Psyllid ID: psy17845

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80-
Protein Sequence
MNGRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRITQYGISSPPTVAPRL
Secondary Structure (PSIPRED)
cccccccccccccHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccHHHHcccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHccccccccccc
Coil and Loop (DISEMBL)
mngrqvvthpdtnhiveDWKYVSMVLDRFFLCVFTAACVLGtcgiifqapslydntapidiqmtritqygisspptvaprl
Flexible Loop (DISEMBL)
mngrqvvthpdtnhivedWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRitqygisspptvaprl
Low Complexity Region (SEG)
MNGRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRITQYGISSPPTVAPRL
Disordered region (IsUnstruct)
**********DTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRITQYGI**********
Disordered Region (DISOPRED)
****Q*********IVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMT*****************
Disordered Region (DISEMBL)
MNGRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRITQYGISSPPTVAPRL
Disordered Region (DISPRO)
***********TNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRITQYGISSP*******
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MNGRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRITQYGISSPPTVAPRL
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	81	2.2.26 [Sep-21-2011]
P25162	519	Acetylcholine receptor su	yes	N/A	0.666	0.104	0.666	2e-15
P91766	516	Acetylcholine receptor su	N/A	N/A	0.765	0.120	0.532	5e-14
P09478	567	Acetylcholine receptor su	no	N/A	0.666	0.095	0.611	2e-13
P23414	557	Acetylcholine receptor su	N/A	N/A	0.641	0.093	0.5	5e-11
Q9N587	502	Acetylcholine receptor su	yes	N/A	0.567	0.091	0.586	1e-10
Q23022	511	Acetylcholine receptor su	no	N/A	0.543	0.086	0.590	6e-10
P54247	436	Acetylcholine receptor no	N/A	N/A	0.567	0.105	0.608	2e-09
P17644	576	Acetylcholine receptor su	no	N/A	0.641	0.090	0.461	9e-09
Q9R0W9	494	Neuronal acetylcholine re	yes	N/A	0.506	0.082	0.512	4e-07
P26153	470	Neuronal acetylcholine re	yes	N/A	0.419	0.072	0.588	6e-07

>sp|P25162|ACH4_DROME Acetylcholine receptor subunit beta-like 2 OS=Drosophila melanogaster GN=nAcRbeta-96A PE=2 SV=3

 Score = 80.9 bits (198), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 36/54 (66%), Positives = 43/54 (79%)

Query: 13  NHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRI 66
           N IVEDWK+VSMVLDRFFL +FT +CV GT  II Q+PSLYD  +PID Q++ I
Sbjct: 447 NEIVEDWKFVSMVLDRFFLWLFTLSCVFGTLAIICQSPSLYDTRSPIDRQLSEI 500

After binding acetylcholine, the AChR responds by an extensive change in conformation that affects all subunits and leads to opening of an ion-conducting channel across the plasma membrane.
Drosophila melanogaster (taxid: 7227)

>sp|P91766|ACH1_MANSE Acetylcholine receptor subunit alpha-like OS=Manduca sexta GN=ARA1 PE=2 SV=1

 Score = 76.3 bits (186), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 33/62 (53%), Positives = 45/62 (72%)

Query: 5   QVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMT 64
           Q     ++  + EDWKYV+MVLDR FL +FT A V+G+ GII QAP+LYD  APID++++
Sbjct: 442 QTRKEEESTRVKEDWKYVAMVLDRPFLWIFTLAVVVGSAGIILQAPTLYDERAPIDVRLS 501

Query: 65  RI 66
            I
Sbjct: 502 EI 503

After binding acetylcholine, the AChR responds by an extensive change in conformation that affects all subunits and leads to opening of an ion-conducting channel across the plasma membrane.

Manduca sexta (taxid: 7130)

>sp|P09478|ACH1_DROME Acetylcholine receptor subunit alpha-like 1 OS=Drosophila melanogaster GN=nAcRalpha-96Aa PE=2 SV=2

 Score = 74.3 bits (181), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 33/54 (61%), Positives = 41/54 (75%)

Query: 15  IVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRITQ 68
           + EDWKYV+MVLDR FL +F  ACV+GT  II QAPSLYD + PIDI  ++I +
Sbjct: 500 VEEDWKYVAMVLDRMFLWIFAIACVVGTALIILQAPSLYDQSQPIDILYSKIAK 553

After binding acetylcholine, the AChR responds by an extensive change in conformation that affects all subunits and leads to opening of an ion-conducting channel across the plasma membrane.

Drosophila melanogaster (taxid: 7227)

>sp|P23414|ACH1_SCHGR Acetylcholine receptor subunit alpha-L1 OS=Schistocerca gregaria PE=2 SV=1

 Score = 66.6 bits (161), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 26/52 (50%), Positives = 41/52 (78%)

Query: 17  EDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRITQ 68
           +DW +V+MVLDR FL +FT A ++GT  I+ +AP+LYD+T PID++++ + Q
Sbjct: 497 QDWGFVAMVLDRLFLWIFTIASIVGTFAILCEAPALYDDTKPIDMELSSVAQ 548

After binding acetylcholine, the AChR responds by an extensive change in conformation that affects all subunits and leads to opening of an ion-conducting channel across the plasma membrane.

Schistocerca gregaria (taxid: 7010)

>sp|Q9N587|ACH6_CAEEL Acetylcholine receptor subunit alpha-type unc-63 OS=Caenorhabditis elegans GN=unc-63 PE=1 SV=2

 Score = 64.7 bits (156), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 27/46 (58%), Positives = 34/46 (73%)

Query: 11  DTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNT 56
           D   ++EDWKY+S+V+DR FL  FT AC  GT  II +APS+YDNT
Sbjct: 453 DDKQVIEDWKYISVVMDRIFLITFTFACAFGTVVIIARAPSIYDNT 498

Acetylcholine receptor.

Caenorhabditis elegans (taxid: 6239)

>sp|Q23022|ACH5_CAEEL Acetylcholine receptor subunit alpha-type unc-38 OS=Caenorhabditis elegans GN=unc-38 PE=2 SV=1

 Score = 62.8 bits (151), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 26/44 (59%), Positives = 34/44 (77%)

Query: 19  WKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQ 62
           WKYV+MVLDR FL +F+ AC +GT  I+ +AP+LYD   PID+Q
Sbjct: 455 WKYVAMVLDRLFLLIFSIACFVGTVIILLRAPTLYDTRQPIDLQ 498

Acetylcholine receptor.

Caenorhabditis elegans (taxid: 6239)

>sp|P54247|ACHX_ONCVO Acetylcholine receptor non-alpha chain (Fragment) OS=Onchocerca volvulus PE=2 SV=1

 Score = 61.2 bits (147), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 28/46 (60%), Positives = 34/46 (73%)

Query: 15  IVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPID 60
           I EDWK+V+ VLDR FL +F+ AC LGT  I+FQAPSLYD    I+
Sbjct: 391 IDEDWKFVARVLDRLFLLLFSIACFLGTILILFQAPSLYDTRQAIN 436

After binding acetylcholine, the AChR responds by an extensive change in conformation that affects all subunits and leads to opening of an ion-conducting channel across the plasma membrane.

Onchocerca volvulus (taxid: 6282)

>sp|P17644|ACH2_DROME Acetylcholine receptor subunit alpha-like 2 OS=Drosophila melanogaster GN=nAcRalpha-96Ab PE=2 SV=1

 Score = 58.9 bits (141), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 24/52 (46%), Positives = 39/52 (75%)

Query: 17  EDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRITQ 68
           +DW +V+MV+DR FL +F  A ++GT  I+ +APSLYD+T  ID+Q++ + +
Sbjct: 515 QDWGFVAMVMDRLFLWLFMIASLVGTFVILGEAPSLYDDTKAIDVQLSDVAK 566

After binding acetylcholine, the AChR responds by an extensive change in conformation that affects all subunits and leads to opening of an ion-conducting channel across the plasma membrane.

Drosophila melanogaster (taxid: 7227)

>sp|Q9R0W9|ACHA6_MOUSE Neuronal acetylcholine receptor subunit alpha-6 OS=Mus musculus GN=Chrna6 PE=2 SV=2

 Score = 53.5 bits (127), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 21/41 (51%), Positives = 29/41 (70%)

Query: 8   THPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQ 48
           +H +TN + +DWKY++MV+DR FL VF   CV GT G+  Q
Sbjct: 445 SHNETNEVEDDWKYMAMVVDRVFLWVFIIVCVFGTVGLFLQ 485

After binding acetylcholine, the AChR responds by an extensive change in conformation that affects all subunits and leads to opening of an ion-conducting channel across the plasma membrane.

Mus musculus (taxid: 10090)

>sp|P26153|ACHB4_CHICK Neuronal acetylcholine receptor subunit beta-4 (Fragment) OS=Gallus gallus GN=CHRNB4 PE=2 SV=1

 Score = 52.8 bits (125), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 20/34 (58%), Positives = 26/34 (76%)

Query: 15  IVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQ 48
           ++EDWKYV+MV+DR FL +F   CVLGT G+  Q
Sbjct: 425 VIEDWKYVAMVVDRLFLWIFVLVCVLGTVGLFLQ 458

After binding acetylcholine, the AChR responds by an extensive change in conformation that affects all subunits and leads to opening of an ion-conducting channel across the plasma membrane.

Gallus gallus (taxid: 9031)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	81
375004967	538	nicotinic acetylcholine receptor alpha8	0.666	0.100	0.759	2e-16
2764509	515	nicotinic acetylcholine receptor, alpha2	0.679	0.106	0.709	2e-16
215274049	531	nicotinic acetylcholine receptor alpha 8	0.827	0.126	0.647	2e-16
218175578	539	nicotinic acetylcholine receptor alpha 8	0.666	0.100	0.722	3e-16
195547831	535	nicotinic acetylcholine receptor alpha 8	0.703	0.106	0.689	5e-16
5706483	532	nicotinic acetylcholine receptor alpha 4	0.666	0.101	0.685	1e-15
193676558	532	PREDICTED: acetylcholine receptor subuni	0.666	0.101	0.685	1e-15
124263263	532	nicotinic acetylcholine receptor alpha 4	0.666	0.101	0.685	1e-15
22212774	532	nicotinic acetylcholine receptor alpha 1	0.666	0.101	0.685	1e-15
399912711	532	nicotinic acetylcholine receptor alpha 4	0.666	0.101	0.685	1e-15

>gi|375004967|gb|AFA28130.1| nicotinic acetylcholine receptor alpha8 subunit [Periplaneta americana]

 Score = 89.7 bits (221), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 41/54 (75%), Positives = 45/54 (83%)

Query: 13  NHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRI 66
           N IVEDWKYVSMVLDRFFL VFT AC+ GTCGIIFQAPSLYD   PID +++ I
Sbjct: 467 NEIVEDWKYVSMVLDRFFLWVFTLACIGGTCGIIFQAPSLYDKRKPIDQELSDI 520

Source: Periplaneta americana

Species: Periplaneta americana

Genus: Periplaneta

Family: Blattidae

Order: Blattodea

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|2764509|emb|CAA04053.1| nicotinic acetylcholine receptor, alpha2 subunit [Locusta migratoria]

 Score = 89.7 bits (221), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 39/55 (70%), Positives = 45/55 (81%)

Query: 13  NHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRIT 67
           N ++EDWKYVSMVLDRFFL +FT AC+ GTCGIIFQAPSLYD   PID Q + I+
Sbjct: 442 NEVIEDWKYVSMVLDRFFLWIFTLACIAGTCGIIFQAPSLYDKRIPIDQQKSAIS 496

Source: Locusta migratoria

Species: Locusta migratoria

Genus: Locusta

Family: Acrididae

Order: Orthoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|215274049|gb|ACJ64922.1| nicotinic acetylcholine receptor alpha 8 [Leptinotarsa decemlineata]

 Score = 89.7 bits (221), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 44/68 (64%), Positives = 49/68 (72%), Gaps = 1/68 (1%)

Query: 13  NHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRITQYGIS 72
           N IVEDWK+VSMVLDRFFL VFT AC+ GTCGIIFQAPSLYD   P+D Q++ I    I 
Sbjct: 462 NEIVEDWKFVSMVLDRFFLWVFTIACIGGTCGIIFQAPSLYDTRIPVDQQLSEIPLNKIF 521

Query: 73  S-PPTVAP 79
             PP   P
Sbjct: 522 QLPPKQVP 529

Source: Leptinotarsa decemlineata

Species: Leptinotarsa decemlineata

Genus: Leptinotarsa

Family: Chrysomelidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|218175578|gb|ACK75719.1| nicotinic acetylcholine receptor alpha 8 subunit [Nilaparvata lugens]

 Score = 89.4 bits (220), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 39/54 (72%), Positives = 45/54 (83%)

Query: 13  NHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRI 66
           N ++EDWKY+SMVLDRFFL VFT AC+ GTCGIIFQAPSLYD   PID Q++ I
Sbjct: 467 NEVIEDWKYISMVLDRFFLWVFTIACIGGTCGIIFQAPSLYDQRIPIDQQLSDI 520

Source: Nilaparvata lugens

Species: Nilaparvata lugens

Genus: Nilaparvata

Family: Delphacidae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195547831|gb|ACG49259.1| nicotinic acetylcholine receptor alpha 8 subunit [Liposcelis bostrychophila]

 Score = 88.6 bits (218), Expect = 5e-16,   Method: Composition-based stats.
 Identities = 40/58 (68%), Positives = 48/58 (82%), Gaps = 1/58 (1%)

Query: 13  NHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRITQYG 70
           N ++EDWKYVSMVLDRFFL +FT AC+ GTCGIIFQAPSLYD   PID +++ I Q+G
Sbjct: 465 NEVIEDWKYVSMVLDRFFLWIFTLACIGGTCGIIFQAPSLYDQRIPIDQEISLI-QFG 521

Source: Liposcelis bostrychophila

Species: Liposcelis bostrychophila

Genus: Liposcelis

Family: Liposcelidae

Order: Psocoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|5706483|emb|CAB52298.1| nicotinic acetylcholine receptor alpha 4 subunit [Myzus persicae]

 Score = 87.4 bits (215), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 37/54 (68%), Positives = 43/54 (79%)

Query: 13  NHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRI 66
             ++EDWKYVSMV DRFFL VFT AC++GTC IIFQAPSLYD   PID Q++ I
Sbjct: 456 KEVIEDWKYVSMVFDRFFLWVFTLACIVGTCAIIFQAPSLYDQRQPIDFQLSSI 509

Source: Myzus persicae

Species: Myzus persicae

Genus: Myzus

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|193676558|ref|XP_001950018.1| PREDICTED: acetylcholine receptor subunit beta-like 2-like [Acyrthosiphon pisum]

 Score = 87.4 bits (215), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 37/54 (68%), Positives = 43/54 (79%)

Query: 13  NHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRI 66
             ++EDWKYVSMV DRFFL VFT AC++GTC IIFQAPSLYD   PID Q++ I
Sbjct: 456 KEVIEDWKYVSMVFDRFFLWVFTLACIVGTCAIIFQAPSLYDQRQPIDFQLSSI 509

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|124263263|gb|ABM97501.1| nicotinic acetylcholine receptor alpha 4 subunit [Sitobion avenae]

 Score = 87.4 bits (215), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 37/54 (68%), Positives = 43/54 (79%)

Query: 13  NHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRI 66
             ++EDWKYVSMV DRFFL VFT AC++GTC IIFQAPSLYD   PID Q++ I
Sbjct: 456 KEVIEDWKYVSMVFDRFFLWVFTLACIVGTCAIIFQAPSLYDQRQPIDFQLSSI 509

Source: Sitobion avenae

Species: Sitobion avenae

Genus: Sitobion

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|22212774|gb|AAM94383.1| nicotinic acetylcholine receptor alpha 1 subunit [Aphis gossypii]

 Score = 87.0 bits (214), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 37/54 (68%), Positives = 43/54 (79%)

Query: 13  NHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRI 66
             ++EDWKYVSMV DRFFL VFT AC++GTC IIFQAPSLYD   PID Q++ I
Sbjct: 456 KEVIEDWKYVSMVFDRFFLWVFTLACIVGTCAIIFQAPSLYDQRQPIDFQLSSI 509

Source: Aphis gossypii

Species: Aphis gossypii

Genus: Aphis

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|399912711|gb|AFP55242.1| nicotinic acetylcholine receptor alpha 4 subunit [Aphis glycines]

 Score = 87.0 bits (214), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 37/54 (68%), Positives = 43/54 (79%)

Query: 13  NHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRI 66
             ++EDWKYVSMV DRFFL VFT AC++GTC IIFQAPSLYD   PID Q++ I
Sbjct: 456 KEVIEDWKYVSMVFDRFFLWVFTLACIVGTCAIIFQAPSLYDQRQPIDFQLSSI 509

Source: Aphis glycines

Species: Aphis glycines

Genus: Aphis

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	81
FB|FBgn0004118	519	nAcRbeta-96A "nicotinic Acetyl	0.666	0.104	0.666	3.3e-14
FB|FBgn0015519	795	nAcRalpha-7E "nicotinic Acetyl	0.814	0.083	0.529	2.3e-13
FB|FBgn0000036	567	nAcRalpha-96Aa "nicotinic Acet	0.666	0.095	0.611	1.6e-12
FB|FBgn0037212	568	nAcRalpha-80B "nicotinic Acety	0.790	0.112	0.521	9.2e-12
WB|WBGene00006774	511	unc-38 [Caenorhabditis elegans	0.592	0.093	0.604	9.2e-11
WB|WBGene00006797	502	unc-63 [Caenorhabditis elegans	0.567	0.091	0.586	1.9e-10
FB|FBgn0000039	576	nAcRalpha-96Ab "nicotinic Acet	0.641	0.090	0.461	4.3e-08
MGI|MGI:106213	494	Chrna6 "cholinergic receptor,	0.580	0.095	0.510	1.9e-07
UNIPROTKB|Q15825	494	CHRNA6 "Neuronal acetylcholine	0.580	0.095	0.510	3.2e-07
UNIPROTKB|Q5IS76	494	CHRNA6 "Neuronal acetylcholine	0.580	0.095	0.510	3.2e-07

FB|FBgn0004118 nAcRbeta-96A "nicotinic Acetylcholine Receptor beta 96A" [Drosophila melanogaster (taxid:7227)]

 Score = 191 (72.3 bits), Expect = 3.3e-14, P = 3.3e-14
 Identities = 36/54 (66%), Positives = 43/54 (79%)

Query:    13 NHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRI 66
             N IVEDWK+VSMVLDRFFL +FT +CV GT  II Q+PSLYD  +PID Q++ I
Sbjct:   447 NEIVEDWKFVSMVLDRFFLWLFTLSCVFGTLAIICQSPSLYDTRSPIDRQLSEI 500

GO:0005892 "acetylcholine-gated channel complex" evidence=ISS

GO:0004889 "acetylcholine-activated cation-selective channel activity" evidence=ISS

GO:0005887 "integral to plasma membrane" evidence=NAS

GO:0006811 "ion transport" evidence=IEA

GO:0045211 "postsynaptic membrane" evidence=IEA

FB|FBgn0015519 nAcRalpha-7E "nicotinic Acetylcholine Receptor alpha 7E" [Drosophila melanogaster (taxid:7227)]

 Score = 186 (70.5 bits), Expect = 2.3e-13, P = 2.3e-13
 Identities = 36/68 (52%), Positives = 48/68 (70%)

Query:    11 DTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRITQYG 70
             ++  + EDWKYV+MVLDR FL +FT A V+GT GII QAP+LYD   PIDI+++ I    
Sbjct:   726 ESTRVKEDWKYVAMVLDRLFLWIFTIAVVVGTAGIILQAPTLYDTRMPIDIKLSEIAS-- 783

Query:    71 ISSPPTVA 78
              ++ P VA
Sbjct:   784 TTAKPNVA 791

GO:0005892 "acetylcholine-gated channel complex" evidence=ISS

GO:0004889 "acetylcholine-activated cation-selective channel activity" evidence=ISS

GO:0006811 "ion transport" evidence=IEA

GO:0045211 "postsynaptic membrane" evidence=IEA

FB|FBgn0000036 nAcRalpha-96Aa "nicotinic Acetylcholine Receptor alpha 96Aa" [Drosophila melanogaster (taxid:7227)]

 Score = 176 (67.0 bits), Expect = 1.6e-12, P = 1.6e-12
 Identities = 33/54 (61%), Positives = 41/54 (75%)

Query:    15 IVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRITQ 68
             + EDWKYV+MVLDR FL +F  ACV+GT  II QAPSLYD + PIDI  ++I +
Sbjct:   500 VEEDWKYVAMVLDRMFLWIFAIACVVGTALIILQAPSLYDQSQPIDILYSKIAK 553

GO:0005887 "integral to plasma membrane" evidence=NAS

GO:0004889 "acetylcholine-activated cation-selective channel activity" evidence=IEA;ISS

GO:0005892 "acetylcholine-gated channel complex" evidence=ISS

GO:0016021 "integral to membrane" evidence=IEA

GO:0006811 "ion transport" evidence=IEA

GO:0045211 "postsynaptic membrane" evidence=IEA

FB|FBgn0037212 nAcRalpha-80B "nicotinic Acetylcholine Receptor alpha 80B" [Drosophila melanogaster (taxid:7227)]

 Score = 169 (64.5 bits), Expect = 9.2e-12, P = 9.2e-12
 Identities = 36/69 (52%), Positives = 45/69 (65%)

Query:    11 DTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPI----DIQMTRI 66
             D+  + EDWKYV+MVLDR FL +FT A V+GT GII QAP+LYD+  PI    D+  +  
Sbjct:   500 DSTKVKEDWKYVAMVLDRLFLWIFTLAVVVGTAGIILQAPTLYDDRIPIIEQKDLDFSG- 558

Query:    67 TQYGISSPP 75
             T  G   PP
Sbjct:   559 TSAGRCRPP 567

GO:0005892 "acetylcholine-gated channel complex" evidence=ISS

GO:0004889 "acetylcholine-activated cation-selective channel activity" evidence=ISS

GO:0006811 "ion transport" evidence=IEA

GO:0045211 "postsynaptic membrane" evidence=IEA

WB|WBGene00006774 unc-38 [Caenorhabditis elegans (taxid:6239)]

 Score = 159 (61.0 bits), Expect = 9.2e-11, P = 9.2e-11
 Identities = 29/48 (60%), Positives = 37/48 (77%)

Query:    15 IVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQ 62
             I EDWKYV+MVLDR FL +F+ AC +GT  I+ +AP+LYD   PID+Q
Sbjct:   451 IDEDWKYVAMVLDRLFLLIFSIACFVGTVIILLRAPTLYDTRQPIDLQ 498

GO:0006811 "ion transport" evidence=IEA;IDA

GO:0045211 "postsynaptic membrane" evidence=IEA;IDA

GO:0005230 "extracellular ligand-gated ion channel activity" evidence=IEA;IDA

GO:0004889 "acetylcholine-activated cation-selective channel activity" evidence=IEA

GO:0005216 "ion channel activity" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0040011 "locomotion" evidence=IMP

GO:0046662 "regulation of oviposition" evidence=IMP

GO:0007274 "neuromuscular synaptic transmission" evidence=IDA

GO:0045202 "synapse" evidence=IDA

GO:0043005 "neuron projection" evidence=IDA

GO:0015464 "acetylcholine receptor activity" evidence=IDA

WB|WBGene00006797 unc-63 [Caenorhabditis elegans (taxid:6239)]

 Score = 156 (60.0 bits), Expect = 1.9e-10, P = 1.9e-10
 Identities = 27/46 (58%), Positives = 34/46 (73%)

Query:    11 DTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNT 56
             D   ++EDWKY+S+V+DR FL  FT AC  GT  II +APS+YDNT
Sbjct:   453 DDKQVIEDWKYISVVMDRIFLITFTFACAFGTVVIIARAPSIYDNT 498

GO:0045211 "postsynaptic membrane" evidence=IEA;IDA

GO:0004889 "acetylcholine-activated cation-selective channel activity" evidence=IEA

GO:0005216 "ion channel activity" evidence=IEA

GO:0006811 "ion transport" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0005230 "extracellular ligand-gated ion channel activity" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0040011 "locomotion" evidence=IMP

GO:0006581 "acetylcholine catabolic process" evidence=IMP

GO:0009791 "post-embryonic development" evidence=IMP

GO:0040012 "regulation of locomotion" evidence=IMP

GO:0034220 "ion transmembrane transport" evidence=IMP

GO:0046662 "regulation of oviposition" evidence=IMP

GO:0031594 "neuromuscular junction" evidence=IDA

GO:0015464 "acetylcholine receptor activity" evidence=ISS;IMP

GO:0022848 "acetylcholine-gated cation channel activity" evidence=IMP

GO:0007271 "synaptic transmission, cholinergic" evidence=IMP

GO:0005886 "plasma membrane" evidence=IDA

FB|FBgn0000039 nAcRalpha-96Ab "nicotinic Acetylcholine Receptor alpha 96Ab" [Drosophila melanogaster (taxid:7227)]

 Score = 135 (52.6 bits), Expect = 4.3e-08, P = 4.3e-08
 Identities = 24/52 (46%), Positives = 39/52 (75%)

Query:    17 EDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQMTRITQ 68
             +DW +V+MV+DR FL +F  A ++GT  I+ +APSLYD+T  ID+Q++ + +
Sbjct:   515 QDWGFVAMVMDRLFLWLFMIASLVGTFVILGEAPSLYDDTKAIDVQLSDVAK 566

GO:0004889 "acetylcholine-activated cation-selective channel activity" evidence=ISS;IDA

GO:0005892 "acetylcholine-gated channel complex" evidence=ISS

GO:0005887 "integral to plasma membrane" evidence=NAS

GO:0045211 "postsynaptic membrane" evidence=IEA

GO:0006811 "ion transport" evidence=IEA

MGI|MGI:106213 Chrna6 "cholinergic receptor, nicotinic, alpha polypeptide 6" [Mus musculus (taxid:10090)]

 Score = 128 (50.1 bits), Expect = 1.9e-07, P = 1.9e-07
 Identities = 25/49 (51%), Positives = 33/49 (67%)

Query:     8 THPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNT 56
             +H +TN + +DWKY++MV+DR FL VF   CV GT G+  Q P L  NT
Sbjct:   445 SHNETNEVEDDWKYMAMVVDRVFLWVFIIVCVFGTVGLFLQ-P-LLGNT 491

GO:0004889 "acetylcholine-activated cation-selective channel activity" evidence=IMP

GO:0005216 "ion channel activity" evidence=IEA

GO:0005230 "extracellular ligand-gated ion channel activity" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005886 "plasma membrane" evidence=IEA

GO:0005892 "acetylcholine-gated channel complex" evidence=ISO;IDA

GO:0006810 "transport" evidence=IEA

GO:0006811 "ion transport" evidence=IEA

GO:0006812 "cation transport" evidence=IMP

GO:0008144 "drug binding" evidence=ISO

GO:0014059 "regulation of dopamine secretion" evidence=IMP

GO:0016020 "membrane" evidence=ISO

GO:0016021 "integral to membrane" evidence=IEA

GO:0030054 "cell junction" evidence=IEA

GO:0034220 "ion transmembrane transport" evidence=IMP

GO:0045202 "synapse" evidence=IEA

GO:0045211 "postsynaptic membrane" evidence=IEA

GO:0051291 "protein heterooligomerization" evidence=ISO

GO:0051899 "membrane depolarization" evidence=IMP

UNIPROTKB|Q15825 CHRNA6 "Neuronal acetylcholine receptor subunit alpha-6" [Homo sapiens (taxid:9606)]

 Score = 126 (49.4 bits), Expect = 3.2e-07, P = 3.2e-07
 Identities = 25/49 (51%), Positives = 32/49 (65%)

Query:     8 THPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNT 56
             +H +T  + +DWKYV+MV+DR FL VF   CV GT G+  Q P L  NT
Sbjct:   445 SHNETKEVEDDWKYVAMVVDRVFLWVFIIVCVFGTAGLFLQ-P-LLGNT 491

GO:0030054 "cell junction" evidence=IEA

GO:0004889 "acetylcholine-activated cation-selective channel activity" evidence=IEA

GO:0005892 "acetylcholine-gated channel complex" evidence=IEA

GO:0014059 "regulation of dopamine secretion" evidence=IEA

GO:0051899 "membrane depolarization" evidence=IEA

GO:0045211 "postsynaptic membrane" evidence=IEA

GO:0006810 "transport" evidence=TAS

GO:0007165 "signal transduction" evidence=TAS

GO:0015464 "acetylcholine receptor activity" evidence=TAS

GO:0005886 "plasma membrane" evidence=TAS

GO:0007268 "synaptic transmission" evidence=TAS

UNIPROTKB|Q5IS76 CHRNA6 "Neuronal acetylcholine receptor subunit alpha-6" [Pan troglodytes (taxid:9598)]

 Score = 126 (49.4 bits), Expect = 3.2e-07, P = 3.2e-07
 Identities = 25/49 (51%), Positives = 32/49 (65%)

Query:     8 THPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNT 56
             +H +T  + +DWKYV+MV+DR FL VF   CV GT G+  Q P L  NT
Sbjct:   445 SHNETKEVEDDWKYVAMVVDRVFLWVFIIVCVFGTAGLFLQ-P-LLGNT 491

GO:0004889 "acetylcholine-activated cation-selective channel activity" evidence=ISS

GO:0005892 "acetylcholine-gated channel complex" evidence=ISS

GO:0007165 "signal transduction" evidence=ISS

GO:0007399 "nervous system development" evidence=ISS

GO:0015464 "acetylcholine receptor activity" evidence=ISS

GO:0035095 "behavioral response to nicotine" evidence=ISS

GO:0060084 "synaptic transmission involved in micturition" evidence=ISS

---

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)
Q15825	ACHA6_HUMAN	No assigned EC number	0.5121	0.5061	0.0829	yes	N/A
P26153	ACHB4_CHICK	No assigned EC number	0.5882	0.4197	0.0723	yes	N/A
Q9N587	ACH6_CAEEL	No assigned EC number	0.5869	0.5679	0.0916	yes	N/A
P25162	ACH4_DROME	No assigned EC number	0.6666	0.6666	0.1040	yes	N/A
Q5IS76	ACHA6_PANTR	No assigned EC number	0.5121	0.5061	0.0829	yes	N/A
Q8SPU6	ACHB4_BOVIN	No assigned EC number	0.5227	0.5185	0.0846	yes	N/A
Q9R0W9	ACHA6_MOUSE	No assigned EC number	0.5121	0.5061	0.0829	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	81
pfam02932	228	pfam02932, Neur_chan_memb, Neurotransmitter-gated	7e-08

>gnl|CDD|202474 pfam02932, Neur_chan_memb, Neurotransmitter-gated ion-channel transmembrane region

 Score = 46.9 bits (112), Expect = 7e-08
 Identities = 16/35 (45%), Positives = 22/35 (62%)

Query: 11  DTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGI 45
           + + + EDWKYV+MV+DR    +F  A VLGT   
Sbjct: 193 EFDEVKEDWKYVAMVIDRLSRWIFPIAFVLGTLVY 227

This family includes the four transmembrane helices that form the ion channel. Length = 228

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	81
KOG3646|consensus	486		99.11
PF02932	237	Neur_chan_memb: Neurotransmitter-gated ion-channel	98.98
TIGR00860	459	LIC Cation transporter family protein. selective w	98.93
KOG3645|consensus	449		97.76

>KOG3646|consensus

Probab=99.11  E-value=5.7e-11  Score=92.62  Aligned_cols=50  Identities=30%  Similarity=0.561  Sum_probs=45.1

Q ss_pred             cchhcccCccchhhhhchhhhHhhHHHHHHHHHHHHHHhhhhHhhhcCCccc
Q psy17845          2 NGRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLY   53 (81)
Q Consensus         2 i~eh~k~~d~~~~~~~eWk~vA~ViDRlfl~if~~~~~~~t~~i~~~~p~~~   53 (81)
                      +.+++++++++++.++||||+|||+||+||++|.++++++  +++.++|++.
T Consensus       436 ~~~r~~~~~~~~~~~~dWkFAAmvVDRlCL~~Fs~fiii~--~i~~~~p~l~  485 (486)
T KOG3646|consen  436 ILDRMEEDDKEEALQSDWKFAAMVVDRLCLLAFSVFIVMC--GILLSAPHLV  485 (486)
T ss_pred             HHHHhhhhhHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHH--HHhhcCCccC
Confidence            4578889999999999999999999999999999999888  8888888874

>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 [, ]

Probab=98.98  E-value=1.8e-10  Score=74.77  Aligned_cols=45  Identities=29%  Similarity=0.518  Sum_probs=41.0

Q ss_pred             cchhcccCccchhhhhchhhhHhhHHHHHHHHHHHHHHhhhhHhh
Q psy17845          2 NGRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGII   46 (81)
Q Consensus         2 i~eh~k~~d~~~~~~~eWk~vA~ViDRlfl~if~~~~~~~t~~i~   46 (81)
                      +++|++++++.++.++||+++|+|+||+|+|+|.+++++.++++.
T Consensus       193 i~~~~~~~~~~~~~~~ew~~~A~viDR~~~~~F~i~f~~~~i~yw  237 (237)
T PF02932_consen  193 IAEHLREQDEEEEIKEEWKFVAMVIDRLFRILFPIAFILFNIVYW  237 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSTSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             eecccccccccccccccccccHHHHHHHHHHHHHHHHHHHHhhhC
Confidence            567889999999999999999999999999999999999988763

Five of these ion channel receptor families have been shown to form a sequence-related superfamily: Nicotinic acetylcholine receptor (AchR), an excitatory cation channel in vertebrates and invertebrates; in vertebrate motor endplates it is composed of alpha, beta, gamma and delta/epsilon subunits; in neurons it is composed of alpha and non-alpha (or beta) subunits []. Glycine receptor, an inhibitory chloride ion channel composed of alpha and beta subunits []. Gamma-aminobutyric acid (GABA) receptor, an inhibitory chloride ion channel; at least four types of subunits (alpha, beta, gamma and delta) are known []. Serotonin 5HT3 receptor, of which there are seven major types (5HT3-5HT7) []. Glutamate receptor, an excitatory cation channel of which at least three types have been described (kainate, N-methyl-D-aspartate (NMDA) and quisqualate) []. These receptors possess a pentameric structure (made up of varying subunits), surrounding a central pore. All known sequences of subunits from neurotransmitter-gated ion-channels are structurally related. They are composed of a large extracellular glycosylated N-terminal ligand-binding domain, followed by three hydrophobic transmembrane regions which form the ionic channel, followed by an intracellular region of variable length. A fourth hydrophobic region is found at the C-terminal of the sequence [, ]. This domain represents four transmembrane helices of a variety of neurotransmitter-gated ion-channels.; GO: 0006811 ion transport, 0016020 membrane; PDB: 1DXZ_A 3MRA_A 1EQ8_C 1OED_C 2PR9_P 1A11_A 1CEK_A 2BG9_E 2KSR_A 2K59_B ....

>TIGR00860 LIC Cation transporter family protein

Probab=98.93  E-value=3.3e-10  Score=87.51  Aligned_cols=45  Identities=22%  Similarity=0.447  Sum_probs=42.5

Q ss_pred             cchhcccCccchhhhhchhhhHhhHHHHHHHHHHHHHHhhhhHhhh
Q psy17845          2 NGRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIF   47 (81)
Q Consensus         2 i~eh~k~~d~~~~~~~eWk~vA~ViDRlfl~if~~~~~~~t~~i~~   47 (81)
                      | +|++++++.++.++|||++|+|+||+|+|+|.++++++|++++.
T Consensus       413 i-~~~~~~~~~~~~~~~W~~~a~viDr~~~~~f~~~~~~~~~~~~~  457 (459)
T TIGR00860       413 A-HRFRKRDESEEVVRDWKFRAKVIDKLSRMAFPLAFLLFNIGYWM  457 (459)
T ss_pred             H-HHHHhhhhhhcccchhhhccchhhHHHHHHHHHHHHHhhhhheE
Confidence            5 88999999999999999999999999999999999999998875

selective while glycine receptors are anion selective).

>KOG3645|consensus

Probab=97.76  E-value=3.8e-06  Score=64.96  Aligned_cols=34  Identities=41%  Similarity=0.770  Sum_probs=31.7

Q ss_pred             cchhcccCccchhhhhchhhhHhhHHHHHHHHHH
Q psy17845          2 NGRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFT   35 (81)
Q Consensus         2 i~eh~k~~d~~~~~~~eWk~vA~ViDRlfl~if~   35 (81)
                      |++|+++++..++..+||+++|+|+||+|+|+|+
T Consensus       415 i~~~~~~~~~~~~~~~~w~~va~v~dr~~l~~f~  448 (449)
T KOG3645|consen  415 IAEHLKSEDNFQEIREDWKYVAMVLDRLLLWIFL  448 (449)
T ss_pred             HHHHHHhHHHHhhhhHHHHHHHHHHHHHhhheEe
Confidence            6889999999999999999999999999999875

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	81
1oed_A	227	Structure Of Acetylcholine Receptor Pore From Elect		2e-05
2bg9_A	370	Refined Structure Of The Nicotinic Acetylcholine Re		3e-05
4aq5_A	461	Gating Movement In Acetylcholine Receptor Analysed		3e-05
4aq5_B	493	Gating Movement In Acetylcholine Receptor Analysed		4e-05
2bg9_B	370	Refined Structure Of The Nicotinic Acetylcholine Re		4e-05
1oed_B	250	Structure Of Acetylcholine Receptor Pore From Elect		5e-05

>pdb|1OED|A Chain A, Structure Of Acetylcholine Receptor Pore From Electron Images Length = 227

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 15/35 (42%), Positives = 25/35 (71%)
Query: 11  DTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGI 45
           ++++  E+WKYV+MV+D   LCVF   C++GT  +
Sbjct: 181 ESSNAAEEWKYVAMVIDHILLCVFMLICIIGTVSV 215

>pdb|2BG9|A Chain A, Refined Structure Of The Nicotinic Acetylcholine Receptor At 4a Resolution. Length = 370

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 15/43 (34%), Positives = 27/43 (62%)
Query: 3   GRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGI 45
              + +  ++++  E+WKYV+MV+D   LCVF   C++GT  +
Sbjct: 316 AEHMKSDEESSNAAEEWKYVAMVIDHILLCVFMLICIIGTVSV 358

>pdb|4AQ5|A Chain A, Gating Movement In Acetylcholine Receptor Analysed By Time- Resolved Electron Cryo-Microscopy (Closed Class) Length = 461

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 15/43 (34%), Positives = 27/43 (62%)
Query: 3   GRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGI 45
              + +  ++++  E+WKYV+MV+D   LCVF   C++GT  +
Sbjct: 407 AEHMKSDEESSNAAEEWKYVAMVIDHILLCVFMLICIIGTVSV 449

>pdb|4AQ5|B Chain B, Gating Movement In Acetylcholine Receptor Analysed By Time- Resolved Electron Cryo-Microscopy (Closed Class) Length = 493

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 17/47 (36%), Positives = 27/47 (57%)
Query: 3   GRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQA 49
             Q+ +  + + + +DW+YV+MV DR FL +F   C +GT  I   A
Sbjct: 436 AEQLESASEFDDLKKDWQYVAMVADRLFLYIFITMCSIGTFSIFLDA 482

>pdb|2BG9|B Chain B, Refined Structure Of The Nicotinic Acetylcholine Receptor At 4a Resolution Length = 370

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 17/47 (36%), Positives = 27/47 (57%)
Query: 3   GRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQA 49
             Q+ +  + + + +DW+YV+MV DR FL +F   C +GT  I   A
Sbjct: 313 AEQLESASEFDDLKKDWQYVAMVADRLFLYIFITMCSIGTFSIFLDA 359

>pdb|1OED|B Chain B, Structure Of Acetylcholine Receptor Pore From Electron Images Length = 250

Iteration: 1
 Score = 42.7 bits (99), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 18/47 (38%), Positives = 27/47 (57%)
Query: 3   GRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQA 49
             Q+ +  + + + +DW+YV+MV DR FL VF   C +GT  I   A
Sbjct: 196 AEQLESASEFDDLKKDWQYVAMVADRLFLYVFFVICSIGTFSIFLDA 242

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	81
2bg9_B	370	Acetylcholine receptor protein, beta chain; ION ch	7e-16
4aq5_E	488	Acetylcholine receptor gamma subunit; membrane pro	3e-13
4aq5_C	522	Acetylcholine receptor delta subunit; membrane pro	2e-12
4aq5_B	493	Acetylcholine receptor beta subunit; membrane prot	2e-12
2bg9_A	370	Acetylcholine receptor protein, alpha chain; ION c	3e-12
2bg9_E	370	Acetylcholine receptor protein, gamma chain; ION c	3e-10
4aq5_A	461	Acetylcholine receptor subunit alpha; membrane pro	3e-10
2bg9_C	369	Acetylcholine receptor protein, delta chain; ION c	4e-10
1oed_B	250	Acetylcholine receptor protein, beta chain; ION ch	2e-09
1oed_E	260	Acetylcholine receptor protein, gamma chain; ION c	2e-09
1oed_A	227	Acetylcholine receptor protein, alpha chain; ION c	1e-08
1oed_C	260	Acetylcholine receptor protein, delta chain; ION c	2e-08

>2bg9_B Acetylcholine receptor protein, beta chain; ION channel/receptor, ION channel, electron microscopy, ION transport, postsynaptic membrane; 4.00A {Torpedo marmorata} Length = 370

 Score = 69.1 bits (169), Expect = 7e-16
 Identities = 18/55 (32%), Positives = 28/55 (50%)

Query: 4   RQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAP 58
            Q+ +  + + + +DW+YV+MV DR FL +F   C +GT  I   A        P
Sbjct: 314 EQLESASEFDDLKKDWQYVAMVADRLFLYIFITMCSIGTFSIFLDASHNVPPDNP 368

>4aq5_E Acetylcholine receptor gamma subunit; membrane protein, freeze-trapping, asymmetric gating, allost mechanism; 6.20A {Torpedo marmorata} PDB: 4aq9_E Length = 488

 Score = 62.1 bits (150), Expect = 3e-13
 Identities = 10/51 (19%), Positives = 16/51 (31%)

Query: 9   HPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPI 59
             D+    E+W  +  V+D+    +      LGT  I            P 
Sbjct: 429 QNDSGSENENWVLIGKVIDKACFWIALLLFSLGTLAIFLTGHLNQVPEFPF 479

>4aq5_C Acetylcholine receptor delta subunit; membrane protein, freeze-trapping, asymmetric gating, allost mechanism; 6.20A {Torpedo marmorata} PDB: 4aq9_C Length = 522

 Score = 59.4 bits (143), Expect = 2e-12
 Identities = 12/52 (23%), Positives = 18/52 (34%)

Query: 11  DTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPIDIQ 62
             +  V +W  V   +DR  + + T   VLGT  I            P +  
Sbjct: 459 AYDEEVGNWNLVGQTIDRLSMFIITPVMVLGTIFIFVMGNFNRPPAKPFEGD 510

>4aq5_B Acetylcholine receptor beta subunit; membrane protein, freeze-trapping, asymmetric gating, allost mechanism; 6.20A {Torpedo marmorata} PDB: 4aq9_B Length = 493

 Score = 59.4 bits (143), Expect = 2e-12
 Identities = 17/50 (34%), Positives = 25/50 (50%)

Query: 9   HPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAP 58
             + + + +DW+YV+MV DR FL +F   C +GT  I   A        P
Sbjct: 442 ASEFDDLKKDWQYVAMVADRLFLYIFITMCSIGTFSIFLDASHNVPPDNP 491

>2bg9_A Acetylcholine receptor protein, alpha chain; ION channel/receptor, ION channel, electron microscopy, ION transport, postsynaptic membrane; 4.00A {Torpedo marmorata} Length = 370

 Score = 59.1 bits (143), Expect = 3e-12
 Identities = 15/41 (36%), Positives = 25/41 (60%)

Query: 9   HPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQA 49
             ++++  E+WKYV+MV+D   LCVF   C++GT  +    
Sbjct: 322 DEESSNAAEEWKYVAMVIDHILLCVFMLICIIGTVSVFAGR 362

>2bg9_E Acetylcholine receptor protein, gamma chain; ION channel/receptor, ION channel, electron microscopy, ION transport, postsynaptic membrane; 4.00A {Torpedo marmorata} Length = 370

 Score = 53.4 bits (128), Expect = 3e-10
 Identities = 11/50 (22%), Positives = 18/50 (36%), Gaps = 3/50 (6%)

Query: 9   HPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAP 58
             D+    E+W  +  V+D+    +      LGT  I       + N  P
Sbjct: 323 QNDSGSENENWVLIGKVIDKACFWIALLLFSLGTLAIFLTG---HLNQVP 369

>4aq5_A Acetylcholine receptor subunit alpha; membrane protein, freeze-trapping, asymmetric gating, allost mechanism; 6.20A {Torpedo marmorata} PDB: 4aq9_A Length = 461

 Score = 53.1 bits (127), Expect = 3e-10
 Identities = 15/41 (36%), Positives = 25/41 (60%)

Query: 9   HPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQA 49
             ++++  E+WKYV+MV+D   LCVF   C++GT  +    
Sbjct: 413 DEESSNAAEEWKYVAMVIDHILLCVFMLICIIGTVSVFAGR 453

>2bg9_C Acetylcholine receptor protein, delta chain; ION channel/receptor, ION channel, electron microscopy, ION transport, postsynaptic membrane; 4.00A {Torpedo marmorata} Length = 369

 Score = 53.0 bits (127), Expect = 4e-10
 Identities = 12/46 (26%), Positives = 19/46 (41%)

Query: 4   RQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQA 49
           +Q+      +  V +W  V   +DR  + + T   VLGT  I    
Sbjct: 316 KQIKEKNAYDEEVGNWNLVGQTIDRLSMFIITPVMVLGTIFIFVMG 361

>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

 Score = 51.1 bits (121), Expect = 2e-09
 Identities = 18/47 (38%), Positives = 27/47 (57%)

Query: 4   RQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAP 50
            Q+ +  + + + +DW+YV+MV DR FL VF   C +GT  I   A 
Sbjct: 197 EQLESASEFDDLKKDWQYVAMVADRLFLYVFFVICSIGTFSIFLDAS 243

>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

 Score = 51.1 bits (121), Expect = 2e-09
 Identities = 8/42 (19%), Positives = 15/42 (35%)

Query: 9   HPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAP 50
             D+    E+W  +  V+D+    +      +GT  I     
Sbjct: 212 QNDSGSENENWVLIGKVIDKACFWIALLLFSIGTLAIFLTGH 253

>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

 Score = 48.2 bits (114), Expect = 1e-08
 Identities = 15/41 (36%), Positives = 25/41 (60%)

Query: 9   HPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQA 49
             ++++  E+WKYV+MV+D   LCVF   C++GT  +    
Sbjct: 179 DEESSNAAEEWKYVAMVIDHILLCVFMLICIIGTVSVFAGR 219

>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 Length = 260

 Score = 48.0 bits (113), Expect = 2e-08
 Identities = 11/40 (27%), Positives = 16/40 (40%)

Query: 11  DTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAP 50
             +  V +W  V   +DR  + + T   VLGT  I     
Sbjct: 214 AYDEEVGNWNLVGQTIDRLSMFIITPVMVLGTIFIFVMGN 253

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	81
1oed_B	250	Acetylcholine receptor protein, beta chain; ION ch	99.7
1oed_C	260	Acetylcholine receptor protein, delta chain; ION c	99.69
1oed_E	260	Acetylcholine receptor protein, gamma chain; ION c	99.67
4aq5_E	488	Acetylcholine receptor gamma subunit; membrane pro	99.63
4aq5_C	522	Acetylcholine receptor delta subunit; membrane pro	99.62
4aq5_B	493	Acetylcholine receptor beta subunit; membrane prot	99.56
1oed_A	227	Acetylcholine receptor protein, alpha chain; ION c	99.53
4aq5_A	461	Acetylcholine receptor subunit alpha; membrane pro	99.42
2bg9_B	370	Acetylcholine receptor protein, beta chain; ION ch	99.31
2bg9_C	369	Acetylcholine receptor protein, delta chain; ION c	99.24
2bg9_E	370	Acetylcholine receptor protein, gamma chain; ION c	99.14
2bg9_A	370	Acetylcholine receptor protein, alpha chain; ION c	98.95
2ksr_A	164	Neuronal acetylcholine receptor subunit beta-2; ni	98.35
2lly_A	137	Neuronal acetylcholine receptor subunit alpha-4; t	97.68

>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

Probab=99.70  E-value=2.9e-18  Score=123.13  Aligned_cols=55  Identities=33%  Similarity=0.621  Sum_probs=31.4

Q ss_pred             CcchhcccCccchhhhhchhhhHhhHHHHHHHHHHHHHHhhhhHhhhcCCccccC
Q psy17845          1 MNGRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDN   55 (81)
Q Consensus         1 ~i~eh~k~~d~~~~~~~eWk~vA~ViDRlfl~if~~~~~~~t~~i~~~~p~~~~~   55 (81)
                      +|++|+|++|+++++++|||+||||+||+|||+|++++++||++|++++|+.+++
T Consensus       194 ~Ia~~~~~~d~~~~~~~dWk~vAmVlDRlfL~iF~i~~i~gT~~I~l~ap~~~~~  248 (250)
T 1oed_B          194 YIAEQLESASEFDDLKKDWQYVAMVADRLFLYVFFVICSIGTFSIFLDASHNVPP  248 (250)
T ss_dssp             ----------------------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccCCC
Confidence            4899999999999999999999999999999999999999999999999998764

>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

Probab=99.69  E-value=1.3e-18  Score=125.47  Aligned_cols=55  Identities=22%  Similarity=0.269  Sum_probs=31.1

Q ss_pred             CcchhcccCccchhhhhchhhhHhhHHHHHHHHHHHHHHhhhhHhhhcCCccccC
Q psy17845          1 MNGRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDN   55 (81)
Q Consensus         1 ~i~eh~k~~d~~~~~~~eWk~vA~ViDRlfl~if~~~~~~~t~~i~~~~p~~~~~   55 (81)
                      +|++|+|++|+++++++|||+||||+||+|||+|++++++||++|++++|+.+++
T Consensus       204 ~Ia~~~~~~d~~~~~~~dWk~vAmVlDRlfL~iF~i~~i~gT~~I~l~ap~~~~~  258 (260)
T 1oed_C          204 YIVKQIKEKNAYDEEVGNWNLVGQTIDRLSMFIITPVMVLGTIFIFVMGNFNHPP  258 (260)
T ss_dssp             ----------------------CCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccccC
Confidence            4899999999999999999999999999999999999999999999999988654

>1oed_E Acetylcholine receptor protein, gamma chain; ION channel/receptor, ION channel, tubular crystal, transmembrane; 4.0A {Torpedo marmorata} SCOP: f.36.1.1

Probab=99.67  E-value=4.9e-18  Score=122.51  Aligned_cols=54  Identities=15%  Similarity=0.226  Sum_probs=30.4

Q ss_pred             CcchhcccCccchhhhhchhhhHhhHHHHHHHHHHHHHHhhhhHhhhcCCcccc
Q psy17845          1 MNGRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYD   54 (81)
Q Consensus         1 ~i~eh~k~~d~~~~~~~eWk~vA~ViDRlfl~if~~~~~~~t~~i~~~~p~~~~   54 (81)
                      +|++|+|++|+++++++|||+||||+||+|||+|++++++||++|++++|+.++
T Consensus       204 ~Ia~~~~~~d~~~~~~~dWk~vAmVlDRlfL~iF~i~~i~gT~~I~l~ap~~~~  257 (260)
T 1oed_E          204 FIAKSTKEQNDSGSENENWVLIGKVIDKACFWIALLLFSIGTLAIFLTGHFNQV  257 (260)
T ss_dssp             ----------------------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCccccc
Confidence            489999999999999999999999999999999999999999999999998754

>4aq5_E Acetylcholine receptor gamma subunit; membrane protein, freeze-trapping, asymmetric gating, allost mechanism; 6.20A {Torpedo marmorata} PDB: 4aq9_E

Probab=99.63  E-value=2.3e-17  Score=126.56  Aligned_cols=59  Identities=17%  Similarity=0.247  Sum_probs=52.2

Q ss_pred             CcchhcccCccchhhhhchhhhHhhHHHHHHHHHHHHHHhhhhHhhhcCCccccCCCcc
Q psy17845          1 MNGRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPI   59 (81)
Q Consensus         1 ~i~eh~k~~d~~~~~~~eWk~vA~ViDRlfl~if~~~~~~~t~~i~~~~p~~~~~~~~~   59 (81)
                      +|++|+|+||+++++++|||+||||+||+|||+|++++++||++|+++++..+..+.|+
T Consensus       421 ~ia~~~~~~~~~~~~~~dWk~va~V~DR~~l~~f~~~~~~gt~~i~~~~~~~~~~~~p~  479 (488)
T 4aq5_E          421 FIAKSTKEQNDSGSENENWVLIGKVIDKACFWIALLLFSLGTLAIFLTGHLNQVPEFPF  479 (488)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCC---
T ss_pred             HHHHHHhhhhHHhhhhhcceEEEeeHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCCC
Confidence            48999999999999999999999999999999999999999999999988765554444

>4aq5_C Acetylcholine receptor delta subunit; membrane protein, freeze-trapping, asymmetric gating, allost mechanism; 6.20A {Torpedo marmorata} PDB: 4aq9_C

Probab=99.62  E-value=4.2e-17  Score=126.10  Aligned_cols=60  Identities=22%  Similarity=0.313  Sum_probs=53.3

Q ss_pred             CcchhcccCccchhhhhchhhhHhhHHHHHHHHHHHHHHhhhhHhhhcCCccccCCCccc
Q psy17845          1 MNGRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPID   60 (81)
Q Consensus         1 ~i~eh~k~~d~~~~~~~eWk~vA~ViDRlfl~if~~~~~~~t~~i~~~~p~~~~~~~~~~   60 (81)
                      +|++|+|+||+++++++|||+||||+||+|||+|++++++||++|+++++..+..+.|+.
T Consensus       449 ~ia~~~~~~~~~~~~~~dWk~va~V~DRl~l~~f~~~~~~gt~~i~~~~~~~~~~~~p~~  508 (522)
T 4aq5_C          449 YIVKQIKEKNAYDEEVGNWNLVGQTIDRLSMFIITPVMVLGTIFIFVMGNFNRPPAKPFE  508 (522)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCCCSSHHHHHHHHHHHHHHHHHHHHHHHHTTTSSSCC---
T ss_pred             HHHHHHhhhhhhhhhccceeEeeeeHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCCCC
Confidence            378999999999999999999999999999999999999999999999988766655554

>4aq5_B Acetylcholine receptor beta subunit; membrane protein, freeze-trapping, asymmetric gating, allost mechanism; 6.20A {Torpedo marmorata} PDB: 4aq9_B

Probab=99.56  E-value=2.3e-16  Score=121.17  Aligned_cols=58  Identities=31%  Similarity=0.642  Sum_probs=52.6

Q ss_pred             CcchhcccCccchhhhhchhhhHhhHHHHHHHHHHHHHHhhhhHhhhcCCccccCCCc
Q psy17845          1 MNGRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAP   58 (81)
Q Consensus         1 ~i~eh~k~~d~~~~~~~eWk~vA~ViDRlfl~if~~~~~~~t~~i~~~~p~~~~~~~~   58 (81)
                      +|++|+|+|++++++++|||+||+|+||+|||+|++++++||++|++++|+.+.++.|
T Consensus       434 ~i~~~~~~~~~~~~~~~dWk~va~V~DR~~l~~f~~~~~~gt~~i~~~~~~~~~~~~p  491 (493)
T 4aq5_B          434 YIAEQLESASEFDDLKKDWQYVAMVADRLFLYIFITMCSIGTFSIFLDASHNVPPDNP  491 (493)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSCSHHHHHHHHHHHHHHTTHHHHHHHHHHHHHSSSSTT
T ss_pred             HHHHHHHhhhHhhhhhcceEEEEEehhHHHHHHHHHHHHHHHHHHHhhhhhcCCCCCC
Confidence            3789999999999999999999999999999999999999999999998876554433

>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

Probab=99.53  E-value=1.7e-15  Score=107.43  Aligned_cols=49  Identities=31%  Similarity=0.756  Sum_probs=25.8

Q ss_pred             CcchhcccCccchhhhhchhhhHhhHHHHHHHHHHHHHHhhhhHhhhcC
Q psy17845          1 MNGRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQA   49 (81)
Q Consensus         1 ~i~eh~k~~d~~~~~~~eWk~vA~ViDRlfl~if~~~~~~~t~~i~~~~   49 (81)
                      .|++|++++|+++++++|||++|+|+||+|||+|+++++++|++|++++
T Consensus       171 ~I~~~~~~~~~~~~~~~dWk~vA~VlDRl~l~iF~~~~i~gT~~i~~~~  219 (227)
T 1oed_A          171 YIAEHMKSDEESSNAAEEWKYVAMVIDHILLCVFMLICIIGTVSVFAGR  219 (227)
T ss_dssp             ----------------------CCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            4789999999999999999999999999999999999999999999873

>4aq5_A Acetylcholine receptor subunit alpha; membrane protein, freeze-trapping, asymmetric gating, allost mechanism; 6.20A {Torpedo marmorata} PDB: 4aq9_A

Probab=99.42  E-value=1.5e-14  Score=110.39  Aligned_cols=52  Identities=29%  Similarity=0.669  Sum_probs=48.5

Q ss_pred             CcchhcccCccchhhhhchhhhHhhHHHHHHHHHHHHHHhhhhHhhhcCCcc
Q psy17845          1 MNGRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSL   52 (81)
Q Consensus         1 ~i~eh~k~~d~~~~~~~eWk~vA~ViDRlfl~if~~~~~~~t~~i~~~~p~~   52 (81)
                      +|++|+|+|++++++++|||+||+|+||+|||+|++++++||++|+++++..
T Consensus       405 ~i~~~~~~~~~~~~~~~dWk~va~v~Dr~~l~~f~~~~~~gt~~i~~~~~~~  456 (461)
T 4aq5_A          405 YIAEHMKSDEESSNAAEEWKYVAMVIDHILLCVFMLICIIGTVSVFAGRLIE  456 (461)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTSCSSSHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHhhhhhheeeeeeHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3789999999999999999999999999999999999999999999986543

>2bg9_B Acetylcholine receptor protein, beta chain; ION channel/receptor, ION channel, electron microscopy, ION transport, postsynaptic membrane; 4.00A {Torpedo marmorata}

Probab=99.31  E-value=2.1e-13  Score=100.91  Aligned_cols=58  Identities=31%  Similarity=0.649  Sum_probs=53.8

Q ss_pred             cchhcccCccchhhhhchhhhHhhHHHHHHHHHHHHHHhhhhHhhhcCCccccCCCcc
Q psy17845          2 NGRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAPI   59 (81)
Q Consensus         2 i~eh~k~~d~~~~~~~eWk~vA~ViDRlfl~if~~~~~~~t~~i~~~~p~~~~~~~~~   59 (81)
                      |++|++++++.++.++||+++|+|+||+|+|+|.++++++|+++++++|+.++++.|+
T Consensus       312 i~~~~~~~~~~~~~~~~W~~~a~v~Dr~~~~~f~~~~~~~t~~i~~~~~~~~~~~~~~  369 (370)
T 2bg9_B          312 IAEQLESASEFDDLKKDWQYVAMVADRLFLYIFITMCSIGTFSIFLDASHNVPPDNPF  369 (370)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSGGGCCC
T ss_pred             HHHHHHhhhHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccCCCCCCC
Confidence            6789999999999999999999999999999999999999999999999998776654

>2bg9_C Acetylcholine receptor protein, delta chain; ION channel/receptor, ION channel, electron microscopy, ION transport, postsynaptic membrane; 4.00A {Torpedo marmorata}

Probab=99.24  E-value=8.7e-13  Score=97.59  Aligned_cols=55  Identities=22%  Similarity=0.277  Sum_probs=51.4

Q ss_pred             cchhcccCccchhhhhchhhhHhhHHHHHHHHHHHHHHhhhhHhhhcCCccccCC
Q psy17845          2 NGRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNT   56 (81)
Q Consensus         2 i~eh~k~~d~~~~~~~eWk~vA~ViDRlfl~if~~~~~~~t~~i~~~~p~~~~~~   56 (81)
                      |++|++++++.++.++||+++|+|+||+|+|+|.++++++|+++++++|+.++++
T Consensus       314 i~~~~~~~~~~~~~~~~W~~~a~vlDr~~~~~f~~~~~~~~~~i~~~~~~~~~~~  368 (369)
T 2bg9_C          314 IVKQIKEKNAYDEEVGNWNLVGQTIDRLSMFIITPVMVLGTIFIFVMGNFNRPPA  368 (369)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccCCCC
Confidence            6789999999999999999999999999999999999999999999999987654

>2bg9_E Acetylcholine receptor protein, gamma chain; ION channel/receptor, ION channel, electron microscopy, ION transport, postsynaptic membrane; 4.00A {Torpedo marmorata}

Probab=99.14  E-value=5.3e-12  Score=93.27  Aligned_cols=53  Identities=17%  Similarity=0.232  Sum_probs=49.4

Q ss_pred             cchhcccCccchhhhhchhhhHhhHHHHHHHHHHHHHHhhhhHhhhcCCcccc
Q psy17845          2 NGRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYD   54 (81)
Q Consensus         2 i~eh~k~~d~~~~~~~eWk~vA~ViDRlfl~if~~~~~~~t~~i~~~~p~~~~   54 (81)
                      |++|++++++.++.++||+++|+|+||+|+|+|.++++++|++|++++|+.++
T Consensus       316 i~~~~~~~~~~~~~~~~W~~~a~vlDr~~~~~f~~~~~~~t~~i~~~~~~~~~  368 (370)
T 2bg9_E          316 IAKSTKEQNDSGSENENWVLIGKVIDKACFWIALLLFSLGTLAIFLTGHLNQV  368 (370)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             hHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCccccC
Confidence            57889999999999999999999999999999999999999999999988754

>2bg9_A Acetylcholine receptor protein, alpha chain; ION channel/receptor, ION channel, electron microscopy, ION transport, postsynaptic membrane; 4.00A {Torpedo marmorata}

Probab=98.95  E-value=8.2e-11  Score=86.89  Aligned_cols=47  Identities=32%  Similarity=0.794  Sum_probs=44.4

Q ss_pred             cchhcccCccchhhhhchhhhHhhHHHHHHHHHHHHHHhhhhHhhhc
Q psy17845          2 NGRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQ   48 (81)
Q Consensus         2 i~eh~k~~d~~~~~~~eWk~vA~ViDRlfl~if~~~~~~~t~~i~~~   48 (81)
                      |++|++++++.++.++||+++|+|+||+|+|+|.++++++|++++++
T Consensus       315 i~~~~~~~~~~~~~~~~W~~~a~vlDr~~~~~f~~~~~~~t~~i~~~  361 (370)
T 2bg9_A          315 IAEHMKSDEESSNAAEEWKYVAMVIDHILLCVFMLICIIGTVSVFAG  361 (370)
T ss_dssp             HHHHHHHHHHHHHHHHHTTSCSSSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            67889999999999999999999999999999999999999999975

>2ksr_A Neuronal acetylcholine receptor subunit beta-2; nicotinic acetylcholine receptors, transmembrane domain, HFI junction, cell membrane; NMR {Homo sapiens} PDB: 2lm2_A

Probab=98.35  E-value=3e-07  Score=62.32  Aligned_cols=35  Identities=46%  Similarity=0.881  Sum_probs=31.9

Q ss_pred             chhhhHhhHHHHHHHHHHHHHHhhhhHhhhcCCccc
Q psy17845         18 DWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLY   53 (81)
Q Consensus        18 eWk~vA~ViDRlfl~if~~~~~~~t~~i~~~~p~~~   53 (81)
                      .+|++|+|+||+|+|+|.++++++|++++++ |..+
T Consensus       128 ~~k~~a~v~Dr~~l~~f~~~~~~~t~~i~~~-p~~~  162 (164)
T 2ksr_A          128 GGGYVAMVIDRLFLWIFVFVCVFGTIGMFLQ-PLFQ  162 (164)
T ss_dssp             SSSSTTHHHHHHHHHHHHHHHHHHHHHHHHT-TTSC
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHheec-cccc
Confidence            3599999999999999999999999999998 7764

>2lly_A Neuronal acetylcholine receptor subunit alpha-4; transmembrane domain, transport PROT; NMR {Homo sapiens}

Probab=97.68  E-value=2.6e-05  Score=51.12  Aligned_cols=31  Identities=39%  Similarity=0.741  Sum_probs=28.2

Q ss_pred             HhhHHHHHHHHHHHHHHhhhhHhhhcCCcccc
Q psy17845         23 SMVLDRFFLCVFTAACVLGTCGIIFQAPSLYD   54 (81)
Q Consensus        23 A~ViDRlfl~if~~~~~~~t~~i~~~~p~~~~   54 (81)
                      ++|+||+|+|+|.++++.||++++++ |+.++
T Consensus       106 ~~~~dr~~lwif~~~~~~gt~~i~~~-p~~~~  136 (137)
T 2lly_A          106 GGGIDRIFLWMFIIVCLLGTVGLFLP-PWLAG  136 (137)
T ss_dssp             SSSHHHHHHHHHHHHHHHHHHHHHCC-STTTC
T ss_pred             hHHHHHHHHHHHHHHHHHhhhhheec-ccccC
Confidence            58999999999999999999999999 87654

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	81
d1oedb_	250	f.36.1.1 (B:) Acetylcholine receptor protein, beta	6e-13
d1oedc_	260	f.36.1.1 (C:) Acetylcholine receptor protein, delt	3e-12
d1oede_	260	f.36.1.1 (E:) Acetylcholine receptor protein, gamm	9e-12
d1oeda_	227	f.36.1.1 (A:) Acetylcholine receptor protein, alph	4e-10

>d1oedb_ f.36.1.1 (B:) Acetylcholine receptor protein, beta chain {Marbled electric ray (Torpedo marmorata) [TaxId: 7788]} Length = 250

class: Membrane and cell surface proteins and peptides
fold: Neurotransmitter-gated ion-channel transmembrane pore
superfamily: Neurotransmitter-gated ion-channel transmembrane pore
family: Neurotransmitter-gated ion-channel transmembrane pore
domain: Acetylcholine receptor protein, beta chain
species: Marbled electric ray (Torpedo marmorata) [TaxId: 7788]

 Score = 59.4 bits (143), Expect = 6e-13
 Identities = 17/43 (39%), Positives = 24/43 (55%)

Query: 11  DTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLY 53
           + + + +DW+YV+MV DR FL VF   C +GT  I   A    
Sbjct: 204 EFDDLKKDWQYVAMVADRLFLYVFFVICSIGTFSIFLDASHNV 246

>d1oedc_ f.36.1.1 (C:) Acetylcholine receptor protein, delta chain {Marbled electric ray (Torpedo marmorata) [TaxId: 7788]} Length = 260

class: Membrane and cell surface proteins and peptides
fold: Neurotransmitter-gated ion-channel transmembrane pore
superfamily: Neurotransmitter-gated ion-channel transmembrane pore
family: Neurotransmitter-gated ion-channel transmembrane pore
domain: Acetylcholine receptor protein, delta chain
species: Marbled electric ray (Torpedo marmorata) [TaxId: 7788]

 Score = 57.5 bits (138), Expect = 3e-12
 Identities = 11/39 (28%), Positives = 16/39 (41%)

Query: 11  DTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQA 49
             +  V +W  V   +DR  + + T   VLGT  I    
Sbjct: 214 AYDEEVGNWNLVGQTIDRLSMFIITPVMVLGTIFIFVMG 252

>d1oede_ f.36.1.1 (E:) Acetylcholine receptor protein, gamma chain {Marbled electric ray (Torpedo marmorata) [TaxId: 7788]} Length = 260

class: Membrane and cell surface proteins and peptides
fold: Neurotransmitter-gated ion-channel transmembrane pore
superfamily: Neurotransmitter-gated ion-channel transmembrane pore
family: Neurotransmitter-gated ion-channel transmembrane pore
domain: Acetylcholine receptor protein, gamma chain
species: Marbled electric ray (Torpedo marmorata) [TaxId: 7788]

 Score = 56.0 bits (134), Expect = 9e-12
 Identities = 10/48 (20%), Positives = 18/48 (37%), Gaps = 3/48 (6%)

Query: 11  DTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLYDNTAP 58
           D+    E+W  +  V+D+    +      +GT  I       + N  P
Sbjct: 214 DSGSENENWVLIGKVIDKACFWIALLLFSIGTLAIFLTG---HFNQVP 258

>d1oeda_ f.36.1.1 (A:) Acetylcholine receptor protein, alpha chain {Marbled electric ray (Torpedo marmorata) [TaxId: 7788]} Length = 227

class: Membrane and cell surface proteins and peptides
fold: Neurotransmitter-gated ion-channel transmembrane pore
superfamily: Neurotransmitter-gated ion-channel transmembrane pore
family: Neurotransmitter-gated ion-channel transmembrane pore
domain: Acetylcholine receptor protein, alpha chain
species: Marbled electric ray (Torpedo marmorata) [TaxId: 7788]

 Score = 51.3 bits (122), Expect = 4e-10
 Identities = 15/40 (37%), Positives = 25/40 (62%)

Query: 9   HPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQ 48
             ++++  E+WKYV+MV+D   LCVF   C++GT  +   
Sbjct: 179 DEESSNAAEEWKYVAMVIDHILLCVFMLICIIGTVSVFAG 218

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	81
d1oedb_	250	Acetylcholine receptor protein, beta chain {Marble	99.43
d1oedc_	260	Acetylcholine receptor protein, delta chain {Marbl	99.33
d1oede_	260	Acetylcholine receptor protein, gamma chain {Marbl	99.18
d1oeda_	227	Acetylcholine receptor protein, alpha chain {Marbl	98.96

>d1oedb_ f.36.1.1 (B:) Acetylcholine receptor protein, beta chain {Marbled electric ray (Torpedo marmorata) [TaxId: 7788]}

class: Membrane and cell surface proteins and peptides
fold: Neurotransmitter-gated ion-channel transmembrane pore
superfamily: Neurotransmitter-gated ion-channel transmembrane pore
family: Neurotransmitter-gated ion-channel transmembrane pore
domain: Acetylcholine receptor protein, beta chain
species: Marbled electric ray (Torpedo marmorata) [TaxId: 7788]

Probab=99.43  E-value=1.5e-14  Score=98.92  Aligned_cols=52  Identities=35%  Similarity=0.668  Sum_probs=29.7

Q ss_pred             cchhcccCccchhhhhchhhhHhhHHHHHHHHHHHHHHhhhhHhhhcCCccc
Q psy17845          2 NGRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQAPSLY   53 (81)
Q Consensus         2 i~eh~k~~d~~~~~~~eWk~vA~ViDRlfl~if~~~~~~~t~~i~~~~p~~~   53 (81)
                      ++++++++++.+++++||+++|+|+||+|||+|.++++++|+++++++|+..
T Consensus       195 i~~~~~~~~~~~~~~~EW~~vA~VlDRlfl~lF~l~~vi~t~~i~l~ap~~~  246 (250)
T d1oedb_         195 IAEQLESASEFDDLKKDWQYVAMVADRLFLYVFFVICSIGTFSIFLDASHNV  246 (250)
T ss_dssp             ---------------------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcccC
Confidence            6788999999999999999999999999999999999999999999999874

>d1oedc_ f.36.1.1 (C:) Acetylcholine receptor protein, delta chain {Marbled electric ray (Torpedo marmorata) [TaxId: 7788]}

class: Membrane and cell surface proteins and peptides
fold: Neurotransmitter-gated ion-channel transmembrane pore
superfamily: Neurotransmitter-gated ion-channel transmembrane pore
family: Neurotransmitter-gated ion-channel transmembrane pore
domain: Acetylcholine receptor protein, delta chain
species: Marbled electric ray (Torpedo marmorata) [TaxId: 7788]

Probab=99.33  E-value=1.3e-13  Score=94.24  Aligned_cols=48  Identities=25%  Similarity=0.382  Sum_probs=25.5

Q ss_pred             cchhcccCccchhhhhchhhhHhhHHHHHHHHHHHHHHhhhhHhhhcC
Q psy17845          2 NGRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQA   49 (81)
Q Consensus         2 i~eh~k~~d~~~~~~~eWk~vA~ViDRlfl~if~~~~~~~t~~i~~~~   49 (81)
                      +++|++++++.+++++|||++|+|+||+|||+|.++++++|+++++++
T Consensus       205 i~~~~~~~~~~~~~~~EWk~vA~ViDRlfl~lF~i~~vi~ti~ifl~~  252 (260)
T d1oedc_         205 IVKQIKEKNAYDEEVGNWNLVGQTIDRLSMFIITPVMVLGTIFIFVMG  252 (260)
T ss_dssp             ---------------------CCSHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            578899999999999999999999999999999999999999998864

>d1oede_ f.36.1.1 (E:) Acetylcholine receptor protein, gamma chain {Marbled electric ray (Torpedo marmorata) [TaxId: 7788]}

class: Membrane and cell surface proteins and peptides
fold: Neurotransmitter-gated ion-channel transmembrane pore
superfamily: Neurotransmitter-gated ion-channel transmembrane pore
family: Neurotransmitter-gated ion-channel transmembrane pore
domain: Acetylcholine receptor protein, gamma chain
species: Marbled electric ray (Torpedo marmorata) [TaxId: 7788]

Probab=99.18  E-value=2.2e-12  Score=88.40  Aligned_cols=48  Identities=17%  Similarity=0.322  Sum_probs=25.6

Q ss_pred             cchhcccCccchhhhhchhhhHhhHHHHHHHHHHHHHHhhhhHhhhcC
Q psy17845          2 NGRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQA   49 (81)
Q Consensus         2 i~eh~k~~d~~~~~~~eWk~vA~ViDRlfl~if~~~~~~~t~~i~~~~   49 (81)
                      +++|++++++.++.++||+++|+|+||+|+++|.++++++|+++++++
T Consensus       205 i~~~~~~~~~~~~~~~eW~~vA~viDR~~l~vF~~~~~i~t~~i~l~~  252 (260)
T d1oede_         205 IAKSTKEQNDSGSENENWVLIGKVIDKACFWIALLLFSIGTLAIFLTG  252 (260)
T ss_dssp             ---------------------CCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            578899999999999999999999999999999999999999999874

>d1oeda_ f.36.1.1 (A:) Acetylcholine receptor protein, alpha chain {Marbled electric ray (Torpedo marmorata) [TaxId: 7788]}

class: Membrane and cell surface proteins and peptides
fold: Neurotransmitter-gated ion-channel transmembrane pore
superfamily: Neurotransmitter-gated ion-channel transmembrane pore
family: Neurotransmitter-gated ion-channel transmembrane pore
domain: Acetylcholine receptor protein, alpha chain
species: Marbled electric ray (Torpedo marmorata) [TaxId: 7788]

Probab=98.96  E-value=1.1e-10  Score=78.95  Aligned_cols=47  Identities=32%  Similarity=0.794  Sum_probs=24.8

Q ss_pred             cchhcccCccchhhhhchhhhHhhHHHHHHHHHHHHHHhhhhHhhhc
Q psy17845          2 NGRQVVTHPDTNHIVEDWKYVSMVLDRFFLCVFTAACVLGTCGIIFQ   48 (81)
Q Consensus         2 i~eh~k~~d~~~~~~~eWk~vA~ViDRlfl~if~~~~~~~t~~i~~~   48 (81)
                      ++++++++++.++.++||+.+|.|+||+|+++|.++++++++++|++
T Consensus       172 ~~~~~~~~~~~~~~~~eW~~vA~viDRi~~~~F~l~~ii~~i~if~~  218 (227)
T d1oeda_         172 IAEHMKSDEESSNAAEEWKYVAMVIDHILLCVFMLICIIGTVSVFAG  218 (227)
T ss_dssp             ---------------------CCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56789999999999999999999999999999999999999999885