Psyllid ID: psy12313

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 (MEMSAT_SVM) ?
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-------49
MALKTADSKLCQLRLDINYISDYNFTFNDTVDKPSENISAVYNISAVNNLTNLFYITSDVFRSHSLIFKINEEVNLKISSSNDTENELDHDFEADFLLEKHIKQIISLVYFQVLYLHFVSTFNVLSMFSVKLNNGYMKIMDDETKTHWTNRLPKVSNHLKEKKKHDLMIGKNITLVLNNLLKNYQSSEPPNHGKGEPTIIKTNMLIRSMGPISEIDMDYSMDCYFRQYWRDSRLSFMGPINNLSLSIKMLEKIWRPDTYILNGKQSYVHTITVPNKLLRINQDGDILYSMRLTIKANCPMSLRNFPMDTQSCPLILGSYAYPIEKLVYHWTPGKSISFVPGMAISQFDFISSPKRNFTFKRREGEFSLLQVNFNLKRHRGYFVIQVYVPCVLIVVLSWVSFWIHREATSDRIGLGITTVLTLSTISLDSRTDLPKVRYATALDWFLLMSFFYCIATILEFAAVHYFTKLCYPGYPSGFIERLPVIGLD
ccccccccccEEEEEEccEEccccEEcccccccccccccEEEEEEccccccEEEEEEEccccHHHHHHHccccccccccccccccccccccccHHHHHHHHHHHHHHHEEEEEEEEHHHHHHHHHHHHcccccccEEEEEccccccccccccccccccccccccccccccccHHHHHHHHHHcccccccccccccccEEEEEEEEEEEccccccccccEEEEEEEEEEEEccccccccccccEEccHHHHccccccccEEEcccccEEEEcccccEEEEEEccccEEEEEEEEEEEEcccccccccccccccccEEEEcccccccEEEEEccccccccccccccccEEEEEEcEEEEEEEEcccEEEEEEEEEEEEEEccEEEHHHHcccHHHHHHEEHHHccccccccccEEEcHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHEEEccccccccccccccccccccc
cccccHcHHHHHHEEcHHHHcccccccccccccccccEEEEEEHHHHHHHHcHEEEEcHHHcccEEEEEEccEEEEEEEccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEEEccccccccccccHHHccccccccccccccccccHccccccccccccccHHHHHHHHHccccccccccccccccEEEEEEEEEEEcccccEcccEEEEEEEEEEEccccccccccccccccccHHHHHHcccccEEEEcccccEEEccccccEEEEEccccEEEEEEEEEEEEcccccccccccccccccEEEEEcccccccEEEEEccccccccccccEEcEEEEEEEEcEEEEEEEccccEEEEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHcccHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHccccccccc
MALKTADSKLCQLRLDINyisdynftfndtvdkpsenisAVYNISavnnltnlfyitsdvfrshsLIFKINEEvnlkisssndteneldhdfEADFLLEKHIKQIISLVYFQVLYLHFVSTFNVLSMFSVKLNngymkimddetkthwtnrlpkvSNHLkekkkhdlmiGKNITLVLNNLLknyqsseppnhgkgeptiikTNMLIrsmgpiseidmdysmdcyfRQYWRdsrlsfmgpinnLSLSIKMLEKiwrpdtyilngkqsyvhtitvpnkllrinqdgdilySMRLTikancpmslrnfpmdtqscplilgsyaypIEKLVyhwtpgksisfvpgmaisqfdfisspkrnftfkrrEGEFSLLQVNFnlkrhrgyFVIQVYVPCVLIVVLSWVSFWIHReatsdriglGITTVLTLSTisldsrtdlpkvrYATALDWFLLMSFFYCIATILEFAAVHYFTklcypgypsgfierlpvigld
malktadsklcQLRLDINYISDYNFTFNDTVDKPSENISAVYNISAVNNLTNLFYITSDVFRSHSLIFKINEEVNLKISSSNDTENELDHDFEADFLLEKHIKQIISLVYFQVLYLHFVSTFNVLSMFSVKLNNGYMKIMDDetkthwtnrlpkvsnhlkekkkhdlmiGKNITLVLNNLLKNyqsseppnhgkgeptiIKTNMLIRSMGPISEIDMDYSMDCYFRQYWRDSRLSFMGPINNLSLSIKMLEKIWRPDTYILNGKQSYVHTitvpnkllrinQDGDILYSMRLTIKANCPMSLRNFPMDTQSCPLILGSYAYPIEKLVYHWTPGKSISFVPGMAISQFDFISSPKRNFTFKRREGEFSLLQVNFNLKRHRGYFVIQVYVPCVLIVVLSWVSFWIHREatsdriglgiTTVLTLStisldsrtdlpKVRYATALDWFLLMSFFYCIATILEFAAVHYFTKLCYPGYPSGFIERLPVIGLD
MALKTADSKLCQLRLDINYISDYNFTFNDTVDKPSENISAVYNISAVNNLTNLFYITSDVFRSHSLIFKINEEVNLKISSSNDTENELDHDFEADFLLEKHIKQIISLVYFQVLYLHFVSTFNVLSMFSVKLNNGYMKIMDDETKTHWTNRLPKVSNHLKEKKKHDLMIGKNITLVLNNLLKNYQSSEPPNHGKGEPTIIKTNMLIRSMGPISEIDMDYSMDCYFRQYWRDSRLSFMGPINNLSLSIKMLEKIWRPDTYILNGKQSYVHTITVPNKLLRINQDGDILYSMRLTIKANCPMSLRNFPMDTQSCPLILGSYAYPIEKLVYHWTPGKSISFVPGMAISQFDFISSPKRNFTFKRREGEFSLLQVNFNLKRHRGYFVIQVYVPCVLIVVLSWVSFWIHREATSDRiglgittvltlstislDSRTDLPKVRYATALDWFLLMSFFYCIATILEFAAVHYFTKLCYPGYPSGFIERLPVIGLD
********KLCQLRLDINYISDYNFTFNDTVDKPSENISAVYNISAVNNLTNLFYITSDVFRSHSLIFKINEEVNLKI*********LDHDFEADFLLEKHIKQIISLVYFQVLYLHFVSTFNVLSMFSVKLNNGYMKIMDDETKTHWTNRLPKVSNHLK*KKKHDLMIGKNITLVLNNLLKNY**************IIKTNMLIRSMGPISEIDMDYSMDCYFRQYWRDSRLSFMGPINNLSLSIKMLEKIWRPDTYILNGKQSYVHTITVPNKLLRINQDGDILYSMRLTIKANCPMSLRNFPMDTQSCPLILGSYAYPIEKLVYHWTPGKSISFVPGMAISQFDFISSPKRNFTFKRREGEFSLLQVNFNLKRHRGYFVIQVYVPCVLIVVLSWVSFWIHREATSDRIGLGITTVLTLSTISLDSRTDLPKVRYATALDWFLLMSFFYCIATILEFAAVHYFTKLCYPGYPSGFIERLPVI***
********KLCQLRLDINYISDYNFTFNDTVDKPSENISAVYNISAVNNLTNLFYITSDVFRSHSLIF************************EADFLLEKHIKQIISLVYFQVLYLHFVSTFNVLSMFSVKLNNGYMKIMDDETK*****************************LVLNNLLKNYQSSEPPNHGKGEPTIIKTNMLIRSMGPISEIDMDYSMDCYFRQYWRDSRLSFMGPINNLSLSIKMLEKIWRPDTYILNGKQSYVHTITVPNKLLRINQDGDILYSMRLTIKANCPMSLRNFPMDTQSCPLILGSYAYPIEKLVYHWTPGKSISFVPGMAISQFDFISSPKRNFTFKRREGEFSLLQVNFNLKRHRGYFVIQVYVPCVLIVVLSWVSFWIHREATSDRIGLGITTVLTLSTISLDSRTDLPKVRYATALDWFLLMSFFYCIATILEFAAVHYF**********************
MALKTADSKLCQLRLDINYISDYNFTFNDTVDKPSENISAVYNISAVNNLTNLFYITSDVFRSHSLIFKINEEVNLKISSSNDTENELDHDFEADFLLEKHIKQIISLVYFQVLYLHFVSTFNVLSMFSVKLNNGYMKIMDDETKTHWTNRLPKVSNHLKEKKKHDLMIGKNITLVLNNLLKNYQSSEPPNHGKGEPTIIKTNMLIRSMGPISEIDMDYSMDCYFRQYWRDSRLSFMGPINNLSLSIKMLEKIWRPDTYILNGKQSYVHTITVPNKLLRINQDGDILYSMRLTIKANCPMSLRNFPMDTQSCPLILGSYAYPIEKLVYHWTPGKSISFVPGMAISQFDFISSPKRNFTFKRREGEFSLLQVNFNLKRHRGYFVIQVYVPCVLIVVLSWVSFWIHREATSDRIGLGITTVLTLSTISLDSRTDLPKVRYATALDWFLLMSFFYCIATILEFAAVHYFTKLCYPGYPSGFIERLPVIGLD
***KTADSKLCQLRLDINYISDYNFTFNDTVDKPSENISAVYNISAVNNLTNLFYITSDVFRSHSLIFKINEEVNLKISSS****NELDHDFEADFLLEKHIKQIISLVYFQVLYLHFVSTFNVLSMFSVKLNNGYMKIMD*****************************KNITLVLNNLLKNYQSSEPPNHGKGEPTIIKTNMLIRSMGPISEIDMDYSMDCYFRQYWRDSRLSFMGPINNLSLSIKMLEKIWRPDTYILNGKQSYVHTITVPNKLLRINQDGDILYSMRLTIKANCPMSLRNFPMDTQSCPLILGSYAYPIEKLVYHWTPGKSISFVPGMAISQFDFISSPKRNFTFKRREGEFSLLQVNFNLKRHRGYFVIQVYVPCVLIVVLSWVSFWIHREATSDRIGLGITTVLTLSTISLDSRTDLPKVRYATALDWFLLMSFFYCIATILEFAAVHYFTKLCY*GYPS************
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MALKTADSKLCQLRLDINYISDYNFTFNDTVDKPSENISAVYNISAVNNLTNLFYITSDVFRSHSLIFKINEEVNLKISSSNDTENELDHDFEADFLLEKHIKQIISLVYFQVLYLHFVSTFNVLSMFSVKLNNGYMKIMDDETKTHWTNRLPKVSNHLKEKKKHDLMIGKNITLVLNNLLKNYQSSEPPNHGKGEPTIIKTNMLIRSMGPISEIDMDYSMDCYFRQYWRDSRLSFMGPINNLSLSIKMLEKIWRPDTYILNGKQSYVHTITVPNKLLRINQDGDILYSMRLTIKANCPMSLRNFPMDTQSCPLILGSYAYPIEKLVYHWTPGKSISFVPGMAISQFDFISSPKRNFTFKRREGEFSLLQVNFNLKRHRGYFVIQVYVPCVLIVVLSWVSFWIHREATSDRIGLGITTVLTLSTISLDSRTDLPKVRYATALDWFLLMSFFYCIATILEFAAVHYFTKLCYPGYPSGFIERLPVIGLD
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 ?
Query488 2.2.26 [Sep-21-2011]
Q16445 453 Gamma-aminobutyric acid r yes N/A 0.610 0.657 0.490 1e-83
P16305 453 Gamma-aminobutyric acid r yes N/A 0.610 0.657 0.486 1e-83
P30191 453 Gamma-aminobutyric acid r yes N/A 0.610 0.657 0.483 5e-83
Q90845 465 Gamma-aminobutyric acid r yes N/A 0.610 0.640 0.490 7e-83
P48169 554 Gamma-aminobutyric acid r no N/A 0.631 0.555 0.464 4e-82
P20237 555 Gamma-aminobutyric acid r no N/A 0.631 0.554 0.464 5e-82
Q9D6F4 552 Gamma-aminobutyric acid r no N/A 0.631 0.557 0.464 7e-82
P28471 552 Gamma-aminobutyric acid r no N/A 0.631 0.557 0.464 1e-81
P23576451 Gamma-aminobutyric acid r no N/A 0.635 0.687 0.454 1e-76
Q5RCC5451 Gamma-aminobutyric acid r no N/A 0.635 0.687 0.451 2e-75
>sp|Q16445|GBRA6_HUMAN Gamma-aminobutyric acid receptor subunit alpha-6 OS=Homo sapiens GN=GABRA6 PE=2 SV=2 Back     alignment and function desciption
 Score =  311 bits (796), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 148/302 (49%), Positives = 207/302 (68%), Gaps = 4/302 (1%)

Query: 171 KNITLVLNNLLKNYQSSEPPNHGKGEPTIIKTNMLIRSMGPISEIDMDYSMDCYFRQYWR 230
           +N++ +L+NLL+ Y +   P  G G  T +KT++ + S GP+S+++M+Y+MD +FRQ W 
Sbjct: 30  ENVSRILDNLLEGYDNRLRPGFG-GAVTEVKTDIYVTSFGPVSDVEMEYTMDVFFRQTWT 88

Query: 231 DSRLSFMGPINNLSLSIKMLEKIWRPDTYILNGKQSYVHTITVPNKLLRINQDGDILYSM 290
           D RL F GP   LSL+  M+ KIW PDT+  NGK+S  H +T PNKL RI Q+G ILY+M
Sbjct: 89  DERLKFGGPTEILSLNNLMVSKIWTPDTFFRNGKKSIAHNMTTPNKLFRIMQNGTILYTM 148

Query: 291 RLTIKANCPMSLRNFPMDTQSCPLILGSYAYPIEKLVYHWTPGKSISF-VPGMAIS--QF 347
           RLTI A+CPM L NFPMD  +CPL  GSYAYP  +++Y W  G   S  VP  + S  Q+
Sbjct: 149 RLTINADCPMRLVNFPMDGHACPLKFGSYAYPKSEIIYTWKKGPLYSVEVPEESSSLLQY 208

Query: 348 DFISSPKRNFTFKRREGEFSLLQVNFNLKRHRGYFVIQVYVPCVLIVVLSWVSFWIHREA 407
           D I     + T K   GE+ ++ V F+L+R  GYF+IQ+Y PC++ V+LS VSFWI++E+
Sbjct: 209 DLIGQTVSSETIKSNTGEYVIMTVYFHLQRKMGYFMIQIYTPCIMTVILSQVSFWINKES 268

Query: 408 TSDRIGLGITTVLTLSTISLDSRTDLPKVRYATALDWFLLMSFFYCIATILEFAAVHYFT 467
              R   GITTVLT++T+S+ +R  LPKV YATA+DWF+ + F +  + ++EFAAV+YFT
Sbjct: 269 VPARTVFGITTVLTMTTLSISARHSLPKVSYATAMDWFIAVCFAFVFSALIEFAAVNYFT 328

Query: 468 KL 469
            L
Sbjct: 329 NL 330
GABA, the major inhibitory neurotransmitter in the vertebrate brain, mediates neuronal inhibition by binding to the GABA/benzodiazepine receptor and opening an integral chloride channel.
Homo sapiens (taxid: 9606)
>sp|P16305|GBRA6_MOUSE Gamma-aminobutyric acid receptor subunit alpha-6 OS=Mus musculus GN=Gabra6 PE=1 SV=3 Back     alignment and function description
>sp|P30191|GBRA6_RAT Gamma-aminobutyric acid receptor subunit alpha-6 OS=Rattus norvegicus GN=Gabra6 PE=2 SV=1 Back     alignment and function description
>sp|Q90845|GBRA6_CHICK Gamma-aminobutyric acid receptor subunit alpha-6 OS=Gallus gallus GN=GABRA6 PE=2 SV=1 Back     alignment and function description
>sp|P48169|GBRA4_HUMAN Gamma-aminobutyric acid receptor subunit alpha-4 OS=Homo sapiens GN=GABRA4 PE=2 SV=2 Back     alignment and function description
>sp|P20237|GBRA4_BOVIN Gamma-aminobutyric acid receptor subunit alpha-4 OS=Bos taurus GN=GABRA4 PE=2 SV=2 Back     alignment and function description
>sp|Q9D6F4|GBRA4_MOUSE Gamma-aminobutyric acid receptor subunit alpha-4 OS=Mus musculus GN=Gabra4 PE=2 SV=1 Back     alignment and function description
>sp|P28471|GBRA4_RAT Gamma-aminobutyric acid receptor subunit alpha-4 OS=Rattus norvegicus GN=Gabra4 PE=2 SV=1 Back     alignment and function description
>sp|P23576|GBRA2_RAT Gamma-aminobutyric acid receptor subunit alpha-2 OS=Rattus norvegicus GN=Gabra2 PE=2 SV=1 Back     alignment and function description
>sp|Q5RCC5|GBRA2_PONAB Gamma-aminobutyric acid receptor subunit alpha-2 OS=Pongo abelii GN=GABRA2 PE=2 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 ?
Query488
307611933 594 ionotropic GABA-aminobutyric acid recept 0.635 0.521 0.787 1e-148
383863328535 PREDICTED: gamma-aminobutyric acid recep 0.647 0.590 0.781 1e-148
307200308468 Gamma-aminobutyric acid receptor subunit 0.618 0.645 0.807 1e-148
270006459538 cys-loop ligand-gated ion channel subuni 0.618 0.561 0.801 1e-147
158262729549 cys-loop ligand-gated ion channel subuni 0.618 0.550 0.801 1e-147
350423054535 PREDICTED: gamma-aminobutyric acid recep 0.618 0.564 0.804 1e-146
332026034429 Gamma-aminobutyric acid receptor subunit 0.643 0.731 0.777 1e-146
340727211520 PREDICTED: gamma-aminobutyric acid recep 0.618 0.580 0.804 1e-146
345487406570 PREDICTED: gamma-aminobutyric acid recep 0.631 0.540 0.782 1e-144
269856285561 cys-loop ligand-gated ion channel subuni 0.631 0.549 0.782 1e-144
>gi|307611933|ref|NP_001182633.1| ionotropic GABA-aminobutyric acid receptor GRD [Bombyx mori] gi|306448443|gb|ADM88004.1| ionotropic GABA-aminobutyric acid receptor GRD [Bombyx mori] Back     alignment and taxonomy information
 Score =  532 bits (1371), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 244/310 (78%), Positives = 277/310 (89%)

Query: 160 KEKKKHDLMIGKNITLVLNNLLKNYQSSEPPNHGKGEPTIIKTNMLIRSMGPISEIDMDY 219
           + K+  +  + KNIT VL NLLKNY++S+ P HGKG PT+++TN+LIRSMGP+SE+D+DY
Sbjct: 126 QNKRSINDAVSKNITSVLENLLKNYENSQLPTHGKGYPTVVQTNILIRSMGPVSELDVDY 185

Query: 220 SMDCYFRQYWRDSRLSFMGPINNLSLSIKMLEKIWRPDTYILNGKQSYVHTITVPNKLLR 279
           SMDCYFRQYWRD+RLSF+GPI +LSLSIKMLE+IWRPDTY  NGK SY HTITVPNKLLR
Sbjct: 186 SMDCYFRQYWRDTRLSFLGPIRSLSLSIKMLERIWRPDTYFYNGKHSYAHTITVPNKLLR 245

Query: 280 INQDGDILYSMRLTIKANCPMSLRNFPMDTQSCPLILGSYAYPIEKLVYHWTPGKSISFV 339
           I+Q GDILYSMRLTIKA CPM LRNFPMD QSCPLILGSYAY  ++LVY W   +S++FV
Sbjct: 246 ISQHGDILYSMRLTIKAKCPMELRNFPMDRQSCPLILGSYAYSNQQLVYQWQNSQSVNFV 305

Query: 340 PGMAISQFDFISSPKRNFTFKRREGEFSLLQVNFNLKRHRGYFVIQVYVPCVLIVVLSWV 399
           PGM +SQFD IS P RNFTF RREG+FS+LQV+FNLKRH GYF+IQVYVPC+LIVVLSWV
Sbjct: 306 PGMTLSQFDLISFPYRNFTFTRREGDFSVLQVSFNLKRHTGYFLIQVYVPCILIVVLSWV 365

Query: 400 SFWIHREATSDRIGLGITTVLTLSTISLDSRTDLPKVRYATALDWFLLMSFFYCIATILE 459
           SFWIHREATSDR+GLGITTVLTLSTISLDSRTDLPKVRYATALDWFLLMSFFYCIAT+LE
Sbjct: 366 SFWIHREATSDRVGLGITTVLTLSTISLDSRTDLPKVRYATALDWFLLMSFFYCIATLLE 425

Query: 460 FAAVHYFTKL 469
           FA VHYFTK+
Sbjct: 426 FAGVHYFTKV 435

Source: Bombyx mori

Species: Bombyx mori

Genus: Bombyx

Family: Bombycidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota
>gi|383863328|ref|XP_003707133.1| PREDICTED: gamma-aminobutyric acid receptor alpha-like [Megachile rotundata] Back     alignment and taxonomy information
>gi|307200308|gb|EFN80573.1| Gamma-aminobutyric acid receptor subunit alpha-6 [Harpegnathos saltator] Back     alignment and taxonomy information
>gi|270006459|gb|EFA02907.1| cys-loop ligand-gated ion channel subunit [Tribolium castaneum] Back     alignment and taxonomy information
>gi|158262729|ref|NP_001103425.1| cys-loop ligand-gated ion channel subunit precursor [Tribolium castaneum] gi|156447625|gb|ABU63605.1| cys-loop ligand-gated ion channel subunit [Tribolium castaneum] Back     alignment and taxonomy information
>gi|350423054|ref|XP_003493370.1| PREDICTED: gamma-aminobutyric acid receptor alpha-like [Bombus impatiens] Back     alignment and taxonomy information
>gi|332026034|gb|EGI66185.1| Gamma-aminobutyric acid receptor subunit alpha-6 [Acromyrmex echinatior] Back     alignment and taxonomy information
>gi|340727211|ref|XP_003401942.1| PREDICTED: gamma-aminobutyric acid receptor alpha-like [Bombus terrestris] Back     alignment and taxonomy information
>gi|345487406|ref|XP_001600806.2| PREDICTED: gamma-aminobutyric acid receptor alpha-like [Nasonia vitripennis] Back     alignment and taxonomy information
>gi|269856285|gb|ACZ51425.1| cys-loop ligand-gated ion channel subunit, partial [Nasonia vitripennis] 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 ?
Query488
FB|FBgn0030707 612 CG8916 [Drosophila melanogaste 0.711 0.566 0.630 7.4e-121
FB|FBgn0001134 686 Grd "Glycine receptor" [Drosop 0.426 0.303 0.493 5e-85
UNIPROTKB|E2RSN3 550 GABRA6 "Uncharacterized protei 0.645 0.572 0.451 3.1e-74
UNIPROTKB|E1BE96 453 GABRA6 "Uncharacterized protei 0.643 0.693 0.449 8.4e-74
UNIPROTKB|F1LWJ7 452 Gabra6 "Gamma-aminobutyric aci 0.645 0.696 0.432 7.5e-73
UNIPROTKB|Q16445 453 GABRA6 "Gamma-aminobutyric aci 0.610 0.657 0.456 9.6e-73
MGI|MGI:95618 453 Gabra6 "gamma-aminobutyric aci 0.610 0.657 0.453 1.2e-72
RGD|61861 453 Gabra6 "gamma-aminobutyric aci 0.657 0.708 0.427 1.6e-72
UNIPROTKB|P30191 453 Gabra6 "Gamma-aminobutyric aci 0.657 0.708 0.427 1.6e-72
UNIPROTKB|E1C890 554 GABRA4 "Uncharacterized protei 0.629 0.554 0.437 6.7e-72
FB|FBgn0030707 CG8916 [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
 Score = 1189 (423.6 bits), Expect = 7.4e-121, P = 7.4e-121
 Identities = 222/352 (63%), Positives = 270/352 (76%)

Query:   120 STFNVLSMFSVKLNNGYMKIMDDETKTHWTNRLPKVSNHLKEKKKHDL-MIGKNITLVLN 178
             S+F +L     K  NG +K   + T   +++   ++SN  + ++K    M+ +NI+++L 
Sbjct:    57 SSFRILPSSKPK-TNGSLKRSQNATNLSYSSS--EISNQRRVRRKAAADMLSRNISMILE 113

Query:   179 NLLKNYQSSEPPNHGKGEPTIIKTNMLIRSMGPISEIDMDYSMDCYFRQYWRDSRLSFMG 238
             NLLK Y+ S+ P HG+G PT+++TN+LIRSMGP+SE+DMDYSMDCYFRQYWRD RLSF G
Sbjct:   114 NLLKRYEQSQLPTHGQGVPTVVQTNILIRSMGPVSELDMDYSMDCYFRQYWRDKRLSFKG 173

Query:   239 PINNLSLSIKMLEKIWRPDTYILNGKQSYVHTITVPNKLLRINQDGDILYSMRLTIKANC 298
             PI +LSLSIKML+KIWRPDTY  NGK S +H ITVPNKLLR++Q+G ILYSMRLTIKA C
Sbjct:   174 PIKSLSLSIKMLDKIWRPDTYFYNGKHSQIHMITVPNKLLRLDQNGGILYSMRLTIKATC 233

Query:   299 PMSLRNFPMDTQSCPLILGSYAYPIEKLVYHW-TPGKSISFVPGMAISQFDFISSPKRNF 357
             PM L+NFPMD QSCPL++GSY Y  ++L+Y W     ++SFVPGM ++QFD IS   RNF
Sbjct:   234 PMELQNFPMDRQSCPLVIGSYGYINQQLIYEWKNQDDAVSFVPGMTLNQFDLISMMHRNF 293

Query:   358 TFKRREGEFSLLQVNFNLKRHRGYFVIQVYVPCVLIVVLSWVSFWIHREATSDRXXXXXX 417
             T  RREG+FS+L V FNLKRH GYF+IQVYVPC+LIVVLSWVSFWIHREATSDR      
Sbjct:   294 TTVRREGDFSVLHVAFNLKRHTGYFLIQVYVPCILIVVLSWVSFWIHREATSDRVSLCVT 353

Query:   418 XXXXXXXXXXDSRTDLPKVRYATALDWFLLMSFFYCIATILEFAAVHYFTKL 469
                       DSRTDLPKV+YATALDWFLLMSF YCIAT+LEFA VHYFTKL
Sbjct:   354 SVLTLSTISLDSRTDLPKVKYATALDWFLLMSFLYCIATLLEFAGVHYFTKL 405
GO:0004890 "GABA-A receptor activity" evidence=ISS
GO:0006811 "ion transport" evidence=IEA
GO:0045211 "postsynaptic membrane" evidence=IEA
GO:0005230 "extracellular ligand-gated ion channel activity" evidence=IEA
GO:0016021 "integral to membrane" evidence=IEA
FB|FBgn0001134 Grd "Glycine receptor" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
UNIPROTKB|E2RSN3 GABRA6 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|E1BE96 GABRA6 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|F1LWJ7 Gabra6 "Gamma-aminobutyric acid receptor subunit alpha-6" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|Q16445 GABRA6 "Gamma-aminobutyric acid receptor subunit alpha-6" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
MGI|MGI:95618 Gabra6 "gamma-aminobutyric acid (GABA) A receptor, subunit alpha 6" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
RGD|61861 Gabra6 "gamma-aminobutyric acid (GABA) A receptor, alpha 6" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|P30191 Gabra6 "Gamma-aminobutyric acid receptor subunit alpha-6" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|E1C890 GABRA4 "Uncharacterized protein" [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) ?
Q16445GBRA6_HUMANNo assigned EC number0.49000.61060.6578yesN/A
P30191GBRA6_RATNo assigned EC number0.48340.61060.6578yesN/A
Q90845GBRA6_CHICKNo assigned EC number0.49000.61060.6408yesN/A
P16305GBRA6_MOUSENo assigned EC number0.48670.61060.6578yesN/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 ?
Query488
TIGR00860 459 TIGR00860, LIC, Cation transporter family protein 3e-83
pfam02931215 pfam02931, Neur_chan_LBD, Neurotransmitter-gated i 8e-54
pfam02932 228 pfam02932, Neur_chan_memb, Neurotransmitter-gated 3e-27
>gnl|CDD|233155 TIGR00860, LIC, Cation transporter family protein Back     alignment and domain information 
 Score =  264 bits (677), Expect = 3e-83
 Identities = 106/295 (35%), Positives = 165/295 (55%), Gaps = 7/295 (2%)

Query: 176 VLNNLLKNYQSSEPPNHGKGEPTIIKTNMLIRSMGPISEIDMDYSMDCYFRQYWRDSRLS 235
           +L+ LLKNY +   P  G G P  +  N+ +RS+  + E +MDY+ + + RQ W D RL 
Sbjct: 34  LLDELLKNYDARVRPVFG-GPPVTVSFNLFLRSIMDVDEKNMDYTTNIWLRQEWTDERLQ 92

Query: 236 FMGPINNLSLSIKML--EKIWRPDTYILNGKQSYVHTITVPNKLLRINQDGDILYSMRLT 293
           +  P     +++     + IW PD +  N K +  H IT+ N L+RI+ +G +LYS R+T
Sbjct: 93  W-NPEEYPGVTLVRTPDDSIWVPDIFFYNEKDARFHGITMTNVLVRIHPNGSVLYSPRIT 151

Query: 294 IKANCPMSLRNFPMDTQSCPLILGSYAYPIEKLVYHWTPGKSISFVPGMAIS--QFDFIS 351
           +   CPM LRNFP D Q+C L   S+ Y    +   W    ++     + IS  +F+ + 
Sbjct: 152 LTLACPMDLRNFPFDVQNCSLKFESWGYTTNDIKLEWKEQGAVQVDDSLFISLPEFELLG 211

Query: 352 SP-KRNFTFKRREGEFSLLQVNFNLKRHRGYFVIQVYVPCVLIVVLSWVSFWIHREATSD 410
               R  T +   GE+  L  +F L+R   Y+++Q+Y+P +LIV+LSWVSFW+  +A+  
Sbjct: 212 VYGTRYCTSETNTGEYPCLTFSFVLRRRPLYYLLQLYIPSILIVILSWVSFWLPADASGA 271

Query: 411 RIGLGITTVLTLSTISLDSRTDLPKVRYATALDWFLLMSFFYCIATILEFAAVHY 465
           R+ LGITT+LT++T S   R  LP V Y  A+D +  +   +    +LE A V+Y
Sbjct: 272 RVSLGITTLLTMTTFSSGVRESLPAVSYVKAIDVYFAVCMAFVFLALLETAFVNY 326

The Ligand-gated Ion Channel (LIC) Family of Neurotransmitter Receptors TC 1.A.9)Members of the LIC family of ionotropic neurotransmitter receptors are found only in vertebrate and invertebrate animals. They exhibit receptor specificity for (1)acetylcholine, (2) serotonin, (3) glycine, (4) glutamate and (5) g-aminobutyric acid (GABA). All of these receptor channels are probably hetero- orhomopentameric. The best characterized are the nicotinic acetyl-choline receptors which are pentameric channels of a2bgd subunit composition. All subunits arehomologous. The three dimensional structures of the protein complex in both the open and closed configurations have been solved at 0.9 nm resolution.The channel protein complexes of the LIC family preferentially transport cations or anions depending on the channel (e.g., the acetylcholine receptors are cationselective while glycine receptors are anion selective) [Transport and binding proteins, Cations and iron carrying compounds]. Length = 459
>gnl|CDD|217293 pfam02931, Neur_chan_LBD, Neurotransmitter-gated ion-channel ligand binding domain Back     alignment and domain information
>gnl|CDD|202474 pfam02932, Neur_chan_memb, Neurotransmitter-gated ion-channel transmembrane region Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 488
TIGR00860 459 LIC Cation transporter family protein. selective w 100.0
KOG3643|consensus 459 100.0
KOG3644|consensus457 100.0
KOG3646|consensus 486 100.0
KOG3645|consensus449 100.0
KOG3642|consensus 466 100.0
PF02931217 Neur_chan_LBD: Neurotransmitter-gated ion-channel 100.0
PF02932 237 Neur_chan_memb: Neurotransmitter-gated ion-channel 99.5
PF14494256 DUF4436: Domain of unknown function (DUF4436) 94.45
>TIGR00860 LIC Cation transporter family protein Back     alignment and domain information 
Probab=100.00  E-value=3.3e-59  Score=496.57  Aligned_cols=314  Identities=33%  Similarity=0.633  Sum_probs=282.0

Q ss_pred             ccchHHHHHHHHHhcCCCCCCCCCCCCCcEEEEEEEEEeecccccccccccceeeEEEEEEEcCCcccc----CCCceEE
Q psy12313        169 IGKNITLVLNNLLKNYQSSEPPNHGKGEPTIIKTNMLIRSMGPISEIDMDYSMDCYFRQYWRDSRLSFM----GPINNLS  244 (488)
Q Consensus       169 ~~~~~~~Ll~~Ll~~Yd~~~rP~~~~~~pt~V~v~i~I~~I~~VDE~~~t~~v~~~l~~~W~D~RL~Wn----~~i~~i~  244 (488)
                      .++.+++|+++|+++||+.+||+ +.++|++|++++.+.+|.++||++|++++++|++++|+|+||+||    +|++.+.
T Consensus        27 ~~~~~~~L~~~Ll~~Yd~~~RPv-~~~~~v~V~~~i~l~~i~~vde~~q~~t~~~wl~~~W~D~rL~Wnp~~y~~i~~i~  105 (459)
T TIGR00860        27 LKEVERKLLDELLKNYDARVRPV-FGGPPVTVSFNLFLRSIMDVDEKNMDYTTNIWLRQEWTDERLQWNPEEYPGVTLVR  105 (459)
T ss_pred             cChHHHHHHHHHHhcCCCCcCCC-CCCCCEEEEEEEEEEEecccccccceEEEeeeeeeEEeCCccCCCCccCCCceecc
Confidence            35678899999999999999999 679999999999999999999999999999999999999999998    7899999


Q ss_pred             ecccccccccccCeeeecccccceeeeeecceeEEEccCCcEEEecccceeeccCCCCCCCCCCCccccccccccccccc
Q psy12313        245 LSIKMLEKIWRPDTYILNGKQSYVHTITVPNKLLRINQDGDILYSMRLTIKANCPMSLRNFPMDTQSCPLILGSYAYPIE  324 (488)
Q Consensus       245 l~~~~~~~IW~PdI~~~Ns~~~~~~~~~~~~~~v~V~~dG~V~~~~~~~~~~~C~~dl~~FPFD~Q~C~L~~~Sw~y~~~  324 (488)
                      ++   .++||+||++++|++++..+.....+..+++++||+|.|.+|..+++.|++|+++||||+|+|+++||||+|+.+
T Consensus       106 ~~---~~~IW~PDi~l~N~~~~~~~~~~~~~~~v~~~~~G~V~~~~~~~~~~~C~~d~~~FPfD~Q~C~l~fgSw~y~~~  182 (459)
T TIGR00860       106 TP---DDSIWVPDIFFYNEKDARFHGITMTNVLVRIHPNGSVLYSPRITLTLACPMDLRNFPFDVQNCSLKFESWGYTTN  182 (459)
T ss_pred             cc---ccccccCcEEeecCccccccccccCceEEEEcCCCcEEEecCceEEecccceeccCCCCCccccEEEhhhccccc
Confidence            99   899999999999999887665555566677777999999999999999999999999999999999999999999


Q ss_pred             ceeeeeCCCceeec--cCCccccceEeecCCc-cceeecccCCCeeEEEEEEEEEeccceeEEEEehhhHHHHHhhheee
Q psy12313        325 KLVYHWTPGKSISF--VPGMAISQFDFISSPK-RNFTFKRREGEFSLLQVNFNLKRHRGYFVIQVYVPCVLIVVLSWVSF  401 (488)
Q Consensus       325 ev~l~~~~~~~v~~--~~~~~~~ew~l~~~~~-~~~~~~~~~~~ys~l~~~i~LkR~~~~y~~~iilP~~livllsl~sF  401 (488)
                      ++++.+..++.+..  .....++||++.+... +.....++++.|+++.+++.++|++.||.+++++|++++++++|++|
T Consensus       183 ~i~l~~~~~~~v~~~~~~~~~~~eW~l~~~~~~~~~~~~~~~~~y~~l~~~~~l~R~~~~y~~~l~iP~~li~~ls~~sF  262 (459)
T TIGR00860       183 DIKLEWKEQGAVQVDDSLFISLPEFELLGVYGTRYCTSETNTGEYPCLTFSFVLRRRPLYYLLQLYIPSILIVILSWVSF  262 (459)
T ss_pred             eEEEEECCCCceEechhhccccCceEEEeeeeeeeEecccCCCCcCeEEEEEEEEEcccceeeeehHHHHHHHHHhheeE
Confidence            99999876543322  2334789999998443 33345567889999999999999999999999999999999999999


Q ss_pred             eccCCCCCCeEeehHHHHHHHHHHHHHHhccCCCCCCcChhhHHHHHHHHHHHHHHHHHHHhhheeccCC-CCChhhHHH
Q psy12313        402 WIHREATSDRIGLGITTVLTLSTISLDSRTDLPKVRYATALDWFLLMSFFYCIATILEFAAVHYFTKLCY-PGYPSGFIE  480 (488)
Q Consensus       402 wLp~~s~~~Ri~L~it~LLs~~~~~~~v~~~LP~~sylt~l~~~l~~~~i~v~~sli~~viV~~l~~~~~-~~~~~~~l~  480 (488)
                      |+|+++.++|++++++++|++++++..+++.+|+.||+|+++.|+.+|+++++++++++++|.++.++++ ..++..+++
T Consensus       263 ~Lp~~a~~eRi~L~it~lLs~~vf~~~v~~~lP~~S~vpli~~y~~~~~~~v~~sli~tv~V~~~~~~~~~~~~r~~~l~  342 (459)
T TIGR00860       263 WLPADASGARVSLGITTLLTMTTFSSGVRESLPAVSYVKAIDVYFAVCMAFVFLALLETAFVNYVHHKDPAQGKRHLLLE  342 (459)
T ss_pred             ecCCCCCCCcEEEEEEHHHHHHHHHHHHHhhCCCcchHHHHHHHHHHHHHHHHHHHHHHHhheeEEccCCCCCceehHHh
Confidence            9999977999999999999999999999999999999999999999999999999999999998866654 345888899


Q ss_pred             hccccc
Q psy12313        481 RLPVIG  486 (488)
Q Consensus       481 ~Lp~i~  486 (488)
                      .||++.
T Consensus       343 ~l~~~l  348 (459)
T TIGR00860       343 RCAWRL  348 (459)
T ss_pred             hchHHh
Confidence            998864

selective while glycine receptors are anion selective).
>KOG3643|consensus Back     alignment and domain information
>KOG3644|consensus Back     alignment and domain information
>KOG3646|consensus Back     alignment and domain information
>KOG3645|consensus Back     alignment and domain information
>KOG3642|consensus Back     alignment and domain information
>PF02931 Neur_chan_LBD: Neurotransmitter-gated ion-channel ligand binding domain ion channel family signature gamma-aminobutyric acid (GABA) receptor signature nicotinic acetylcholine receptor signature; InterPro: IPR006202 Neurotransmitter ligand-gated ion channels are transmembrane receptor-ion channel complexes that open transiently upon binding of specific ligands, allowing rapid transmission of signals at chemical synapses [, ] Back     alignment and domain information
>PF02932 Neur_chan_memb: Neurotransmitter-gated ion-channel transmembrane region ion channel family signature gamma-aminobutyric acid (GABA) receptor signature nicotinic acetylcholine receptor signature; InterPro: IPR006029 Neurotransmitter ligand-gated ion channels are transmembrane receptor-ion channel complexes that open transiently upon binding of specific ligands, allowing rapid transmission of signals at chemical synapses [, ] Back     alignment and domain information
>PF14494 DUF4436: Domain of unknown function (DUF4436) Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query488
3rhw_A347 C. Elegans Glutamate-Gated Chloride Channel (Glucl) 7e-44
3uq5_A324 X-Ray Structure Of A Pentameric Ligand Gated Ion Ch 1e-11
3uq7_A324 X-Ray Structure Of A Pentameric Ligand Gated Ion Ch 1e-11
3uq4_A324 X-Ray Structure Of A Pentameric Ligand Gated Ion Ch 1e-11
3rqu_A322 Crystal Structure Of A Prokaryotic Pentameric Ligan 2e-11
4a97_A307 X-Ray Structure Of A Pentameric Ligand Gated Ion Ch 1e-10
3ei0_A317 Structure Of The E221a Mutant Of The Gloebacter Vio 2e-10
2yks_A321 Pentameric Ligand Gated Ion Channel Elic Mutant F24 2e-10
2vl0_A321 X-Ray Structure Of A Pentameric Ligand Gated Ion Ch 3e-10
3eam_A317 An Open-Pore Structure Of A Bacterial Pentameric Li 4e-10
3ehz_A317 X-Ray Structure Of The Pentameric Ligand Gated Ion 4e-10
3p4w_A318 Structure Of Desflurane Bound To A Pentameric Ligan 4e-10
4aq5_B 493 Gating Movement In Acetylcholine Receptor Analysed 4e-10
4ilc_A320 The Glic Pentameric Ligand-gated Ion Channel In Com 5e-10
3tlt_A321 The Glic Pentameric Ligand-Gated Ion Channel H11'f 5e-10
2bg9_B370 Refined Structure Of The Nicotinic Acetylcholine Re 5e-10
3lsv_A317 Structure Of The A237f Mutant Of The Pentameric Lig 6e-10
4il9_A320 The Pentameric Ligand-gated Ion Channel Glic A237f 6e-10
2xq9_A317 Pentameric Ligand Gated Ion Channel Glic Mutant E22 7e-10
3tls_A321 The Glic Pentameric Ligand-Gated Ion Channel E19'p 9e-10
3tlw_A321 The Glic Pentameric Ligand-Gated Ion Channel Loop2- 1e-09
3tlv_A321 The Glic Pentameric Ligand-Gated Ion Channel Loop2- 1e-09
3uu3_A321 The Glic Pentameric Ligand-Gated Ion Channel Loop2- 2e-09
3tlu_A321 The Glic Pentameric Ligand-Gated Ion Channel Loop2- 3e-09
2bg9_A370 Refined Structure Of The Nicotinic Acetylcholine Re 5e-07
4aq5_A 461 Gating Movement In Acetylcholine Receptor Analysed 7e-07
2bg9_E370 Refined Structure Of The Nicotinic Acetylcholine Re 2e-06
2bg9_C369 Refined Structure Of The Nicotinic Acetylcholine Re 3e-06
4aq5_E 488 Gating Movement In Acetylcholine Receptor Analysed 3e-06
4aq5_C 522 Gating Movement In Acetylcholine Receptor Analysed 8e-06
2qc1_B212 Crystal Structure Of The Extracellular Domain Of Th 4e-05
4aod_A205 Biomphalaria Glabrata Acetylcholine-Binding Protein 2e-04
>pdb|3RHW|A Chain A, C. Elegans Glutamate-Gated Chloride Channel (Glucl) In Complex With Fab And Ivermectin Length = 347 Back     alignment and structure 
Iteration: 1

 Score =  174 bits (442), Expect = 7e-44,   Method: Compositional matrix adjust.
 Identities = 95/284 (33%), Positives = 151/284 (53%), Gaps = 12/284 (4%)
Query: 190 PNHGKGEPTIIKTNMLIRSMGPISEIDMDYSMDCYFRQYWRDSRLSFM----GPINNLSL 245
           P    G P ++  NML+R++  I  ++M+YS     R+ W D RLS+     G  + + L
Sbjct: 20  PPTDNGGPVVVSVNMLLRTISKIDVVNMEYSAQLTLRESWIDKRLSYGVKGDGQPDFVIL 79
Query: 246 SIKMLEKIWRPDTYILNGKQSYVHTITVPNKLLRINQDGDILYSMRLTIKANCPMSLRNF 305
           ++    +IW PDT+  N KQ+Y HTI  PN L+RI+ DG +LYS+R+++  +CPM L+ +
Sbjct: 80  TVG--HQIWMPDTFFPNEKQAYKHTIDKPNVLIRIHNDGTVLYSVRISLVLSCPMYLQYY 137
Query: 306 PMDTQSCPLILGSYAYPIEKLVYHWTPGKSISFVPGMAIS--QFDFISSPKRNFTFKRRE 363
           PMD Q C + L SYAY  + + Y W     +    G++ S   F   ++     T     
Sbjct: 138 PMDVQQCSIDLASYAYTTKDIEYLWKEHSPLQLKVGLSSSLPSFQLTNTSTTYCTSVTNT 197
Query: 364 GEFSLLQVNFNLKRHRGYFVIQVYVPCVLIVVLSWVSFWIHREATSDRXXXXXXXXXXXX 423
           G +S L+    LKR   ++++Q+Y+P  ++V++SWVSFW  R A   R            
Sbjct: 198 GIYSCLRTTIQLKREFSFYLLQLYIPSCMLVIVSWVSFWFDRTAIPARVTLGVTTLLTMT 257
Query: 424 XXXXDSRTDLPKVRYATALDWFL--LMSFFYCIATILEFAAVHY 465
                  + LP V Y  A+D ++   M+F +C   +LEFA V++
Sbjct: 258 AQSAGINSQLPPVSYIKAIDVWIGACMTFIFC--ALLEFALVNH 299
>pdb|3UQ5|A Chain A, X-Ray Structure Of A Pentameric Ligand Gated Ion Channel From Erwinia Chrysanthemi (Elic) Mutant L240a F247l (L9a F16l) In The Presence Of 10 Mm Cysteamine Length = 324 Back     alignment and structure
>pdb|3UQ7|A Chain A, X-Ray Structure Of A Pentameric Ligand Gated Ion Channel From Erwinia Chrysanthemi (Elic) Mutant L240s F247l (L9s F16l) In Presence Of 10 Mm Cysteamine Length = 324 Back     alignment and structure
>pdb|3UQ4|A Chain A, X-Ray Structure Of A Pentameric Ligand Gated Ion Channel From Erwinia Chrysanthemi (Elic) Mutant F247l (F16l) Length = 324 Back     alignment and structure
>pdb|3RQU|A Chain A, Crystal Structure Of A Prokaryotic Pentameric Ligand-Gated Ion Channel, Elic Length = 322 Back     alignment and structure
>pdb|4A97|A Chain A, X-Ray Structure Of A Pentameric Ligand Gated Ion Channel From Erwinia Chrysanthemi (Elic) In Complex With Zopiclone Length = 307 Back     alignment and structure
>pdb|3EI0|A Chain A, Structure Of The E221a Mutant Of The Gloebacter Violaceus Pentameric Ligand Gated Ion Channnel (Glic) Length = 317 Back     alignment and structure
>pdb|2YKS|A Chain A, Pentameric Ligand Gated Ion Channel Elic Mutant F246a Length = 321 Back     alignment and structure
>pdb|2VL0|A Chain A, X-Ray Structure Of A Pentameric Ligand Gated Ion Channel From Erwinia Chrysanthemi (Elic) Length = 321 Back     alignment and structure
>pdb|3EAM|A Chain A, An Open-Pore Structure Of A Bacterial Pentameric Ligand- Gated Ion Channel Length = 317 Back     alignment and structure
>pdb|3EHZ|A Chain A, X-Ray Structure Of The Pentameric Ligand Gated Ion Channel Of Gloebacter Violaceus (Glic) In A Presumptive Open Conformation Length = 317 Back     alignment and structure
>pdb|3P4W|A Chain A, Structure Of Desflurane Bound To A Pentameric Ligand-Gated Ion Channel, Glic Length = 318 Back     alignment and structure
>pdb|4AQ5|B Chain B, Gating Movement In Acetylcholine Receptor Analysed By Time- Resolved Electron Cryo-Microscopy (Closed Class) Length = 493 Back     alignment and structure
>pdb|4ILC|A Chain A, The Glic Pentameric Ligand-gated Ion Channel In Complex With Sulfates Length = 320 Back     alignment and structure
>pdb|3TLT|A Chain A, The Glic Pentameric Ligand-Gated Ion Channel H11'f Mutant In A Locally-Closed Conformation (Lc1 Subtype) Length = 321 Back     alignment and structure
>pdb|2BG9|B Chain B, Refined Structure Of The Nicotinic Acetylcholine Receptor At 4a Resolution Length = 370 Back     alignment and structure
>pdb|3LSV|A Chain A, Structure Of The A237f Mutant Of The Pentameric Ligand Gated Channel From Gloeobacter Violaceus Length = 317 Back     alignment and structure
>pdb|4IL9|A Chain A, The Pentameric Ligand-gated Ion Channel Glic A237f In Complex With Bromide Length = 320 Back     alignment and structure
>pdb|2XQ9|A Chain A, Pentameric Ligand Gated Ion Channel Glic Mutant E221a In Complex With Tetraethylarsonium (Teas) Length = 317 Back     alignment and structure
>pdb|3TLS|A Chain A, The Glic Pentameric Ligand-Gated Ion Channel E19'p Mutant In A Locally-Closed Conformation (Lc2 Subtype) Length = 321 Back     alignment and structure
>pdb|3TLW|A Chain A, The Glic Pentameric Ligand-Gated Ion Channel Loop2-21' Oxidized Mutant In A Locally-Closed Conformation (Lc2 Subtype) Length = 321 Back     alignment and structure
>pdb|3TLV|A Chain A, The Glic Pentameric Ligand-Gated Ion Channel Loop2-22' Oxidized Mutant In A Locally-Closed Conformation (Lc3 Subtype) Length = 321 Back     alignment and structure
>pdb|3UU3|A Chain A, The Glic Pentameric Ligand-Gated Ion Channel Loop2-20' Oxidized Mutant In A Locally-Closed Conformation (Lc1 Subtype) Length = 321 Back     alignment and structure
>pdb|3TLU|A Chain A, The Glic Pentameric Ligand-Gated Ion Channel Loop2-24' Oxidized Mutant In A Locally-Closed Conformation (Lc1 Subtype) Length = 321 Back     alignment and structure
>pdb|2BG9|A Chain A, Refined Structure Of The Nicotinic Acetylcholine Receptor At 4a Resolution. Length = 370 Back     alignment and structure
>pdb|4AQ5|A Chain A, Gating Movement In Acetylcholine Receptor Analysed By Time- Resolved Electron Cryo-Microscopy (Closed Class) Length = 461 Back     alignment and structure
>pdb|2BG9|E Chain E, Refined Structure Of The Nicotinic Acetylcholine Receptor At 4a Resolution Length = 370 Back     alignment and structure
>pdb|2BG9|C Chain C, Refined Structure Of The Nicotinic Acetylcholine Receptor At 4a Resolution Length = 369 Back     alignment and structure
>pdb|4AQ5|E Chain E, Gating Movement In Acetylcholine Receptor Analysed By Time- Resolved Electron Cryo-Microscopy (Closed Class) Length = 488 Back     alignment and structure
>pdb|4AQ5|C Chain C, Gating Movement In Acetylcholine Receptor Analysed By Time- Resolved Electron Cryo-Microscopy (Closed Class) Length = 522 Back     alignment and structure
>pdb|2QC1|B Chain B, Crystal Structure Of The Extracellular Domain Of The Nicotinic Acetylcholine Receptor 1 Subunit Bound To Alpha-Bungarotoxin At 1.9 A Resolution Length = 212 Back     alignment and structure
>pdb|4AOD|A Chain A, Biomphalaria Glabrata Acetylcholine-Binding Protein Type 1 (Bgachbp1) Length = 205 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query488
3rhw_A347 Avermectin-sensitive glutamate-gated chloride CHA 1e-118
3rqw_A322 ELIC pentameric ligand gated ION channel from ERW 1e-116
3tlw_A321 GLR4197 protein, GLIC; Cys-loop receptor family, m 1e-113
3igq_A201 GLR4197 protein; plgic Cys-loop, membrane protein, 1e-69
2bg9_E370 Acetylcholine receptor protein, gamma chain; ION c 7e-32
2bg9_A370 Acetylcholine receptor protein, alpha chain; ION c 2e-30
2bg9_B370 Acetylcholine receptor protein, beta chain; ION ch 8e-29
4aq5_E 488 Acetylcholine receptor gamma subunit; membrane pro 1e-27
2bg9_C369 Acetylcholine receptor protein, delta chain; ION c 1e-27
4aq5_A 461 Acetylcholine receptor subunit alpha; membrane pro 2e-27
4aq5_B 493 Acetylcholine receptor beta subunit; membrane prot 4e-25
4aq5_C 522 Acetylcholine receptor delta subunit; membrane pro 3e-21
2qc1_B212 Acetylcholine receptor subunit alpha; nicotinic ac 5e-20
1vry_A76 Glycine receptor alpha-1 chain; second transmembra 1e-17
3sq6_A204 ACHBP, neuronal acetylcholine receptor subunit alp 1e-16
1uw6_A211 Acetylcholine-binding protein; pentamer, IGG fold, 8e-15
4afh_A230 ACHBP; acetylcholine-binding protein, nicotinic re 6e-14
2wn9_A228 Soluble acetylcholine receptor; 4-0H-DMXBA, acetyl 4e-13
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 9e-12
2bj0_A203 Acetylcholine-binding protein; 3D-structure, glyco 1e-08
2lly_A137 Neuronal acetylcholine receptor subunit alpha-4; t 5e-06
2ksr_A164 Neuronal acetylcholine receptor subunit beta-2; ni 1e-05
1mot_A28 Glycine receptor alpha-1 chain; second transmembra 7e-05
1oed_E 260 Acetylcholine receptor protein, gamma chain; ION c 1e-04
2lkg_A140 Acetylcholine receptor; transmembrane domain, SIGN 1e-04
1oed_B 250 Acetylcholine receptor protein, beta chain; ION ch 6e-04
1oed_A 227 Acetylcholine receptor protein, alpha chain; ION c 9e-04
>3rhw_A Avermectin-sensitive glutamate-gated chloride CHA alpha; membrane protein, transport protein, Cys-loop receptor, LIGA ION channel, neurotransmitter receptor; HET: NAG IVM LMT UND; 3.26A {Caenorhabditis elegans} PDB: 3ri5_A* 3ria_A* 3rif_A* Length = 347 Back     alignment and structure
 Score =  350 bits (899), Expect = e-118
 Identities = 99/300 (33%), Positives = 161/300 (53%), Gaps = 5/300 (1%)

Query: 174 TLVLNNLLK-NYQSSEPPNHGKGEPTIIKTNMLIRSMGPISEIDMDYSMDCYFRQYWRDS 232
           + +L +L    Y     P    G P ++  NML+R++  I  ++M+YS     R+ W D 
Sbjct: 3   SKILAHLFTSGYDFRVRPPTDNGGPVVVSVNMLLRTISKIDVVNMEYSAQLTLRESWIDK 62

Query: 233 RLSF--MGPINNLSLSIKMLEKIWRPDTYILNGKQSYVHTITVPNKLLRINQDGDILYSM 290
           RLS+   G      + + +  +IW PDT+  N KQ+Y HTI  PN L+RI+ DG +LYS+
Sbjct: 63  RLSYGVKGDGQPDFVILTVGHQIWMPDTFFPNEKQAYKHTIDKPNVLIRIHNDGTVLYSV 122

Query: 291 RLTIKANCPMSLRNFPMDTQSCPLILGSYAYPIEKLVYHWTPGK--SISFVPGMAISQFD 348
           R+++  +CPM L+ +PMD Q C + L SYAY  + + Y W       +      ++  F 
Sbjct: 123 RISLVLSCPMYLQYYPMDVQQCSIDLASYAYTTKDIEYLWKEHSPLQLKVGLSSSLPSFQ 182

Query: 349 FISSPKRNFTFKRREGEFSLLQVNFNLKRHRGYFVIQVYVPCVLIVVLSWVSFWIHREAT 408
             ++     T     G +S L+    LKR   ++++Q+Y+P  ++V++SWVSFW  R A 
Sbjct: 183 LTNTSTTYCTSVTNTGIYSCLRTTIQLKREFSFYLLQLYIPSCMLVIVSWVSFWFDRTAI 242

Query: 409 SDRIGLGITTVLTLSTISLDSRTDLPKVRYATALDWFLLMSFFYCIATILEFAAVHYFTK 468
             R+ LG+TT+LT++  S    + LP V Y  A+D ++     +    +LEFA V++   
Sbjct: 243 PARVTLGVTTLLTMTAQSAGINSQLPPVSYIKAIDVWIGACMTFIFCALLEFALVNHIAN 302
>3rqw_A ELIC pentameric ligand gated ION channel from ERW chrysanthemi; membrane, transport protein; HET: ACH MES; 2.91A {Dickeya dadantii} PDB: 3rqu_A* 3uq4_A 3uq5_A 3uq7_A 2vl0_A 2yks_A Length = 322 Back     alignment and structure
>3tlw_A GLR4197 protein, GLIC; Cys-loop receptor family, membrane protein, transport protei; HET: LMT; 2.60A {Gloeobacter violaceus} PDB: 3uu4_A* 3uub_A* 3tlv_A* 3uu6_A* 3uu5_A* 3uu3_A* 3tlu_A* 3uu8_A* 3tls_A* 3tlt_A* 3p4w_A* 3p50_A* 3eam_A* 3ehz_A 2xq4_A 2xq5_A 2xq6_A 2xq3_A 2xq8_A 2xqa_A ... Length = 321 Back     alignment and structure
>3igq_A GLR4197 protein; plgic Cys-loop, membrane protein, transport protein; 2.30A {Gloeobacter violaceus} Length = 201 Back     alignment and structure
>2bg9_E Acetylcholine receptor protein, gamma chain; ION channel/receptor, ION channel, electron microscopy, ION transport, postsynaptic membrane; 4.00A {Torpedo marmorata} Length = 370 Back     alignment and structure
>2bg9_A Acetylcholine receptor protein, alpha chain; ION channel/receptor, ION channel, electron microscopy, ION transport, postsynaptic membrane; 4.00A {Torpedo marmorata} Length = 370 Back     alignment and structure
>2bg9_B Acetylcholine receptor protein, beta chain; ION channel/receptor, ION channel, electron microscopy, ION transport, postsynaptic membrane; 4.00A {Torpedo marmorata} Length = 370 Back     alignment and structure
>4aq5_E Acetylcholine receptor gamma subunit; membrane protein, freeze-trapping, asymmetric gating, allost mechanism; 6.20A {Torpedo marmorata} PDB: 4aq9_E Length = 488 Back     alignment and structure
>2bg9_C Acetylcholine receptor protein, delta chain; ION channel/receptor, ION channel, electron microscopy, ION transport, postsynaptic membrane; 4.00A {Torpedo marmorata} Length = 369 Back     alignment and structure
>4aq5_A Acetylcholine receptor subunit alpha; membrane protein, freeze-trapping, asymmetric gating, allost mechanism; 6.20A {Torpedo marmorata} PDB: 4aq9_A Length = 461 Back     alignment and structure
>4aq5_B Acetylcholine receptor beta subunit; membrane protein, freeze-trapping, asymmetric gating, allost mechanism; 6.20A {Torpedo marmorata} PDB: 4aq9_B Length = 493 Back     alignment and structure
>4aq5_C Acetylcholine receptor delta subunit; membrane protein, freeze-trapping, asymmetric gating, allost mechanism; 6.20A {Torpedo marmorata} PDB: 4aq9_C Length = 522 Back     alignment and structure
>2qc1_B Acetylcholine receptor subunit alpha; nicotinic acetylcholine receptor, glycosylated protein, beta sandwich, Cys-loop, buried hydrophilic residues; HET: NAG MAN; 1.94A {Mus musculus} PDB: 1l4w_B 1ljz_B Length = 212 Back     alignment and structure
>1vry_A Glycine receptor alpha-1 chain; second transmembrane domain, third transmembrane domain, membrane protein; NMR {Homo sapiens} SCOP: j.35.1.1 Length = 76 Back     alignment and structure
>3sq6_A ACHBP, neuronal acetylcholine receptor subunit alpha-7, acetylcholine-binding protein; nicotinic receptor; HET: EPJ NAG; 2.80A {Homo sapiens} PDB: 3sq9_A* Length = 204 Back     alignment and structure
>1uw6_A Acetylcholine-binding protein; pentamer, IGG fold, nicotine, glycoprotein; HET: NCT; 2.2A {Lymnaea stagnalis} SCOP: b.96.1.1 PDB: 1i9b_A* 1ux2_A* 3u8l_A* 1yi5_A 1uv6_A* 3u8k_A* 3u8j_B* 3u8m_A* 3u8n_A* 2zju_A* 2zjv_A* Length = 211 Back     alignment and structure
>4afh_A ACHBP; acetylcholine-binding protein, nicotinic receptor, ION chann; HET: NAG BMA MAN L0B; 1.88A {Capitella teleta} PDB: 4afg_A* Length = 230 Back     alignment and structure
>2wn9_A Soluble acetylcholine receptor; 4-0H-DMXBA, acetylcholine binding protein; HET: ZY5 NAG BMA MAN; 1.75A {Aplysia californica} PDB: 2wnj_A* 2wzy_A* 2x00_A* 3peo_A* 2pgz_A* 2ph9_A* 4dbm_A* 3c84_A* 2byq_A* 2byr_A* 2bys_A* 2wnc_A* 2wnl_A* 3c79_A* 2byn_A* 3pmz_A* 2x00_D* 2xnv_A* 2xnt_A* 2xnu_A* ... Length = 228 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
>2bj0_A Acetylcholine-binding protein; 3D-structure, glycoprotein, glycprotein, IGG fold, immunoglobulin domain, pentamer, signal; HET: CXS; 2.0A {Bulinus truncatus} Length = 203 Back     alignment and structure
>2lly_A Neuronal acetylcholine receptor subunit alpha-4; transmembrane domain, transport PROT; NMR {Homo sapiens} Length = 137 Back     alignment and structure
>2ksr_A Neuronal acetylcholine receptor subunit beta-2; nicotinic acetylcholine receptors, transmembrane domain, HFI junction, cell membrane; NMR {Homo sapiens} PDB: 2lm2_A Length = 164 Back     alignment and structure
>1mot_A Glycine receptor alpha-1 chain; second transmembrane domain, micelles, membrane protein; NMR {Homo sapiens} SCOP: j.35.1.1 Length = 28 Back     alignment and structure
>1oed_E Acetylcholine receptor protein, gamma chain; ION channel/receptor, ION channel, tubular crystal, transmembrane; 4.0A {Torpedo marmorata} SCOP: f.36.1.1 Length = 260 Back     alignment and structure
>2lkg_A Acetylcholine receptor; transmembrane domain, SIGN protein; NMR {Torpedo marmorata} PDB: 2lkh_A Length = 140 Back     alignment and structure
>1oed_B Acetylcholine receptor protein, beta chain; ION channel/receptor, ION channel, tubular crystal, transmembrane; 4.0A {Torpedo marmorata} SCOP: f.36.1.1 PDB: 2k58_B Length = 250 Back     alignment and structure
>1oed_A Acetylcholine receptor protein, alpha chain; ION channel/receptor, ION channel, tubular crystal, transmembrane; 4.0A {Torpedo marmorata} SCOP: f.36.1.1 PDB: 1dxz_A 3mra_A 2k59_B Length = 227 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query488
3rhw_A347 Avermectin-sensitive glutamate-gated chloride CHA 100.0
2bg9_E370 Acetylcholine receptor protein, gamma chain; ION c 100.0
2bg9_B370 Acetylcholine receptor protein, beta chain; ION ch 100.0
4aq5_B 493 Acetylcholine receptor beta subunit; membrane prot 100.0
2bg9_A370 Acetylcholine receptor protein, alpha chain; ION c 100.0
4aq5_A 461 Acetylcholine receptor subunit alpha; membrane pro 100.0
4aq5_E 488 Acetylcholine receptor gamma subunit; membrane pro 100.0
2bg9_C369 Acetylcholine receptor protein, delta chain; ION c 100.0
4aq5_C 522 Acetylcholine receptor delta subunit; membrane pro 100.0
3tlw_A321 GLR4197 protein, GLIC; Cys-loop receptor family, m 100.0
3rqw_A322 ELIC pentameric ligand gated ION channel from ERW 100.0
2qc1_B212 Acetylcholine receptor subunit alpha; nicotinic ac 100.0
4aoe_A205 Acetylcholine-binding protein type 2; ligand gated 100.0
4aod_A205 Acetylcholine-binding protein type 1; ligand gated 100.0
3sq6_A204 ACHBP, neuronal acetylcholine receptor subunit alp 100.0
2wn9_A228 Soluble acetylcholine receptor; 4-0H-DMXBA, acetyl 100.0
4afh_A230 ACHBP; acetylcholine-binding protein, nicotinic re 100.0
1uw6_A211 Acetylcholine-binding protein; pentamer, IGG fold, 100.0
3igq_A201 GLR4197 protein; plgic Cys-loop, membrane protein, 100.0
2bj0_A203 Acetylcholine-binding protein; 3D-structure, glyco 100.0
2ksr_A164 Neuronal acetylcholine receptor subunit beta-2; ni 99.79
2lkg_A140 Acetylcholine receptor; transmembrane domain, SIGN 99.73
2lly_A137 Neuronal acetylcholine receptor subunit alpha-4; t 99.71
1oed_A 227 Acetylcholine receptor protein, alpha chain; ION c 99.54
1oed_E 260 Acetylcholine receptor protein, gamma chain; ION c 99.53
1oed_B 250 Acetylcholine receptor protein, beta chain; ION ch 99.52
1oed_C 260 Acetylcholine receptor protein, delta chain; ION c 99.51
1vry_A76 Glycine receptor alpha-1 chain; second transmembra 99.09
>3rhw_A Avermectin-sensitive glutamate-gated chloride CHA alpha; membrane protein, transport protein, Cys-loop receptor, LIGA ION channel, neurotransmitter receptor; HET: NAG IVM LMT UND; 3.26A {Caenorhabditis elegans} PDB: 3ri5_A* 3ria_A* 3rif_A* Back     alignment and structure
Probab=100.00  E-value=1.3e-61  Score=497.60  Aligned_cols=308  Identities=33%  Similarity=0.649  Sum_probs=279.0

Q ss_pred             HHHHHHHHH-hcCCCCCCCCCCCCCcEEEEEEEEEeecccccccccccceeeEEEEEEEcCCcccc----CCCceEEecc
Q psy12313        173 ITLVLNNLL-KNYQSSEPPNHGKGEPTIIKTNMLIRSMGPISEIDMDYSMDCYFRQYWRDSRLSFM----GPINNLSLSI  247 (488)
Q Consensus       173 ~~~Ll~~Ll-~~Yd~~~rP~~~~~~pt~V~v~i~I~~I~~VDE~~~t~~v~~~l~~~W~D~RL~Wn----~~i~~i~l~~  247 (488)
                      +++|+++|| ++||+.+||+.+.++|++|.+++.+.+|.++||++|++++++|++|+|+|+||+||    ++++.+.+.+
T Consensus         2 ~~~L~~~Ll~~~Yd~~~RP~~~~~~~v~V~~~l~l~~i~~vde~~~~~t~~~~l~~~W~D~rL~w~p~~~~~~~~l~~~~   81 (347)
T 3rhw_A            2 DSKILAHLFTSGYDFRVRPPTDNGGPVVVSVNMLLRTISKIDVVNMEYSAQLTLRESWIDKRLSYGVKGDGQPDFVILTV   81 (347)
T ss_dssp             HHHHHHHHHHSCCCTTSCCCCSSSCCEEEEEEEEEEEEEEEETTTTEEEEEEEEEEEEECGGGCSSTTCSSSCSEEECCT
T ss_pred             HHHHHHHHhhcCCCCCCCCCCCCCCcEEEEEEEEEEeeccccccceeEEEEEEEeeEEECcccCCCCccCCCceEEEecc
Confidence            579999999 99999999999888999999999999999999999999999999999999999996    6788887632


Q ss_pred             cccccccccCeeeecccccceeeeeecceeEEEccCCcEEEecccceeeccCCCCCCCCCCCccccccccccccccccee
Q psy12313        248 KMLEKIWRPDTYILNGKQSYVHTITVPNKLLRINQDGDILYSMRLTIKANCPMSLRNFPMDTQSCPLILGSYAYPIEKLV  327 (488)
Q Consensus       248 ~~~~~IW~PdI~~~Ns~~~~~~~~~~~~~~v~V~~dG~V~~~~~~~~~~~C~~dl~~FPFD~Q~C~L~~~Sw~y~~~ev~  327 (488)
                        .++||+||++++|++++..+....++..++|++||+|.|.+|.++++.|++|+++||||+|+|+++|+||+|+.++++
T Consensus        82 --~~~IW~PDi~l~N~~~~~~~~~~~~n~~v~i~~~G~V~~~~~~~~~s~C~~dl~~FPfD~Q~C~l~f~S~~y~~~~v~  159 (347)
T 3rhw_A           82 --GHQIWMPDTFFPNEKQAYKHTIDKPNVLIRIHNDGTVLYSVRISLVLSCPMYLQYYPMDVQQCSIDLASYAYTTKDIE  159 (347)
T ss_dssp             --TCCCCCCCEECTTEEEEEECCSSSCSEEEEEETTSEEEEEEEEEEEEECCCCCTTGGGCEEEEEEEEEESSCCTTTEE
T ss_pred             --hhceecCCEeeeccccccccccccccEEEEEeCCCCEEEecceEEEEEeeeeeccCCCcceeEEEEeccCcCChhhEE
Confidence              699999999999999888776666777889999999999999999999999999999999999999999999999999


Q ss_pred             eeeCCCceeeccC--CccccceEeecCCccceeecccCCCeeEEEEEEEEEeccceeEEEEehhhHHHHHhhheeeeccC
Q psy12313        328 YHWTPGKSISFVP--GMAISQFDFISSPKRNFTFKRREGEFSLLQVNFNLKRHRGYFVIQVYVPCVLIVVLSWVSFWIHR  405 (488)
Q Consensus       328 l~~~~~~~v~~~~--~~~~~ew~l~~~~~~~~~~~~~~~~ys~l~~~i~LkR~~~~y~~~iilP~~livllsl~sFwLp~  405 (488)
                      +.|..++++...+  .+..+||++.+.....+...+..+.|+++.+.|.+||+++||++++++|++++++++|++||+|+
T Consensus       160 l~~~~~~~~~~~~~~~~~~~e~~l~~~~~~~~~~~~~~~~y~~l~~~~~l~R~~~~y~~~l~iP~~li~~ls~~sF~lp~  239 (347)
T 3rhw_A          160 YLWKEHSPLQLKVGLSSSLPSFQLTNTSTTYCTSVTNTGIYSCLRTTIQLKREFSFYLLQLYIPSCMLVIVSWVSFWFDR  239 (347)
T ss_dssp             EEECSSCSEEECTTSGGGCCSEEEEEEEEEECCEECSSCEECEEEEEEEEEECSHHHHHHTHHHHHHHHHHHHTTTTSCT
T ss_pred             EEecCCCceeecCcceeEccceEEeeEEeeEeeeeecccceeEEEEEEEEEEEeeEEEEEeehhHHHHHHHhheEEeccC
Confidence            9998765555444  56789999998766555555667899999999999999999999999999999999999999999


Q ss_pred             CCCCCeEeehHHHHHHHHHHHHHHhccCCCCCCcChhhHHHHHHHHHHHHHHHHHHHhhheeccCCC--CChhhHHHhc
Q psy12313        406 EATSDRIGLGITTVLTLSTISLDSRTDLPKVRYATALDWFLLMSFFYCIATILEFAAVHYFTKLCYP--GYPSGFIERL  482 (488)
Q Consensus       406 ~s~~~Ri~L~it~LLs~~~~~~~v~~~LP~~sylt~l~~~l~~~~i~v~~sli~~viV~~l~~~~~~--~~~~~~l~~L  482 (488)
                      ++.++|+++++|++|++++++..+++.+|++||+|++++|+.+|+++++++++|+++|+++.+++++  ...+.|++++
T Consensus       240 ~~~~~Rv~lgit~lLt~tv~~~~~~~~lP~~S~v~~id~~~~~~~~~v~~slle~~~v~~l~~~~~~~~~~~~~~~~~~  318 (347)
T 3rhw_A          240 TAIPARVTLGVTTLLTMTAQSAGINSQLPPVSYIKAIDVWIGACMTFIFCALLEFALVNHIANAGTTEWNDISKRVDLI  318 (347)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHHHHHHTSCCCSSCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHSSSHHHHHHHHHHHHH
T ss_pred             CCCcceEEEEeehHHHHHHHHHHHHhhCCCccceeHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcchhhhhhHHHHHH
Confidence            9778999999999999999999999999999999999999999999999999999999999887764  2344454443
>2bg9_E Acetylcholine receptor protein, gamma chain; ION channel/receptor, ION channel, electron microscopy, ION transport, postsynaptic membrane; 4.00A {Torpedo marmorata} Back     alignment and structure
>2bg9_B Acetylcholine receptor protein, beta chain; ION channel/receptor, ION channel, electron microscopy, ION transport, postsynaptic membrane; 4.00A {Torpedo marmorata} Back     alignment and structure
>4aq5_B Acetylcholine receptor beta subunit; membrane protein, freeze-trapping, asymmetric gating, allost mechanism; 6.20A {Torpedo marmorata} PDB: 4aq9_B Back     alignment and structure
>2bg9_A Acetylcholine receptor protein, alpha chain; ION channel/receptor, ION channel, electron microscopy, ION transport, postsynaptic membrane; 4.00A {Torpedo marmorata} Back     alignment and structure
>4aq5_A Acetylcholine receptor subunit alpha; membrane protein, freeze-trapping, asymmetric gating, allost mechanism; 6.20A {Torpedo marmorata} PDB: 4aq9_A Back     alignment and structure
>4aq5_E Acetylcholine receptor gamma subunit; membrane protein, freeze-trapping, asymmetric gating, allost mechanism; 6.20A {Torpedo marmorata} PDB: 4aq9_E Back     alignment and structure
>2bg9_C Acetylcholine receptor protein, delta chain; ION channel/receptor, ION channel, electron microscopy, ION transport, postsynaptic membrane; 4.00A {Torpedo marmorata} Back     alignment and structure
>4aq5_C Acetylcholine receptor delta subunit; membrane protein, freeze-trapping, asymmetric gating, allost mechanism; 6.20A {Torpedo marmorata} PDB: 4aq9_C Back     alignment and structure
>3tlw_A GLR4197 protein, GLIC; Cys-loop receptor family, membrane protein, transport protei; HET: LMT; 2.60A {Gloeobacter violaceus} PDB: 3uu4_A* 3uub_A* 3tlv_A* 3uu6_A* 3uu5_A* 3uu3_A* 3tlu_A* 3uu8_A* 3tls_A* 3tlt_A* 3p4w_A* 3p50_A* 3eam_A* 4f8h_A* 2xq4_A 2xq5_A 2xq6_A 2xq3_A 2xq8_A 2xqa_A ... Back     alignment and structure
>3rqw_A ELIC pentameric ligand gated ION channel from ERW chrysanthemi; membrane, transport protein; HET: ACH MES; 2.91A {Dickeya dadantii} PDB: 2yn6_A* 3rqu_A* 3uq4_A 3uq5_A 3uq7_A 2vl0_A 2yks_A 4a97_A* 4a96_A* 2yoe_A* 4a98_A* Back     alignment and structure
>2qc1_B Acetylcholine receptor subunit alpha; nicotinic acetylcholine receptor, glycosylated protein, beta sandwich, Cys-loop, buried hydrophilic residues; HET: NAG MAN; 1.94A {Mus musculus} PDB: 1l4w_B 1ljz_B Back     alignment and structure
>4aoe_A Acetylcholine-binding protein type 2; ligand gated ION channel, LGI Cys-loop receptor, ACHBP, ACHR, acetylcholin receptor; 5.80A {Biomphalaria glabrata} Back     alignment and structure
>4aod_A Acetylcholine-binding protein type 1; ligand gated ION channel, LGI Cys-loop receptor, ACHBP, ACHR, acetylcholine receptor; 6.00A {Biomphalaria glabrata} Back     alignment and structure
>3sq6_A ACHBP, neuronal acetylcholine receptor subunit alpha-7, acetylcholine-binding protein; nicotinic receptor; HET: EPJ NAG; 2.80A {Homo sapiens} SCOP: b.96.1.1 PDB: 3sq9_A* Back     alignment and structure
>2wn9_A Soluble acetylcholine receptor; 4-0H-DMXBA, acetylcholine binding protein; HET: ZY5 NAG BMA MAN; 1.75A {Aplysia californica} PDB: 2wnj_A* 2wzy_A* 2x00_A* 3peo_A* 2pgz_A* 2ph9_A* 4dbm_A* 3c84_A* 2byq_A* 2byr_A* 2bys_A* 2wnc_A* 2wnl_A* 3c79_A* 2byn_A* 3pmz_A* 2x00_D* 2xnv_A* 2xnt_A* 2xnu_A* ... Back     alignment and structure
>4afh_A ACHBP; acetylcholine-binding protein, nicotinic receptor, ION chann; HET: NAG BMA MAN L0B; 1.88A {Capitella teleta} PDB: 4afg_A* 4b5d_A* Back     alignment and structure
>1uw6_A Acetylcholine-binding protein; pentamer, IGG fold, nicotine, glycoprotein; HET: NCT; 2.2A {Lymnaea stagnalis} SCOP: b.96.1.1 PDB: 1i9b_A* 1ux2_A* 3u8l_A* 1yi5_A 1uv6_A* 3u8k_A* 3u8j_B* 3u8m_A* 3u8n_A* 2zju_A* 2zjv_A* Back     alignment and structure
>3igq_A GLR4197 protein; plgic Cys-loop, membrane protein, transport protein; 2.30A {Gloeobacter violaceus} Back     alignment and structure
>2bj0_A Acetylcholine-binding protein; 3D-structure, glycoprotein, glycprotein, IGG fold, immunoglobulin domain, pentamer, signal; HET: CXS; 2.0A {Bulinus truncatus} Back     alignment and structure
>2ksr_A Neuronal acetylcholine receptor subunit beta-2; nicotinic acetylcholine receptors, transmembrane domain, HFI junction, cell membrane; NMR {Homo sapiens} PDB: 2lm2_A Back     alignment and structure
>2lkg_A Acetylcholine receptor; transmembrane domain, SIGN protein; NMR {Torpedo marmorata} PDB: 2lkh_A Back     alignment and structure
>2lly_A Neuronal acetylcholine receptor subunit alpha-4; transmembrane domain, transport PROT; NMR {Homo sapiens} Back     alignment and structure
>1oed_A Acetylcholine receptor protein, alpha chain; ION channel/receptor, ION channel, tubular crystal, transmembrane; 4.0A {Torpedo marmorata} SCOP: f.36.1.1 PDB: 1dxz_A 3mra_A 2k59_B Back     alignment and structure
>1oed_E Acetylcholine receptor protein, gamma chain; ION channel/receptor, ION channel, tubular crystal, transmembrane; 4.0A {Torpedo marmorata} SCOP: f.36.1.1 Back     alignment and structure
>1oed_B Acetylcholine receptor protein, beta chain; ION channel/receptor, ION channel, tubular crystal, transmembrane; 4.0A {Torpedo marmorata} SCOP: f.36.1.1 PDB: 2k58_B Back     alignment and structure
>1oed_C Acetylcholine receptor protein, delta chain; ION channel/receptor, ION channel, tubular crystal, transmembrane; 4.0A {Torpedo marmorata} SCOP: f.36.1.1 PDB: 1a11_A 1cek_A 1eq8_A Back     alignment and structure
>1vry_A Glycine receptor alpha-1 chain; second transmembrane domain, third transmembrane domain, membrane protein; NMR {Homo sapiens} SCOP: j.35.1.1 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 488
d1uw6a_208 b.96.1.1 (A:) Acetylcholine binding protein (ACHBP 1e-24
d1oede_ 260 f.36.1.1 (E:) Acetylcholine receptor protein, gamm 3e-18
d1oedb_ 250 f.36.1.1 (B:) Acetylcholine receptor protein, beta 9e-17
d1oeda_ 227 f.36.1.1 (A:) Acetylcholine receptor protein, alph 8e-16
d1oedc_ 260 f.36.1.1 (C:) Acetylcholine receptor protein, delt 8e-16
>d1uw6a_ b.96.1.1 (A:) Acetylcholine binding protein (ACHBP) {Great pond snail (Lymnaea stagnalis) [TaxId: 6523]} Length = 208 Back     information, alignment and structure

class: All beta proteins
fold: Nicotinic receptor ligand binding domain-like
superfamily: Nicotinic receptor ligand binding domain-like
family: Nicotinic receptor ligand binding domain-like
domain: Acetylcholine binding protein (ACHBP)
species: Great pond snail (Lymnaea stagnalis) [TaxId: 6523]

 Score = 99.1 bits (246), Expect = 1e-24
 Identities = 32/204 (15%), Positives = 82/204 (40%), Gaps = 10/204 (4%)

Query: 179 NLLKNYQSSEPPN---HGKGEPTIIKTNMLIRSMGPISEIDMDYSMDCYFRQYWRDSRLS 235
           ++L N + +  P+     +  P  +  ++   ++  ++EI  +  +  + +  W D  L+
Sbjct: 6   DILYNIRQTSRPDVIPTQRDRPVAVSVSLKFINILEVNEITNEVDVVFWQQTTWSDRTLA 65

Query: 236 FMGPINNLSLSIKMLEKIWRPDTYILNGKQSYVHTITVPNKLLRINQDGDILYSMRLTIK 295
           +    ++       +  +W PD    N             +L R+  DG++LY   +  +
Sbjct: 66  W-NSSHSPDQVSVPISSLWVPDLAAYNAISKPEVL---TPQLARVVSDGEVLYMPSIRQR 121

Query: 296 ANCPMSLRNFPMDTQSCPLILGSYAYPIEKLVYHWTPGKSISFVPGMAISQFDFISSP-- 353
            +C +S  +      +C + +GS+ +   ++    T   S         S+F+ +     
Sbjct: 122 FSCDVSGVDTESG-ATCRIKIGSWTHHSREISVDPTTENSDDSEYFSQYSRFEILDVTQK 180

Query: 354 KRNFTFKRREGEFSLLQVNFNLKR 377
           K + T+      +  ++V+ N ++
Sbjct: 181 KNSVTYSCCPEAYEDVEVSLNFRK 204
>d1oede_ f.36.1.1 (E:) Acetylcholine receptor protein, gamma chain {Marbled electric ray (Torpedo marmorata) [TaxId: 7788]} Length = 260 Back     information, alignment and structure
>d1oedb_ f.36.1.1 (B:) Acetylcholine receptor protein, beta chain {Marbled electric ray (Torpedo marmorata) [TaxId: 7788]} Length = 250 Back     information, alignment and structure
>d1oeda_ f.36.1.1 (A:) Acetylcholine receptor protein, alpha chain {Marbled electric ray (Torpedo marmorata) [TaxId: 7788]} Length = 227 Back     information, alignment and structure
>d1oedc_ f.36.1.1 (C:) Acetylcholine receptor protein, delta chain {Marbled electric ray (Torpedo marmorata) [TaxId: 7788]} Length = 260 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 ?
Query488
d1uw6a_208 Acetylcholine binding protein (ACHBP) {Great pond 100.0
d1oede_ 260 Acetylcholine receptor protein, gamma chain {Marbl 99.6
d1oedc_ 260 Acetylcholine receptor protein, delta chain {Marbl 99.58
d1oeda_ 227 Acetylcholine receptor protein, alpha chain {Marbl 99.57
d1oedb_ 250 Acetylcholine receptor protein, beta chain {Marble 99.52
>d1uw6a_ b.96.1.1 (A:) Acetylcholine binding protein (ACHBP) {Great pond snail (Lymnaea stagnalis) [TaxId: 6523]} Back     information, alignment and structure
class: All beta proteins
fold: Nicotinic receptor ligand binding domain-like
superfamily: Nicotinic receptor ligand binding domain-like
family: Nicotinic receptor ligand binding domain-like
domain: Acetylcholine binding protein (ACHBP)
species: Great pond snail (Lymnaea stagnalis) [TaxId: 6523]

Probab=100.00  E-value=1.8e-36  Score=286.92  Aligned_cols=201  Identities=16%  Similarity=0.304  Sum_probs=169.9

Q ss_pred             hHHHHHHHHHhcCCCCCCCCCCCCCcEEEEEEEEEeecccccccccccceeeEEEEEEEcCCcccc--CCCceEEecccc
Q psy12313        172 NITLVLNNLLKNYQSSEPPNHGKGEPTIIKTNMLIRSMGPISEIDMDYSMDCYFRQYWRDSRLSFM--GPINNLSLSIKM  249 (488)
Q Consensus       172 ~~~~Ll~~Ll~~Yd~~~rP~~~~~~pt~V~v~i~I~~I~~VDE~~~t~~v~~~l~~~W~D~RL~Wn--~~i~~i~l~~~~  249 (488)
                      .++.|+.++.+.|++.++|.. .++|+.|.+++.+.+|.++||.+|++++++|++|.|+|+||+||  ++.+.+.++   
T Consensus         3 ~~~dll~~y~~~~rP~~~P~~-~~~pv~V~~~l~l~~i~~vde~~q~~~~~~~~~~~W~D~rL~Wnp~~~~~~~~v~---   78 (208)
T d1uw6a_           3 DRADILYNIRQTSRPDVIPTQ-RDRPVAVSVSLKFINILEVNEITNEVDVVFWQQTTWSDRTLAWNSSHSPDQVSVP---   78 (208)
T ss_dssp             CHHHHHHHHHHHCCTTSCCCC-TTCCEEEEEEEEEEEEEEEETTTTEEEEEEEEEEEEECGGGCCCCTTSCSEEEEE---
T ss_pred             cHHHhHhccccccCCCcCCcC-CCCCEEEEEEEEEEeEeeecccCCEEEEEEEEEEEEECCccccccccCCceeccc---
Confidence            356677777777777777764 47899999999999999999999999999999999999999999  455678888   


Q ss_pred             cccccccCeeeecccccceeeeeecceeEEEccCCcEEEecccceeeccCCCCCCCCCCCcccccccccccccccceeee
Q psy12313        250 LEKIWRPDTYILNGKQSYVHTITVPNKLLRINQDGDILYSMRLTIKANCPMSLRNFPMDTQSCPLILGSYAYPIEKLVYH  329 (488)
Q Consensus       250 ~~~IW~PdI~~~Ns~~~~~~~~~~~~~~v~V~~dG~V~~~~~~~~~~~C~~dl~~FPFD~Q~C~L~~~Sw~y~~~ev~l~  329 (488)
                      .++||+||++++|+++....   .....++|+++|+|.|.+++.+++.|++++..|| |+|+|.|.||||+|+..++.+.
T Consensus        79 ~~~iW~PDi~l~n~~~~~~~---~~~~~~~v~~~G~V~~~~~~~~~~~C~~~~~~f~-d~Q~C~l~fgSw~y~~~~i~l~  154 (208)
T d1uw6a_          79 ISSLWVPDLAAYNAISKPEV---LTPQLARVVSDGEVLYMPSIRQRFSCDVSGVDTE-SGATCRIKIGSWTHHSREISVD  154 (208)
T ss_dssp             GGGSCCCCEEETTBCSCCEE---CSCCEEEEETTSEEEECCEEEEEEECCCTTTTSS-SCEEEEEEEEESSCCTTTEEEE
T ss_pred             hhccccccEEEEEEcccccc---ccceEEEEEeCCcEEEEecEEEEEeccccccCCc-ceEEEEEEEeCceeccceEEEe
Confidence            79999999999998776532   2345578999999999999999999999987777 7999999999999999999998


Q ss_pred             eCCCceeeccCCccccceEeecCCccce--eecccCCCeeEEEEEEEEEeccc
Q psy12313        330 WTPGKSISFVPGMAISQFDFISSPKRNF--TFKRREGEFSLLQVNFNLKRHRG  380 (488)
Q Consensus       330 ~~~~~~v~~~~~~~~~ew~l~~~~~~~~--~~~~~~~~ys~l~~~i~LkR~~~  380 (488)
                      +..++.........++||++.+.+....  .+.+|++.|+.+.|.|+|||++.
T Consensus       155 ~~~~~~~~~~~~~~~~eW~l~~~~~~~~~~~y~cc~~~y~~i~~~i~lrRr~~  207 (208)
T d1uw6a_         155 PTTENSDDSEYFSQYSRFEILDVTQKKNSVTYSCCPEAYEDVEVSLNFRKKGR  207 (208)
T ss_dssp             ECCCSSCTTTTSCTTSSEEEEEEEEEEEEEECTTCSSEEEEEEEEEEEEECCC
T ss_pred             eccCCCccccccccCCCEEEEEeEEEEEEEEeCCCCCCcceEEEEEEEEECCC
Confidence            8766544344456789999999876433  34556889999999999999985
>d1oede_ f.36.1.1 (E:) Acetylcholine receptor protein, gamma chain {Marbled electric ray (Torpedo marmorata) [TaxId: 7788]} Back     information, alignment and structure
>d1oedc_ f.36.1.1 (C:) Acetylcholine receptor protein, delta chain {Marbled electric ray (Torpedo marmorata) [TaxId: 7788]} Back     information, alignment and structure
>d1oeda_ f.36.1.1 (A:) Acetylcholine receptor protein, alpha chain {Marbled electric ray (Torpedo marmorata) [TaxId: 7788]} Back     information, alignment and structure
>d1oedb_ f.36.1.1 (B:) Acetylcholine receptor protein, beta chain {Marbled electric ray (Torpedo marmorata) [TaxId: 7788]} Back     information, alignment and structure