEEEEEEECC
T ss_pred             eCCCCCCceeeEEEEEEECC
Confidence             2   225699999999998

PyMOL of 2vgl

>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	Back alignment and structure

>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	Back alignment and structure

>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	Back alignment and structure

>4en2_M AP-1 complex subunit MU-1; human immunodeficiency virus 1, HIV, NEF, antigen presentation, HOST defense, adaptor protein complex 1, MU1 subunit; 2.58A {Mus musculus} PDB: 4emz_A	Back alignment and structure

>1i31_A Clathrin coat assembly protein AP50; beta-sandwich, peptide-binding site, protein-peptide complex, clathrin adaptor; 2.50A {Rattus norvegicus} SCOP: b.2.7.1 PDB: 1bw8_A 2pr9_A 3h85_A 1bxx_A 1hes_A 1h6e_A	Back alignment and structure

>3l81_A AP-4 complex subunit MU-1; immunoglobulin-like beta-sandwich, coated PIT, golgi apparat membrane, phosphoprotein, protein transport, transport; 1.60A {Homo sapiens}	Back alignment and structure

>3ml6_A Chimeric complex between protein dishevlled2 HOMO and clathrin adaptor AP-2 complex...; dishevelled, frizzled internalization; 3.50A {Mus musculus}	Back alignment and structure

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

>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	Back alignment and structure

>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	Back alignment and structure

>3g9h_A Suppressor of yeast profilin deletion; SYP1, MU, adaptor, endocytosis, phosphoprotein; HET: 1PG; 2.80A {Saccharomyces cerevisiae}	Back alignment and structure

>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	Back alignment and structure

>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	Back alignment and structure

>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	Back alignment and structure

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

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Alignment Graph	Length	Definition	E-value
Query		611
d2vgls_		142	d.110.4.2 (S:) Sigma2 adaptin (clathrin coat assem	1e-25
d2vgls_		142	d.110.4.2 (S:) Sigma2 adaptin (clathrin coat assem	4e-08
d2vglm2		141	d.110.4.2 (M:1-141) Mu2 adaptin (clathrin coat ass	3e-24
d2vglm2		141	d.110.4.2 (M:1-141) Mu2 adaptin (clathrin coat ass	2e-10
d2pr9a1		277	b.2.7.1 (A:159-435) Second domain of Mu2 adaptin s	2e-19

>d2pr9a1 b.2.7.1 (A:159-435) Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 277	Back information, alignment and structure

Homologous Domains Detected by HHsearch

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

ID	Alignment Graph	Length	Definition	Probability
Query		611
d2vglm2		141	Mu2 adaptin (clathrin coat assembly protein AP50)	99.96
d2vgls_		142	Sigma2 adaptin (clathrin coat assembly protein AP1	99.93
d2pr9a1		277	Second domain of Mu2 adaptin subunit (ap50) of ap2	99.88
d2vglm2		141	Mu2 adaptin (clathrin coat assembly protein AP50)	96.81
d2vgls_		142	Sigma2 adaptin (clathrin coat assembly protein AP1	96.31
d3cpta1		116	MEK binding partner 1, MP1 {Human (Homo sapiens) [	88.47

>d2pr9a1 b.2.7.1 (A:159-435) Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor {Rat (Rattus norvegicus) [TaxId: 10116]}	Back information, alignment and structure

class: All beta proteins
fold: Common fold of diphtheria toxin/transcription factors/cytochrome f
superfamily: Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor
family: Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor
domain: Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.88  E-value=6.6e-23  Score=204.34  Aligned_cols=138  Identities=17%  Similarity=0.240  Sum_probs=118.8

Q ss_pred             cccceeEEEEEEEEEEEeecCceeEEEEEEEEEEEEecCCCCeEEEEecCCCC--------------------CCCcccc
Q psy12905        466 HRLQIHLRQEEQLIISVGRNGGIETFELHGLLTLRISDEKYGRIKVLLANKDT--------------------RGIQMQT  525 (611)
Q Consensus       466 ~q~qVHV~IeEKIs~~lsRDG~V~s~EVkG~L~LrI~d~~~~~ikI~L~~~~~--------------------~~~qfKt  525 (611)
                      .+|+|+|+|.|+++|.++++|.+.+.+|+|.|.++++++|.|.++|.|+++..                    .-.+++|
T Consensus        11 ~~NEi~vDV~E~i~~~~~~~G~~~~~~V~G~I~~~s~LsG~P~~~l~Ln~~~~~~~~~~~~~~~~~~~~~~~~~l~d~~f   90 (277)
T d2pr9a1          11 RRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDDCTF   90 (277)
T ss_dssp             SSCEEEEEEEEEEEEEECTTSCEEEEEEEEEEEEEEECSSSCEEEEEESBC------------------CCCBCCSEEEE
T ss_pred             cCCEEEEEEEEEEEEEECCCCCEEEEEEEEEEEEEEecCCCCeEEEEecchhhcccccccccccccccccCceEccceee
Confidence            67899999999999999999999999999999999999999999999986421                    1157999


Q ss_pred             CcccCcccccCCCeEEeeCCCCCCCCCCceeeEEeeccCCCCCcCCeEEEEecCCCCCCceEEEEEEEee-cccccccee
Q psy12905        526 HPNVDKELFKSKTEIGLKNPSKPFPLNNDIGVLKWRFTSTDESCLPLSINCWPSDNGSGGCDVNIEYELE-HEEKELNQV  604 (611)
Q Consensus       526 HPnVDK~~F~s~~iL~LKdp~K~FPvn~~vgVLKWR~~~~Des~lPLsIncWpse~~dg~~~V~IEYEl~-~~~~~L~dV  604 (611)
                      |||||++.|+++++|+++||++.|++      |+||...  +..+||.+.||+...+++.++++|++..+ .....+.||
T Consensus        91 H~cV~~~~f~~~~~i~F~PPdG~F~L------m~Y~~~~--~~~~P~~i~~~~~~~~~~~~~~~i~l~~~~~~~~~~~~v  162 (277)
T d2pr9a1          91 HQCVRLSKFDSERSISFIPPDGEFEL------MRYRTTK--DIILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKI  162 (277)
T ss_dssp             CTTSBCC-----CCEEECCCSEEEEE------EEEEECS--SCCCCEEEEEEEEEETTTEEEEEEEEEECSCTTCEEEEE
T ss_pred             eeccccccccccceEeecCCCCcEEE------EEEEcCC--CcCCCcEEEEEEEeccCcEEEEEEEEEeccCCCeeeeEE
Confidence            99999999999999999999999998      9999876  67799999999988776788888888876 345689999


Q ss_pred             EEEccCC
Q psy12905        605 TISIPLP  611 (611)
Q Consensus       605 ~I~IPlP  611 (611)
                      .|.||+|
T Consensus       163 ~I~iP~P  169 (277)
T d2pr9a1         163 EVRIPTP  169 (277)
T ss_dssp             EEEEECC
T ss_pred             EEEeeCC
Confidence            9999998

PyMOL of d2pr9a1

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