Citrus Sinensis ID: 005717

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-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-

MMSEGYAWIATQGLSTLLDPVKDMESMQGVLGLRPYIPSSKKLEHFKLRWIKSADKPDGSTGGSNLFGLWAYDTVWAIAMAVERAGIENSSFLKSNTSKSRVDIAALGTFEMGAKLLDTLINTTFEGLSGNFHLVNGQLEPSAFEIFNVIGTSERVIGYWTKEKELLSELNDNNGRATNNLKNPIWPGNTIDQPRKLKIGVPVREGFTEFIKVVENKNKTTQVSGFCYDMFHAVLQVLEFPLPYEFVPFHDGSFDELLHKIEKQEFDTAVGDTTIVANRSTFVDFTLPYSESGVSMLVLVKDDERKNFWIFLKPLSWDLWLTTGAAFIFTGLVVWVLEHRINTEFRGPPQHQIGTIFWFSFSTLVFAHRERVVNNLSRFVLIIWVFVVLILTQSYTASLTSMLTVQRLQPSFTDVKDIQKNGYFVGYQTNSFVKDLLTKKLNFNETRLKNYTTSEDYHDALSNGEVAAIFDEIPYIKIFLASYCSRYMMVGPTYRTDGFGFAFPLGSPLVPYISRAILKVTEDKEKMENIEKALGNQATCEGQGPTTLSSDSLSVYSFGGLFIIAGIASMSSLLIYVFNFVCFHRPELNNHDPERSFWSKIIDLMKHFDQRDPSLHPFMKRSESRVHPEASPEGNGASPDTDDMQNHSRDSNEGADTVGSYEEEAHSSVGNDASIGAPNAS

cccccEEEEccccccccccccccccccccEEEEEEEccccHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccHHHHHHHHHcccccccEEEEEEccccccccEEEEEEEcccccEEEEEEccccccccccccccccccccccccccccccccccccEEEEEEcccccEEEEEEEcccccccEEEEEHHHHHHHHHHHccccccEEEEEccccccHHHHHHHHcccccEEEEEEEEEEccEEEEEEccccEEccEEEEEEEEcccccccEEEcccccHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHcccccccccHHHHHHcccccccccHHHHHHHHHHHHHHccccccccccHHHHHHHHHccccEEEEEcHHHHHHHHHHcccccEEEcccccccccEEEcccccccHHHHHHHHHcccccHHHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc

cccccEEEEEEcccccccccHHHHcccccEEEEEEEccccHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHHHccccEEEcccccccccccccccccccHHHHHHHHHccEccccEEEEEccccEcccEEEEEEEcccccEEEEEEEccccEEEEccccccccccccccEEccccccccccEEEEEEEccccEEEEEcccccccccccccEHHHHHHHHHHHHccccEEEEEEEcccccccHHHHHHHHccccEEEEEEEEEEEEEEEEEcccHHHHccEEEEEEccccccccEEEEcccccHHHHHHHHHHHHHHHHHHHHHHHcccHcccccccccHHEEEHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHcccccccccHHHHHHHHHHHHHccccccEEcccHHHHHHHHHcccEEEEEEccHHHHHHHHccccccEEEcccccccccEEEcccccccHHHHHHHHHEHHccccHHHHHHHHHHccccccccccccccHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc

MMSEGYAWIATQGLstlldpvkdmesmqgvlglrpyipsskklEHFKLRWiksadkpdgstggsnlfgLWAYDTVWAIAMAVERagienssflksntsksrvDIAALGTFEMGAKLLDTLINTTfeglsgnfhlvngqlepsaFEIFNVIGTSERVIGYWTKEKELLSELNdnngratnnlknpiwpgntidqprklkigvpvrEGFTEFIKVVENknkttqvsgFCYDMFHAVLQVlefplpyefvpfhdgsfDELLHKIEKQefdtavgdttivanrstfvdftlpysesgVSMLVLVKDDERKNFWIFLKPLswdlwlttgaAFIFTGLVVWVLEHRintefrgppqhqigtiFWFSFSTLVFAHRERVVNNLSRFVLIIWVFVVLILTQSYTASLTSMLtvqrlqpsftdvkdiqkngyfvgyqTNSFVKDLLTKKLNFNetrlknyttsedyhdalsngevaaifdeipYIKIFLASYCSRymmvgptyrtdgfgfafplgsplvpyISRAILKVTEDKEKMENIEKALgnqatcegqgpttlssdslsvysFGGLFIIAGIASMSSLLIYVFNFvcfhrpelnnhdpersFWSKIIDLMKhfdqrdpslhpfmkrsesrvhpeaspegngaspdtddmqnhsrdsnegadtvgsyeeeahssvgndasigapnas

MMSEGYAWIATQGLSTLLDPVKDMESMQGVLGLRPYIPSSKKLEHFKLRWIksadkpdgstggSNLFGLWAYDTVWAIAMAVERAGIenssflksntsksRVDIAALGTFEMGAKLLDTLINTTFEGLSGNFHLVNGQLEPSAFEIFNVIGTSERVIGYWTKEKELLSELNDNNgratnnlknpiwpgntidqprkLKIGVPVREGFTEFIKVVENKNKTTQVSGFCYDMFHAVLQVLEFPLPYEFVPFHDGSFDELLHKIEKQEFDTAVGDTTIVANRstfvdftlpysesGVSMLVLVKDDERKNFWIFLKPLSWDLWLTTGAAFIFTGLVVWVLEHRINTEFrgppqhqigTIFWFSFSTLVFAHRERVVNNLSRFVLIIWVFVVLILTQSYTASLTSMLTVQRLQPSFTDVKDIQKNGYFVGYQTNSFVKDLLTKKLNFNETRLKNYTTSEDYHDALSNGEVAAIFDEIPYIKIFLASYCSRYMMVGPTYRTDGFGFAFPLGSPLVPYISRAILKVTEDKEKMENIEKAlgnqatcegqgPTTLSSDSLSVYSFGGLFIIAGIASMSSLLIYVFNFVCFHRPELNNHDPERSFWSKIIDLMKHFDQRDPSLHPFMKRSesrvhpeaspegngaspdtddmqnhSRDSNEGADTVGSYEEeahssvgndasigapnas

MMSEGYAWIATQGLSTLLDPVKDMESMQGVLGLRPYIPSSKKLEHFKLRWIKSADKPDGSTGGSNLFGLWAYDTVWAIAMAVERAGIENSSFLKSNTSKSRVDIAALGTFEMGAKLLDTLINTTFEGLSGNFHLVNGQLEPSAFEIFNVIGTSERVIGYWTKEKELLSELNDNNGRATNNLKNPIWPGNTIDQPRKLKIGVPVREGFTEFIKVVENKNKTTQVSGFCYDMFHAVLQVLEFPLPYEFVPFHDGSFDELLHKIEKQEFDTAVGDTTIVANRSTFVDFTLPYSESGVSMLVLVKDDERKNFWIFLKPLSWDLWLTTGAAFIFTGLVVWVLEHRINTEFRGPPQHQIGTIFWFSFSTLVFAHRERVVNNLSRfvliiwvfvvlilTQSYTASLTSMLTVQRLQPSFTDVKDIQKNGYFVGYQTNSFVKDLLTKKLNFNETRLKNYTTSEDYHDALSNGEVAAIFDEIPYIKIFLASYCSRYMMVGPTYRTDGFGFAFPLGSPLVPYISRAILKVTEDKEKMENIEKALGNQATCEGQGPTTLSSDSLSVYSFGGLFIIAGIASMSSLLIYVFNFVCFHRPELNNHDPERSFWSKIIDLMKHFDQRDPSLHPFMKRSESRVHPEASPEGNGASPDTDDMQNHSRDSNEGADTVGSYEEEAHSSVGNDASIGAPNAS

*****YAWIATQGLSTLLDPVKDMESMQGVLGLRPYIPSSKKLEHFKLRWIKS*********GSNLFGLWAYDTVWAIAMAVERAGIENSSFLK*****SRVDIAALGTFEMGAKLLDTLINTTFEGLSGNFHLVNGQLEPSAFEIFNVIGTSERVIGYWTKEKELLSEL********NNLKNPIWPGNTIDQPRKLKIGVPVREGFTEFIKVVENKNKTTQVSGFCYDMFHAVLQVLEFPLPYEFVPFHDGSFDELLHKIEKQEFDTAVGDTTIVANRSTFVDFTLPYSESGVSMLVLVKDDERKNFWIFLKPLSWDLWLTTGAAFIFTGLVVWVLEHRINTEFRGPPQHQIGTIFWFSFSTLVFAHRERVVNNLSRFVLIIWVFVVLILTQSYTASLTSMLTVQRLQPSFTDVKDIQKNGYFVGYQTNSFVKDLLTKKLNFNETRLKNYTTSEDYHDALSNGEVAAIFDEIPYIKIFLASYCSRYMMVGPTYRTDGFGFAFPLGSPLVPYISRAILKVT******************************SLSVYSFGGLFIIAGIASMSSLLIYVFNFVCFHRPELNNHDPERSFWSKIIDLMKHF*************************************************************************

MMSEGYAWIATQGLSTLLDPVKDMESMQGVLGLRPYIPSSKKLEHFKLRWI**********GGSNLFGLWAYDTVWAIAMAVERA************************FEMGAKLLDTLINTTFEGLSGNFHLVNGQLEPSAFEIFNVIGTSERVIGYWTKEKEL****************NPIWPGNTIDQPRKLKIGVPVREGFTEFIKVVENKNKTTQVSGFCYDMFHAVLQVLEFPLPYEFVPFHDGSFDELLHKIEKQEFDTAVGDTTIVANRSTFVDFTLPYSESGVSMLVLVKDDERKNFWIFLKPLSWDLWLTTGAAFIFTGLVVWVLEHRINTEFRGPPQHQIGTIFWFSFSTLVFAHRERVVNNLSRFVLIIWVFVVLILTQSYTASLTSMLTVQRLQPSFTDVKDIQKNGYFVGYQTNSFVKDLLTKK*******************ALSNGEVAAIFDEIPYIKIFLASYCSRYMMVGPTYRTDGFGFAFPLGSPLVPYISRAILKVTEDKEKMENIEKAL**********************SFGGLFIIAGIASMSSLLIYVFNFVCFHR***************IIDLM****************************************************************************

MMSEGYAWIATQGLSTLLDPVKDMESMQGVLGLRPYIPSSKKLEHFKLRWIKSADKPDGSTGGSNLFGLWAYDTVWAIAMAVERAGIENSSFLKSNTSKSRVDIAALGTFEMGAKLLDTLINTTFEGLSGNFHLVNGQLEPSAFEIFNVIGTSERVIGYWTKEKELLSELNDNNGRATNNLKNPIWPGNTIDQPRKLKIGVPVREGFTEFIKVVENKNKTTQVSGFCYDMFHAVLQVLEFPLPYEFVPFHDGSFDELLHKIEKQEFDTAVGDTTIVANRSTFVDFTLPYSESGVSMLVLVKDDERKNFWIFLKPLSWDLWLTTGAAFIFTGLVVWVLEHRINTEFRGPPQHQIGTIFWFSFSTLVFAHRERVVNNLSRFVLIIWVFVVLILTQSYTASLTSMLTVQRLQPSFTDVKDIQKNGYFVGYQTNSFVKDLLTKKLNFNETRLKNYTTSEDYHDALSNGEVAAIFDEIPYIKIFLASYCSRYMMVGPTYRTDGFGFAFPLGSPLVPYISRAILKVTEDKEKMENIEKALGNQATCEGQGPTTLSSDSLSVYSFGGLFIIAGIASMSSLLIYVFNFVCFHRPELNNHDPERSFWSKIIDLMKHFDQRDPSLHPFMK***********************************************SVGNDASIGAPNAS

*MSEGYAWIATQGLSTLLDPVKDMESMQGVLGLRPYIPSSKKLEHFKLRWIKSADKPDGSTGGSNLFGLWAYDTVWAIAMAVERAGIENSSFLKSNTSKSRVDIAALGTFEMGAKLLDTLINTTFEGLSGNFHLVNGQLEPSAFEIFNVIGTSERVIGYWTKEKELLSELNDNNGRATNNLKNPIWPGNTIDQPRKLKIGVPVREGFTEFIKVVENKNKTTQVSGFCYDMFHAVLQVLEFPLPYEFVPFHDGSFDELLHKIEKQEFDTAVGDTTIVANRSTFVDFTLPYSESGVSMLVLVKDDERKNFWIFLKPLSWDLWLTTGAAFIFTGLVVWVLEHRINTEFRGPPQHQIGTIFWFSFSTLVFAHRERVVNNLSRFVLIIWVFVVLILTQSYTASLTSMLTVQRLQPSFTDVKDIQKNGYFVGYQTNSFVKDLLTKKLNFNETRLKNYTTSEDYHDALSNGEVAAIFDEIPYIKIFLASYCSRYMMVGPTYRTDGFGFAFPLGSPLVPYISRAILKVTEDKEKMENIEKALGNQATCEGQ*******DSLSVYSFGGLFIIAGIASMSSLLIYVFNFVCFHRPEL*****ERSFWSKIIDLMKHFDQRDP********************************************************************

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii

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no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Alignment graph	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query		681	2.2.26 [Sep-21-2011]
Q9C5V5		947	Glutamate receptor 2.8 OS	yes	no	0.908	0.653	0.464	1e-153
Q8LGN0		952	Glutamate receptor 2.7 OS	no	no	0.929	0.664	0.448	1e-151
O81078		940	Glutamate receptor 2.9 OS	no	no	0.911	0.660	0.444	1e-143
O04660		901	Glutamate receptor 2.1 OS	no	no	0.863	0.652	0.419	1e-136
Q9SHV1		920	Glutamate receptor 2.2 OS	no	no	0.765	0.566	0.450	1e-134
Q9LFN5		918	Glutamate receptor 2.5 OS	no	no	0.831	0.616	0.423	1e-131
Q9LFN8		967	Glutamate receptor 2.6 OS	no	no	0.835	0.588	0.406	1e-127
Q9SHV2		895	Glutamate receptor 2.3 OS	no	no	0.841	0.640	0.400	1e-126
O81776		896	Glutamate receptor 2.4 OS	no	no	0.844	0.641	0.422	1e-124
Q93YT1		912	Glutamate receptor 3.2 OS	no	no	0.897	0.669	0.389	1e-119

>sp\|Q9C5V5\|GLR28_ARATH Glutamate receptor 2.8 OS=Arabidopsis thaliana GN=GLR2.8 PE=2 SV=2	Back alignment and function desciption

 Score =  541 bits (1395), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 305/657 (46%), Positives = 425/657 (64%), Gaps = 38/657 (5%)

Query: 1   MMSEGYAWIATQGLSTLLDPV---KDMESMQGVLGLRPYIPSSKKLEHFKLRWIKSADKP 57
           MM EGY W+ T G++ ++  +   + + ++ GVLG+R ++P SK LE F+LRW ++  K 
Sbjct: 244 MMEEGYVWLMTNGMTHMMRHIHHGRSLNTIDGVLGVRSHVPKSKGLEDFRLRWKRNFKKE 303

Query: 58  DGSTGGS-NLFGLWAYDTVWAIAMAVERAGIENSSFLKSNTSKSRVDIAALGTFEM---G 113
           +       ++FGLWAYD+  A+AMAVE+  I  SSF  +N S S  ++  LGT  +   G
Sbjct: 304 NPWLRDDLSIFGLWAYDSTTALAMAVEKTNI--SSFPYNNASGSSNNMTDLGTLHVSRYG 361

Query: 114 AKLLDTLINTTFEGLSGNFHLVNGQLEPSAFEIFNVIGTSERVIGYWTKEKELLSELNDN 173
             LL+ L    F GL+G F+L++ QLE   FEI N +G  ER++G+WT    L++  ++ 
Sbjct: 362 PSLLEALSEIRFNGLAGRFNLIDRQLESPKFEIINFVGNEERIVGFWTPSNGLVNVNSNK 421

Query: 174 NGRATNNLKNP-IWPGNTIDQPR---------KLKIGVPVREGFTEFIKVVENK-NKTTQ 222
               T     P IWPG +   P+         K+K+GVPV++GF  F++V+ +     T 
Sbjct: 422 TTSFTGERFGPLIWPGKSTIVPKGWEIPTNGKKIKVGVPVKKGFFNFVEVITDPITNITT 481

Query: 223 VSGFCYDMFHAVLQVLEFPLPYEFVPFH------DGSFDELLHKIEKQEFDTAVGDTTIV 276
             G+  D+F A L+     LPY  +P +      D  +D+L++K++    D  VGD TI 
Sbjct: 482 PKGYAIDIFEAALK----KLPYSVIPQYYRFESPDDDYDDLVYKVDNGTLDAVVGDVTIT 537

Query: 277 ANRSTFVDFTLPYSESGVSMLVLVKDDERKNFWIFLKPLSWDLWLTTGAAFIFTGLVVWV 336
           A RS + DFTLPY+ESGVSM+V V+D+E KN W+FLKP   DLW+TT   F+  G VVW+
Sbjct: 538 AYRSLYADFTLPYTESGVSMMVPVRDNENKNTWVFLKPWGLDLWVTTACFFVLIGFVVWL 597

Query: 337 LEHRINTEFRGPPQHQIGTIFWFSFSTLVFAHRERVVNNLSRFVLIIWVFVVLILTQSYT 396
            EHR+NT+FRGPP HQIGT FWFSFST+VFAHRE+VV+NL+RFV+++W FVVL+LTQSYT
Sbjct: 598 FEHRVNTDFRGPPHHQIGTSFWFSFSTMVFAHREKVVSNLARFVVVVWCFVVLVLTQSYT 657

Query: 397 ASLTSMLTVQRLQPSFTDVKDIQKNGYFVGYQTNSFVKDLLTKKLNFNETRLKNYTTSED 456
           A+LTS LTVQR QP+  +VKD+ KNG +VGYQ  +FVKD L K+  FN ++LK + +SE+
Sbjct: 658 ANLTSFLTVQRFQPAAINVKDLIKNGDYVGYQHGAFVKDFLIKE-GFNVSKLKPFGSSEE 716

Query: 457 YHDALSNGEVAAIFDEIPYIKIFLASYCSRYMMVGPTYRTDGFGFAFPLGSPLVPYISRA 516
            H  LSNG ++A FDE+ Y++  L+ YCS+Y +V PT++T GFGFAFP  SPL   +S+A
Sbjct: 717 CHALLSNGSISAAFDEVAYLRAILSQYCSKYAIVEPTFKTAGFGFAFPRNSPLTGDVSKA 776

Query: 517 ILKVTEDKEKMENIE-KALGNQATCEGQGPTTLSSDSLSVYSFGGLFIIAGIASMSSLLI 575
           IL VT+  E M++IE K    Q  C     T LSS+ LS+ SF GLF+IAGIAS  +LLI
Sbjct: 777 ILNVTQGDE-MQHIENKWFMKQNDCP-DPKTALSSNRLSLRSFWGLFLIAGIASFLALLI 834

Query: 576 YVFNFVCFHRPELNNHDPERSFWSKIIDLMKHFDQRDPSLHPFMKRSESRVHPEASP 632
           +VF F+  +R  L + D E S W K+  L ++FD++D   H F     S VH  +SP
Sbjct: 835 FVFLFLYENRHTLCD-DSEDSIWRKLTSLFRNFDEKDIKSHTF---KSSAVHHVSSP 887

Glutamate-gated receptor that probably acts as non-selective cation channel. May be involved in light-signal transduction and calcium homeostasis via the regulation of calcium influx into cells.
Arabidopsis thaliana (taxid: 3702)

>sp\|Q8LGN0\|GLR27_ARATH Glutamate receptor 2.7 OS=Arabidopsis thaliana GN=GLR2.7 PE=2 SV=3	Back alignment and function description

>sp\|O81078\|GLR29_ARATH Glutamate receptor 2.9 OS=Arabidopsis thaliana GN=GLR2.9 PE=2 SV=1	Back alignment and function description

>sp\|O04660\|GLR21_ARATH Glutamate receptor 2.1 OS=Arabidopsis thaliana GN=GLR2.1 PE=2 SV=2	Back alignment and function description

>sp\|Q9SHV1\|GLR22_ARATH Glutamate receptor 2.2 OS=Arabidopsis thaliana GN=GLR2.2 PE=2 SV=1	Back alignment and function description

>sp\|Q9LFN5\|GLR25_ARATH Glutamate receptor 2.5 OS=Arabidopsis thaliana GN=GLR2.5 PE=1 SV=2	Back alignment and function description

>sp\|Q9LFN8\|GLR26_ARATH Glutamate receptor 2.6 OS=Arabidopsis thaliana GN=GLR2.6 PE=2 SV=2	Back alignment and function description

>sp\|Q9SHV2\|GLR23_ARATH Glutamate receptor 2.3 OS=Arabidopsis thaliana GN=GLR2.3 PE=2 SV=1	Back alignment and function description

>sp\|O81776\|GLR24_ARATH Glutamate receptor 2.4 OS=Arabidopsis thaliana GN=GLR2.4 PE=2 SV=2	Back alignment and function description

>sp\|Q93YT1\|GLR32_ARATH Glutamate receptor 3.2 OS=Arabidopsis thaliana GN=GLR3.2 PE=1 SV=2	Back alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Alignment Graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		681
224142293		853	glutamate-gated kainate-type ion channel	0.994	0.793	0.598	0.0
224106942		754	glutamate-gated kainate-type ion channel	0.831	0.750	0.626	0.0
224117598		748	glutamate-gated kainate-type ion channel	0.725	0.660	0.627	0.0
147787550		960	hypothetical protein VITISV_032974 [Viti	0.966	0.685	0.480	0.0
359476446		983	PREDICTED: glutamate receptor 2.8-like [	0.942	0.653	0.486	1e-179
296083775		990	unnamed protein product [Vitis vinifera]	0.942	0.648	0.486	1e-179
147852351		978	hypothetical protein VITISV_005870 [Viti	0.947	0.659	0.469	1e-178
225464311		916	PREDICTED: glutamate receptor 2.7-like [	0.939	0.698	0.477	1e-176
296083758		919	unnamed protein product [Vitis vinifera]	0.903	0.669	0.486	1e-175
359476434		941	PREDICTED: glutamate receptor 2.7-like [	0.908	0.657	0.485	1e-175

>gi\|224142293\|ref\|XP_002324493.1\| glutamate-gated kainate-type ion channel receptor subunit GluR5 [Populus trichocarpa] gi\|222865927\|gb\|EEF03058.1\| glutamate-gated kainate-type ion channel receptor subunit GluR5 [Populus trichocarpa]	Back alignment and taxonomy information

 Score =  836 bits (2159), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 419/700 (59%), Positives = 527/700 (75%), Gaps = 23/700 (3%)

Query: 1   MMSEGYAWIATQGLSTLLDPVKD--MESMQGVLGLRPYIPSSKKLEHFKLRWIK--SADK 56
           MMSEGYAW+ T GLSTLLDP+    M+SM+GVLG++P++P+SKKLE FK RW K  +  K
Sbjct: 154 MMSEGYAWLVTAGLSTLLDPLGSEVMDSMRGVLGIKPHVPTSKKLESFKSRWRKNFTISK 213

Query: 57  PDGSTGGSNLFGLWAYDTVWAIAMAVERAGIENSSFLKSNTSKSRVDIAALGTFEMGAKL 116
           P       NLFGLWAYDTVWAIAMAVE+AGI +S ++K NTS+  VDIAALG  E G +L
Sbjct: 214 PQSKINELNLFGLWAYDTVWAIAMAVEKAGIVHSRYVKPNTSEGTVDIAALGKSETGPRL 273

Query: 117 LDTLINTTFEGLSGNFHLVNGQLEPSAFEIFNVIGTSERVIGYWTKEKELLSELNDNNGR 176
           L ++++T F+GLSG+FHL  G+  PSAFEI N+IG +ERVIGYWT E+ L   L  N   
Sbjct: 274 LSSILSTRFQGLSGDFHLAGGERVPSAFEILNLIGKAERVIGYWTPERGLSRNLYTNGKI 333

Query: 177 AT----NNLKNPIWPGNTIDQPRKLKIGVPVREGFTEFIKVVEN-KNKTTQVSGFCYDMF 231
           A+    N LK PIWPG+T  QP++L+IGVP++ GF EFI+V  N ++    VSGF  D+F
Sbjct: 334 ASSTSKNRLKEPIWPGDTTQQPKRLRIGVPLKTGFNEFIEVEWNPEDDKPIVSGFTRDVF 393

Query: 232 HAVLQVLEFPLPYEFVPFHD------GSFDELLHKIEKQEFDTAVGDTTIVANRSTFVDF 285
            +V++ L FPLPYEF+PF +      G++++LL +I+ + FD AVGD TI+ANRST+VDF
Sbjct: 394 VSVVEALPFPLPYEFIPFVNKNKQSAGTYNDLLDQIKLKNFDAAVGDITIIANRSTYVDF 453

Query: 286 TLPYSESGVSMLVLVKDDERKNFWIFLKPLSWDLWLTTGAAFIFTGLVVWVLEHRINTEF 345
           TLP+SESG++M+VL K DER+N WIFLKPLS +LWLTTG AFI TGLVVWVLEHR N  F
Sbjct: 454 TLPFSESGITMVVLTKRDERENMWIFLKPLSLELWLTTGIAFILTGLVVWVLEHRENKVF 513

Query: 346 RGPPQHQIGTIFWFSFSTLVFAHRERVVNNLSRFVLIIWVFVVLILTQSYTASLTSMLTV 405
           RG P  Q+GT  WFSFSTL FAHRE+VVNN +RFVLIIW+FVVLI++QSYTASL S+LTV
Sbjct: 514 RGKPAQQLGTTLWFSFSTLFFAHREKVVNNWTRFVLIIWIFVVLIISQSYTASLASILTV 573

Query: 406 QRLQPSFTDVKDIQKNGYFVGYQTNSFVKDLLTKKLNFNETRLKNYTTSEDYHDALS--- 462
           +RLQP+F DVK+I+KNGYFVG+Q +SFVKD L K+LNFN+T L+ Y+T E+YHDALS   
Sbjct: 574 KRLQPTFVDVKEIRKNGYFVGHQKDSFVKDFLVKQLNFNDTMLREYSTPEEYHDALSRGT 633

Query: 463 -NGEVAAIFDEIPYIKIFLASYCSRYMMVGPTYRTDGFGFAFPLGSPLVPYISRAILKVT 521
            NG VAAIF EIPYIK+FLA YCS++ MVGPTY+TDGFGFAFPLGSPLVPYISRAIL VT
Sbjct: 634 HNGGVAAIFAEIPYIKLFLAKYCSKFQMVGPTYKTDGFGFAFPLGSPLVPYISRAILNVT 693

Query: 522 EDKEKMENIEKA-LGNQATCEGQGPTTLSSDSLSVYSFGGLFIIAGIASMSSLLIYVFNF 580
           +DK+KM+ IE+   G + TC  Q    + S  L + SFGGLFII G+ASMS+LLIYV  F
Sbjct: 694 QDKDKMDEIERRNFGGETTCSDQA-AMVPSGGLGLPSFGGLFIITGVASMSALLIYVTKF 752

Query: 581 VCFHRPELNNHDPERSFWSKIIDLMKHFDQRDPSLHPFMKRSESRVHPEASPEGNGASPD 640
           +  H P  N  D ERSF+ ++++L KHFD+ DPS H  +  + SRVH   S E  GASPD
Sbjct: 753 LYIHWPASNTMDQERSFYLRVLELAKHFDKEDPSAH-HLNGAGSRVHAVPSVEIVGASPD 811

Query: 641 TDDMQNHSRDSNEGA-DTVGSYEEEAHSSVGNDASIGAPN 679
            DD ++HSR S+EG+ D +G  + + H+   + A+   P+
Sbjct: 812 IDDARSHSRTSSEGSGDIIGDQDHDNHTPRNSAANPEPPH 851

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|224106942\|ref\|XP_002333594.1\| glutamate-gated kainate-type ion channel receptor subunit GluR5 [Populus trichocarpa] gi\|222837536\|gb\|EEE75901.1\| glutamate-gated kainate-type ion channel receptor subunit GluR5 [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|224117598\|ref\|XP_002331676.1\| glutamate-gated kainate-type ion channel receptor subunit GluR5 [Populus trichocarpa] gi\|222874095\|gb\|EEF11226.1\| glutamate-gated kainate-type ion channel receptor subunit GluR5 [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|147787550\|emb\|CAN75545.1\| hypothetical protein VITISV_032974 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|359476446\|ref\|XP_003631841.1\| PREDICTED: glutamate receptor 2.8-like [Vitis vinifera]	Back alignment and taxonomy information

>gi\|296083775\|emb\|CBI23992.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|147852351\|emb\|CAN80118.1\| hypothetical protein VITISV_005870 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|225464311\|ref\|XP_002269290.1\| PREDICTED: glutamate receptor 2.7-like [Vitis vinifera]	Back alignment and taxonomy information

>gi\|296083758\|emb\|CBI23975.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|359476434\|ref\|XP_003631838.1\| PREDICTED: glutamate receptor 2.7-like [Vitis vinifera]	Back alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Alignment graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		681
TAIR\|locus:2066107		952	GLR2.7 "glutamate receptor 2.7	0.926	0.662	0.442	8e-140
TAIR\|locus:2066086		947	GLR2.8 "glutamate receptor 2.8	0.882	0.634	0.458	1e-139
TAIR\|locus:2066148		940	GLR2.9 "glutamate receptor 2.9	0.925	0.670	0.430	2.5e-136
TAIR\|locus:2181196		901	GLR2.1 "glutamate receptor 2.1	0.863	0.652	0.406	1.8e-119
TAIR\|locus:2122128		912	GLUR2 "glutamate receptor 2" [	0.700	0.523	0.370	1.1e-112
TAIR\|locus:2206095		933	GLR3.3 "glutamate receptor 3.3	0.668	0.487	0.378	1.3e-105
TAIR\|locus:2207165		959	GLR3.4 "AT1G05200" [Arabidopsi	0.656	0.466	0.372	2.2e-101
TAIR\|locus:2047256		920	GLR2.2 "glutamate receptor 2.2	0.588	0.435	0.418	1e-82
TAIR\|locus:2166001		867	ATGLR1.2 [Arabidopsis thaliana	0.779	0.612	0.340	5.8e-82
TAIR\|locus:2166006		860	GLR1.3 "glutamate receptor 1.3	0.781	0.618	0.341	7.4e-82

TAIR\|locus:2066107 GLR2.7 "glutamate receptor 2.7" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 1368 (486.6 bits), Expect = 8.0e-140, P = 8.0e-140
 Identities = 293/662 (44%), Positives = 420/662 (63%)

Query:     1 MMSEGYAWIATQGLSTLL---DPVKDMESMQGVLGLRPYIPSSKKLEHFKLRWIKSADKP 57
             MM EGY W+ T G+  LL   +    +E+MQGVLG+R +IP SKKL++F+LRW K   K 
Sbjct:   253 MMEEGYVWLLTDGVMNLLKSNERGSSLENMQGVLGVRSHIPKSKKLKNFRLRWEKMFPKK 312

Query:    58 DGSTGGSNLFGLWAYDTVWAIAMAVERAGIENSSFLKSNTS-KSRVDIAALGTFEMGAKL 116
              G+    N+F L AYD++ A+AMAVE+  I++  +     S  ++ ++  LG    G  L
Sbjct:   313 -GNDEEMNIFALRAYDSITALAMAVEKTNIKSLRYDHPIASGNNKTNLGTLGVSRYGPSL 371

Query:   117 LDTLINTTFEGLSGNFHLVNGQLEPSAFEIFNVIGTSERVIGYWTKEKELLSELNDNNGR 176
             L  L N  F GL+G F L+NGQLE S F++ N+IG+ ER+IG W     +++  + N   
Sbjct:   372 LKALSNVRFNGLAGEFELINGQLESSVFDVINIIGSEERIIGLWRPSNGIVNAKSKNTTS 431

Query:   177 ATNNLKNP-IWPGNTIDQPR---------KLKIGVPVREGFTEFI--KVVENKNKTTQVS 224
                    P IWPG + D P+          L++G+PV++GF EF+  K+    N  T  +
Sbjct:   432 VLGERLGPVIWPGKSKDVPKGWQIPTNGKMLRVGIPVKKGFLEFVDAKIDPISNAMTP-T 490

Query:   225 GFCYDMFHAVLQVLEFPLPYEFVPF--HDGSFDELLHKIEKQEFDTAVGDTTIVANRSTF 282
             G+C ++F AVL+ L + +  +++ F   D ++DE+++++    +D  VGD TIVANRS +
Sbjct:   491 GYCIEIFEAVLKKLPYSVIPKYIAFLSPDENYDEMVYQVYTGAYDAVVGDVTIVANRSLY 550

Query:   283 VDFTLPYSESGVSMLVLVKDDERKNFWIFLKPLSWDLWLTTGAAFIFTGLVVWVLEHRIN 342
             VDFTLPY+ESGVSM+V +KD+  KN W+FL+P S DLW+TT   F+F G +VW+LEHR+N
Sbjct:   551 VDFTLPYTESGVSMMVPLKDN--KNTWVFLRPWSLDLWVTTACFFVFIGFIVWILEHRVN 608

Query:   343 TEFRGPPQHQIGTIFWFSFSTLVFAHRERVVNNLSRXXXXXXXXXXXXXTQSYTASLTSM 402
             T+FRGPP HQIGT FWF+FST+ FAHRE+VV+NL+R              QSYTA+LTS 
Sbjct:   609 TDFRGPPHHQIGTSFWFAFSTMNFAHREKVVSNLARFVVLVWCFVVLVLIQSYTANLTSF 668

Query:   403 LTVQRLQPSFTDVKDIQKNGYFVGYQTNSFVKDLLTKKLNFNETRLKNYTTSEDYHDALS 462
              TV+ LQP+ T+ KD+ K    +GYQ  +FV++LL K   F+E++LK + ++ +  +  S
Sbjct:   669 FTVKLLQPTVTNWKDLIKFNKNIGYQRGTFVRELL-KSQGFDESQLKPFGSAVECDELFS 727

Query:   463 NGEVAAIFDEIPYIKIFLASYCSRYMMVGPTYRTDGFGFAFPLGSPLVPYISRAILKVTE 522
             NG + A FDE+ YIK+ L+   S+Y MV P+++T GFGF FP  SPL   +SRAIL VT+
Sbjct:   728 NGTITASFDEVAYIKVILSQNSSKYTMVEPSFKTAGFGFVFPKKSPLTDDVSRAILNVTQ 787

Query:   523 DKEKMENIE-KALGNQATCEGQGPTTLSSDSLSVYSFGGLFIIAGIASMSSLLIYVFNFV 581
              +E M++IE K       C     T+LSS+ LS+ SF GLF+IAGIAS  +LLI+V NF+
Sbjct:   788 GEE-MQHIENKWFKKPNNCPDLN-TSLSSNHLSLSSFWGLFLIAGIASFLALLIFVANFL 845

Query:   582 CFHRPELNNHDPERSFWSKIIDLMKHFDQRDPSLHPFMKRSESRVHPEASPEGNGAS-PD 640
               H+  L + D E SF  K+  L+++FD++D   H F    E+ VH  +SP   G+S P 
Sbjct:   846 YEHKHTLFD-DSENSFRGKLKFLVRNFDEKDIKSHMF---KENAVHNVSSPITQGSSSPL 901

Query:   641 TD 642
             TD
Sbjct:   902 TD 903

GO:0004970 "ionotropic glutamate receptor activity" evidence=IEA

GO:0005215 "transporter activity" evidence=IEA

GO:0005217 "intracellular ligand-gated ion channel activity" evidence=ISS

GO:0005234 "extracellular-glutamate-gated ion channel activity" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006810 "transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0006874 "cellular calcium ion homeostasis" evidence=NAS

GO:0009416 "response to light stimulus" evidence=NAS

GO:0005773 "vacuole" evidence=IDA

GO:0009627 "systemic acquired resistance" evidence=RCA

GO:0034976 "response to endoplasmic reticulum stress" evidence=RCA

TAIR\|locus:2066086 GLR2.8 "glutamate receptor 2.8" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2066148 GLR2.9 "glutamate receptor 2.9" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2181196 GLR2.1 "glutamate receptor 2.1" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2122128 GLUR2 "glutamate receptor 2" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2206095 GLR3.3 "glutamate receptor 3.3" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2207165 GLR3.4 "AT1G05200" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2047256 GLR2.2 "glutamate receptor 2.2" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2166001 ATGLR1.2 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2166006 GLR1.3 "glutamate receptor 1.3" [Arabidopsis thaliana (taxid:3702)]	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

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	eugene3.00180871	glutamate-gated kainate-type ion channel receptor subunit GluR5 (853 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
		Sorry, there are no predicted associations at the current settings.

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Alignment Graph	Length	Definition	E-value
Query		681
pfam00060		268	pfam00060, Lig_chan, Ligand-gated ion channel	4e-68
cd06366		350	cd06366, PBP1_GABAb_receptor, Ligand-binding domai	1e-28
pfam01094		343	pfam01094, ANF_receptor, Receptor family ligand bi	2e-21
smart00079		133	smart00079, PBPe, Eukaryotic homologues of bacteri	5e-19
cd06350		348	cd06350, PBP1_GPCR_family_C_like, Ligand-binding d	3e-08
pfam00497		220	pfam00497, SBP_bac_3, Bacterial extracellular solu	6e-08
pfam00497		220	pfam00497, SBP_bac_3, Bacterial extracellular solu	1e-06
smart00062		219	smart00062, PBPb, Bacterial periplasmic substrate-	5e-06
cd00134		218	cd00134, PBPb, Bacterial periplasmic transport sys	3e-05
COG0834		275	COG0834, HisJ, ABC-type amino acid transport/signa	3e-05
COG0834		275	COG0834, HisJ, ABC-type amino acid transport/signa	1e-04
TIGR04262		257	TIGR04262, orph_peri_GRRM, extracellular substrate	0.002
PRK09495		247	PRK09495, glnH, glutamine ABC transporter periplas	0.003

>gnl\|CDD\|215685 pfam00060, Lig_chan, Ligand-gated ion channel	Back alignment and domain information

 Score =  223 bits (571), Expect = 4e-68
 Identities = 82/270 (30%), Positives = 129/270 (47%), Gaps = 22/270 (8%)

Query: 318 DLWLTTGAAFIFTGLVVWVLEHRINTEFRG----PPQHQIGTIFWFSFSTLV-FAHRERV 372
           ++WL   AA++  G+V+++LE     E+RG    P Q  +    WFSF  LV   HRE  
Sbjct: 1   EVWLCILAAYLLVGVVLFLLERFSPYEWRGPPEEPNQFTLSNSLWFSFGALVQQGHRELP 60

Query: 373 VNNLSRFVLIIWVFVVLILTQSYTASLTSMLTVQRLQPSFTDVKDIQKNGYFVGYQT--- 429
            +   R ++ +W F  LIL  SYTA+L + LTV+R+Q     ++D+ K    +GY T   
Sbjct: 61  RSLSGRILVGVWWFFALILLSSYTANLAAFLTVERMQSPIQSLEDLAKQN-KIGYGTLRG 119

Query: 430 -NSFVKDLLTKK--LNFNETRLKNY-------TTSEDYHDALSNGEVAAIFDEIPYIKIF 479
            ++F     +K          + ++       +  E          + A   E  Y++  
Sbjct: 120 GSTFEFFKESKNPTYRRMWEYMISFKGEVNVESYEEGVQRVRKGNGLYAFLMESAYLEYE 179

Query: 480 LASYCSRYMMVGPTYRTDGFGFAFPLGSPLVPYISRAILKVTEDKEKMENIEKA-LGNQA 538
           +A    +   VG  + T G+G AFP GSPL   +SRAIL++ E   +++ +E      + 
Sbjct: 180 VARDPCKLTTVGEVFGTKGYGIAFPKGSPLRDKLSRAILELRES-GELQKLENKWWKKKG 238

Query: 539 TCEGQGPTTLSSDSLSVYSFGGLFIIAGIA 568
            C     T +SS  L + SF GLF+I GI 
Sbjct: 239 ECSL-KSTAVSSSQLGLESFAGLFLILGIG 267

This family includes the four transmembrane regions of the ionotropic glutamate receptors and NMDA receptors. Length = 268

>gnl\|CDD\|107361 cd06366, PBP1_GABAb_receptor, Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA)	Back alignment and domain information

>gnl\|CDD\|216296 pfam01094, ANF_receptor, Receptor family ligand binding region	Back alignment and domain information

>gnl\|CDD\|197504 smart00079, PBPe, Eukaryotic homologues of bacterial periplasmic substrate binding proteins	Back alignment and domain information

>gnl\|CDD\|153138 cd06350, PBP1_GPCR_family_C_like, Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs)	Back alignment and domain information

>gnl\|CDD\|215950 pfam00497, SBP_bac_3, Bacterial extracellular solute-binding proteins, family 3	Back alignment and domain information

>gnl\|CDD\|215950 pfam00497, SBP_bac_3, Bacterial extracellular solute-binding proteins, family 3	Back alignment and domain information

>gnl\|CDD\|214497 smart00062, PBPb, Bacterial periplasmic substrate-binding proteins	Back alignment and domain information

>gnl\|CDD\|238078 cd00134, PBPb, Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic ions	Back alignment and domain information

>gnl\|CDD\|223904 COG0834, HisJ, ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]	Back alignment and domain information

>gnl\|CDD\|223904 COG0834, HisJ, ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]	Back alignment and domain information

>gnl\|CDD\|211985 TIGR04262, orph_peri_GRRM, extracellular substrate-binding orphan protein, GRRM family	Back alignment and domain information

>gnl\|CDD\|236540 PRK09495, glnH, glutamine ABC transporter periplasmic protein; Reviewed	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		681
KOG1054		897	consensus Glutamate-gated AMPA-type ion channel re	100.0
KOG4440		993	consensus NMDA selective glutamate-gated ion chann	100.0
KOG1052		656	consensus Glutamate-gated kainate-type ion channel	100.0
KOG1053		1258	consensus Glutamate-gated NMDA-type ion channel re	100.0
cd06390		364	PBP1_iGluR_AMPA_GluR1 N-terminal leucine/isoleucin	99.94
cd06387		372	PBP1_iGluR_AMPA_GluR3 N-terminal leucine/isoleucin	99.94
cd06391		400	PBP1_iGluR_delta_2 N-terminal leucine/isoleucine/v	99.92
cd06392		400	PBP1_iGluR_delta_1 N-terminal leucine/isoleucine/v	99.91
PRK10797		302	glutamate and aspartate transporter subunit; Provi	99.88
PRK09495		247	glnH glutamine ABC transporter periplasmic protein	99.88
cd06388		371	PBP1_iGluR_AMPA_GluR4 N-terminal leucine/isoleucin	99.86
PF00497		225	SBP_bac_3: Bacterial extracellular solute-binding	99.86
PRK11260		266	cystine transporter subunit; Provisional	99.86
cd06389		370	PBP1_iGluR_AMPA_GluR2 N-terminal leucine/isoleucin	99.86
PRK15010		260	ABC transporter lysine/arginine/ornithine binding	99.85
PRK11917		259	bifunctional adhesin/ABC transporter aspartate/glu	99.84
PRK15007		243	putative ABC transporter arginine-biding protein;	99.84
TIGR02995		275	ectoine_ehuB ectoine/hydroxyectoine ABC transporte	99.83
TIGR01096		250	3A0103s03R lysine-arginine-ornithine-binding perip	99.83
cd06393		384	PBP1_iGluR_Kainate_GluR5_7 N-terminal leucine/isol	99.82
PRK15437		259	histidine ABC transporter substrate-binding protei	99.81
PRK10859		482	membrane-bound lytic transglycosylase F; Provision	99.79
cd06380		382	PBP1_iGluR_AMPA N-terminal leucine/isoleucine/vali	99.79
PRK09959		1197	hybrid sensory histidine kinase in two-component r	99.77
PF00060		148	Lig_chan: Ligand-gated ion channel; InterPro: IPR0	99.75
TIGR03870		246	ABC_MoxJ methanol oxidation system protein MoxJ. T	99.72
COG0834		275	HisJ ABC-type amino acid transport/signal transduc	99.72
cd06379		377	PBP1_iGluR_NMDA_NR1 N-terminal leucine/isoleucine/	99.71
cd06378		362	PBP1_iGluR_NMDA_NR2 N-terminal leucine/isoleucine/	99.7
cd06367		362	PBP1_iGluR_NMDA N-terminal leucine/isoleucine/vali	99.69
PRK09959		1197	hybrid sensory histidine kinase in two-component r	99.69
TIGR02285		268	conserved hypothetical protein. Members of this fa	99.69
smart00062		219	PBPb Bacterial periplasmic substrate-binding prote	99.68
cd00134		218	PBPb Bacterial periplasmic transport systems use m	99.67
cd06381		363	PBP1_iGluR_delta_like N-terminal leucine/isoleucin	99.66
TIGR03871		232	ABC_peri_MoxJ_2 quinoprotein dehydrogenase-associa	99.66
cd06374		472	PBP1_mGluR_groupI Ligand binding domain of the gro	99.51
cd06377		382	PBP1_iGluR_NMDA_NR3 N-terminal leucine/isoleucine/	99.51
cd06376		463	PBP1_mGluR_groupIII Ligand-binding domain of the g	99.47
PF01094		348	ANF_receptor: Receptor family ligand binding regio	99.46
smart00079		134	PBPe Eukaryotic homologues of bacterial periplasmi	99.45
cd06386		387	PBP1_NPR_C_like Ligand-binding domain of type C na	99.45
cd06365		469	PBP1_Pheromone_receptor Ligand-binding domain of t	99.45
cd06385		405	PBP1_NPR_A Ligand-binding domain of type A natriur	99.44
cd06372		391	PBP1_GC_G_like Ligand-binding domain of membrane g	99.43
cd06394		333	PBP1_iGluR_Kainate_KA1_2 N-terminal leucine/isoleu	99.42
cd06383		368	PBP1_iGluR_AMPA_Like N-terminal leucine/isoleucine	99.42
cd06362		452	PBP1_mGluR Ligand binding domain of the metabotrop	99.42
cd06384		399	PBP1_NPR_B Ligand-binding domain of type B natriur	99.37
COG4623		473	Predicted soluble lytic transglycosylase fused to	99.36
cd06382		327	PBP1_iGluR_Kainate N-terminal leucine/isoleucine/v	99.34
KOG1055		865	consensus GABA-B ion channel receptor subunit GABA	99.33
cd06361		403	PBP1_GPC6A_like Ligand-binding domain of the promi	99.26
cd06373		396	PBP1_NPR_like Ligand binding domain of natriuretic	99.22
cd06364		510	PBP1_CaSR Ligand-binding domain of the CaSR calciu	99.21
cd06371		382	PBP1_sensory_GC_DEF_like Ligand-binding domain of	99.2
cd06375		458	PBP1_mGluR_groupII Ligand binding domain of the gr	99.19
cd06368		324	PBP1_iGluR_non_NMDA_like N-terminal leucine/isoleu	99.13
cd06363		410	PBP1_Taste_receptor Ligand-binding domain of the T	99.13
cd06352		389	PBP1_NPR_GC_like Ligand-binding domain of membrane	99.12
cd06370		404	PBP1_Speract_GC_like Ligand-binding domain of memb	99.1
cd06366		350	PBP1_GABAb_receptor Ligand-binding domain of GABAb	99.08
cd06351		328	PBP1_iGluR_N_LIVBP_like N-terminal leucine/isoleuc	99.02
TIGR01098		254	3A0109s03R phosphate/phosphite/phosphonate ABC tra	98.97
PF10613		65	Lig_chan-Glu_bd: Ligated ion channel L-glutamate-	98.91
PRK00489		287	hisG ATP phosphoribosyltransferase; Reviewed	98.87
KOG1056		878	consensus Glutamate-gated metabotropic ion channel	98.83
cd06342		334	PBP1_ABC_LIVBP_like Type I periplasmic ligand-bind	98.46
cd06369		380	PBP1_GC_C_enterotoxin_receptor Ligand-binding doma	98.31
TIGR03431		288	PhnD phosphonate ABC transporter, periplasmic phos	98.28
PRK15404		369	leucine ABC transporter subunit substrate-binding	98.18
cd06345		344	PBP1_ABC_ligand_binding_like_10 Type I periplasmic	97.79
cd06338		345	PBP1_ABC_ligand_binding_like_5 Type I periplasmic	97.79
cd06348		344	PBP1_ABC_ligand_binding_like_13 Type I periplasmic	97.78
cd06332		333	PBP1_aromatic_compounds_like Type I periplasmic bi	97.71
cd06360		336	PBP1_alkylbenzenes_like Type I periplasmic binding	97.71
cd06357		360	PBP1_AmiC Periplasmic binding domain of amidase (A	97.58
cd06359		333	PBP1_Nba_like Type I periplasmic binding component	97.52
PF13458		343	Peripla_BP_6: Periplasmic binding protein; PDB: 4E	97.5
TIGR03669		374	urea_ABC_arch urea ABC transporter, substrate-bind	97.44
cd06344		332	PBP1_ABC_ligand_binding_like_9 Type I periplasmic	97.4
PF12974		243	Phosphonate-bd: ABC transporter, phosphonate, peri	97.35
cd06355		348	PBP1_FmdD_like Periplasmic component (FmdD) of an	97.31
cd06347		334	PBP1_ABC_ligand_binding_like_12 Type I periplasmic	97.3
cd06331		333	PBP1_AmiC_like Type I periplasmic components of am	97.22
PRK11553		314	alkanesulfonate transporter substrate-binding subu	97.22
cd06350		348	PBP1_GPCR_family_C_like Ligand-binding domain of m	97.13
TIGR03407		359	urea_ABC_UrtA urea ABC transporter, urea binding p	97.1
cd06329		342	PBP1_SBP_like_3 Periplasmic solute-binding domain	97.04
cd06358		333	PBP1_NHase Type I periplasmic-binding protein of t	96.92
cd06340		347	PBP1_ABC_ligand_binding_like_6 Type I periplasmic	96.86
TIGR01729		300	taurine_ABC_bnd taurine ABC transporter, periplasm	96.81
cd06327		334	PBP1_SBP_like_1 Periplasmic solute-binding domain	96.8
cd06328		333	PBP1_SBP_like_2 Periplasmic solute-binding domain	96.79
COG3221		299	PhnD ABC-type phosphate/phosphonate transport syst	96.68
cd06336		347	PBP1_ABC_ligand_binding_like_3 Type I periplasmic	96.56
cd06349		340	PBP1_ABC_ligand_binding_like_14 Type I periplasmic	96.49
cd06330		346	PBP1_Arsenic_SBP_like Periplasmic solute-binding d	96.46
cd06337		357	PBP1_ABC_ligand_binding_like_4 Type I periplasmic	96.38
cd06346		312	PBP1_ABC_ligand_binding_like_11 Type I periplasmic	96.37
cd06356		334	PBP1_Amide_Urea_BP_like Periplasmic component (Fmd	96.32
COG0683		366	LivK ABC-type branched-chain amino acid transport	96.25
TIGR03427		328	ABC_peri_uca ABC transporter periplasmic binding p	96.16
TIGR03863		347	PQQ_ABC_bind ABC transporter, substrate binding pr	95.78
cd06343		362	PBP1_ABC_ligand_binding_like_8 Type I periplasmic	95.75
PF13379		252	NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_	95.63
PF09084		216	NMT1: NMT1/THI5 like; InterPro: IPR015168 This ent	95.59
PF07885		79	Ion_trans_2: Ion channel; InterPro: IPR013099 This	95.47
TIGR02122		320	TRAP_TAXI TRAP transporter solute receptor, TAXI f	95.41
TIGR01728		288	SsuA_fam ABC transporter, substrate-binding protei	95.3
cd08468		202	PBP2_Pa0477 The C-terminal substrate biniding doma	95.25
TIGR00363		258	lipoprotein, YaeC family. This family of putative	94.82
cd05466		197	PBP2_LTTR_substrate The substrate binding domain o	94.78
PF03466		209	LysR_substrate: LysR substrate binding domain; Int	94.54
cd06339		336	PBP1_YraM_LppC_lipoprotein_like Periplasmic bindin	94.37
TIGR00787		257	dctP tripartite ATP-independent periplasmic transp	94.05
cd08459		201	PBP2_DntR_NahR_LinR_like The C-terminal substrate	93.94
cd08463		203	PBP2_DntR_like_4 The C-terminal substrate binding	93.77
cd06335		347	PBP1_ABC_ligand_binding_like_2 Type I periplasmic	93.63
cd08418		201	PBP2_TdcA The C-terminal substrate binding domain	93.6
PF13433		363	Peripla_BP_5: Periplasmic binding protein domain;	93.51
cd08417		200	PBP2_Nitroaromatics_like The C-terminal substrate	93.36
cd08462		200	PBP2_NodD The C-terminal substsrate binding domain	93.09
PRK11480		320	tauA taurine transporter substrate binding subunit	92.97
PRK11151		305	DNA-binding transcriptional regulator OxyR; Provis	92.62
cd08421		198	PBP2_LTTR_like_1 The C-terminal substrate binding	92.31
cd06341		341	PBP1_ABC_ligand_binding_like_7 Type I periplasmic	92.06
PRK11063		271	metQ DL-methionine transporter substrate-binding s	91.9
cd06334		351	PBP1_ABC_ligand_binding_like_1 Type I periplasmic	91.72
cd08461		198	PBP2_DntR_like_3 The C-terminal substrate binding	91.61
cd08460		200	PBP2_DntR_like_1 The C-terminal substrate binding	91.55
cd06326		336	PBP1_STKc_like Type I periplasmic binding domain o	91.51
PF03480		286	SBP_bac_7: Bacterial extracellular solute-binding	91.37
cd08433		198	PBP2_Nac The C-teminal substrate binding domain of	91.11
PF13531		230	SBP_bac_11: Bacterial extracellular solute-binding	91.06
cd08426		199	PBP2_LTTR_like_5 The C-terminal substrate binding	90.94
PRK12679		316	cbl transcriptional regulator Cbl; Reviewed	90.85
cd08440		197	PBP2_LTTR_like_4 TThe C-terminal substrate binding	90.72
cd08466		200	PBP2_LeuO The C-terminal substrate binding domain	90.69
cd08442		193	PBP2_YofA_SoxR_like The C-terminal substrate bindi	90.67
cd08465		200	PBP2_ToxR The C-terminal substrate binding domain	90.6
cd08419		197	PBP2_CbbR_RubisCO_like The C-terminal substrate bi	90.6
CHL00180		305	rbcR LysR transcriptional regulator; Provisional	90.5
cd08464		200	PBP2_DntR_like_2 The C-terminal substrate binding	90.2
PRK12684		313	transcriptional regulator CysB-like protein; Revie	90.13
PF12727		193	PBP_like: PBP superfamily domain; InterPro: IPR024	90.12
cd08438		197	PBP2_CidR The C-terminal substrate binding domain	90.06
cd08412		198	PBP2_PAO1_like The C-terminal substrate-binding do	90.01
PRK11242		296	DNA-binding transcriptional regulator CynR; Provis	90.0
PRK10341		312	DNA-binding transcriptional activator TdcA; Provis	90.0
TIGR01256		216	modA molybdenum ABC transporter, periplasmic molyb	89.57
PRK11233		305	nitrogen assimilation transcriptional regulator; P	89.53
cd08434		195	PBP2_GltC_like The substrate binding domain of Lys	89.42
PRK09791		302	putative DNA-binding transcriptional regulator; Pr	89.16
cd08413		198	PBP2_CysB_like The C-terminal substrate domain of	89.11
cd08441		198	PBP2_MetR The C-terminal substrate binding domain	88.73
cd08414		197	PBP2_LTTR_aromatics_like The C-terminal substrate	88.57
cd08469		221	PBP2_PnbR The C-terminal substrate binding domain	88.37
cd08467		200	PBP2_SyrM The C-terminal substrate binding of LysR	88.28
cd08411		200	PBP2_OxyR The C-terminal substrate-binding domain	88.24
cd06269		298	PBP1_glutamate_receptors_like Family C G-protein c	88.11
PRK12682		309	transcriptional regulator CysB-like protein; Revie	87.86
cd08435		201	PBP2_GbpR The C-terminal substrate binding domain	87.38
cd08444		198	PBP2_Cbl The C-terminal substrate binding domain o	87.14
cd08420		201	PBP2_CysL_like C-terminal substrate binding domain	86.93
TIGR02424		300	TF_pcaQ pca operon transcription factor PcaQ. Memb	86.89
cd08423		200	PBP2_LTTR_like_6 The C-terminal substrate binding	86.88
cd08425		197	PBP2_CynR The C-terminal substrate-binding domain	86.64
cd08415		196	PBP2_LysR_opines_like The C-terminal substrate-dom	86.6
PRK10837		290	putative DNA-binding transcriptional regulator; Pr	85.93
cd08429		204	PBP2_NhaR The C-terminal substrate binding domain	85.75
COG1910		223	Periplasmic molybdate-binding protein/domain [Inor	85.59
COG1638		332	DctP TRAP-type C4-dicarboxylate transport system,	85.24
cd08443		198	PBP2_CysB The C-terminal substrate domain of LysR-	84.37
cd08437		198	PBP2_MleR The substrate binding domain of LysR-typ	83.99
cd08458		196	PBP2_NocR The C-terminal substrate-domain of LysR-	83.88
PRK12683		309	transcriptional regulator CysB-like protein; Revie	83.61
cd08427		195	PBP2_LTTR_like_2 The C-terminal substrate binding	83.19
PRK11482		317	putative DNA-binding transcriptional regulator; Pr	82.6
cd08416		199	PBP2_MdcR The C-terminal substrate-binding domian	82.44
PRK15421		317	DNA-binding transcriptional regulator MetR; Provis	82.43
cd08448		197	PBP2_LTTR_aromatics_like_2 The C-terminal substrat	82.42
cd08436		194	PBP2_LTTR_like_3 The C-terminal substrate binding	82.26
COG0715		335	TauA ABC-type nitrate/sulfonate/bicarbonate transp	82.06
PRK09861		272	cytoplasmic membrane lipoprotein-28; Provisional	81.93
PRK09508		314	leuO leucine transcriptional activator; Reviewed	81.72
cd08453		200	PBP2_IlvR The C-terminal substrate binding domain	81.55
TIGR03339		279	phn_lysR aminoethylphosphonate catabolism associat	80.69
PRK10537		393	voltage-gated potassium channel; Provisional	80.69
PLN03192		823	Voltage-dependent potassium channel; Provisional	80.33
cd08449		197	PBP2_XapR The C-terminal substrate binding domain	80.32

>KOG1054 consensus Glutamate-gated AMPA-type ion channel receptor subunit GluR2 and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]	Back alignment and domain information

Probab=100.00  E-value=1.6e-86  Score=681.12  Aligned_cols=565  Identities=19%  Similarity=0.330  Sum_probs=480.5

Q ss_pred             CCCeEEEecCCccccCCccccccCccceEEEEEecCCChhHHHHHHHHHhh--cCCCCCCCCCCchhHHHHHHHHHHHHH
Q 005717            3 SEGYAWIATQGLSTLLDPVKDMESMQGVLGLRPYIPSSKKLEHFKLRWIKS--ADKPDGSTGGSNLFGLWAYDTVWAIAM   80 (681)
Q Consensus         3 ~~~y~WI~t~~~~~~~~~~~~~~~~~Gvlg~~~~~~~~~~~~~f~~~~~~~--~~~~~~~~~~~~~~~~~aYDav~~lA~   80 (681)
                      .+|||+|+.+..-...|...+.....++.||+...-+++-+++|.++|++.  .++|+.....+..-++++|||+.++|+
T Consensus       233 ~~~YHYvlaNl~f~d~dl~~f~~g~aNitgFqivn~~~~~~~k~~~~~~~l~~~~~~g~~~~~~k~tsAlthDailV~~e  312 (897)
T KOG1054|consen  233 VKGYHYVLANLGFTDIDLERFQHGGANITGFQIVNKNNPMVKKFIQRWKELDEREYPGASNDPIKYTSALTHDAILVMAE  312 (897)
T ss_pred             ccceEEEEeeCCCchhhHHHHhcCCcceeEEEEecCCChHHHHHHHHHhhhcccccCCCCCCCcchhhhhhhhHHHHHHH
Confidence            589999999965445555577888999999999999999999999999986  777877766788889999999999999


Q ss_pred             HHHHHcccCCcccccCCCCCCCccc--ccCCCcchHHHHHHHhccceecceeeEEE-eCCcccCccEEEEEeeeCCeeEe
Q 005717           81 AVERAGIENSSFLKSNTSKSRVDIA--ALGTFEMGAKLLDTLINTTFEGLSGNFHL-VNGQLEPSAFEIFNVIGTSERVI  157 (681)
Q Consensus        81 Al~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~G~~l~~~l~~~~f~GltG~i~F-~~G~~~~~~~~I~n~~~~~~~~v  157 (681)
                      |+..+.+.+....+   ..+..||-  ...+|..|..+-++++++.++|+||+|+| ..|.|.+.+.+|++++.++.++|
T Consensus       313 af~~~~~q~~~~~r---RG~~GD~~an~~~p~~qG~~I~ralk~v~~eGLTGniqFd~~G~R~Nyt~~i~elk~~~~rk~  389 (897)
T KOG1054|consen  313 AFRSLRRQRIDISR---RGNAGDCLANPAVPWEQGIDIERALKQVQVEGLTGNIQFDKYGRRTNYTIDIVELKSNGSRKV  389 (897)
T ss_pred             HHHHHHHhhhchhc---cCCCccccCCCCCchhcchhHHHHHHheeecccccceeecccCccccceEEEEEeccCCccee
Confidence            99999877654433   33456774  46789999999999999999999999999 88999999999999999999999


Q ss_pred             eeeeCCCCccccccCCCCccCCCCCCccCCCCCcCCCceEEEEeeccCCccceEEEeecCCCCeeEEeehHHHHHHHHHH
Q 005717          158 GYWTKEKELLSELNDNNGRATNNLKNPIWPGNTIDQPRKLKIGVPVREGFTEFIKVVENKNKTTQVSGFCYDMFHAVLQV  237 (681)
Q Consensus       158 G~W~~~~gl~~~~~~~~~~~~~~l~~i~Wpg~~~~~p~~lrV~v~~~~p~~~~~~~~~~~~~~~~~~G~~idll~~l~~~  237 (681)
                      |+|....|+........+      +..    ......++..|.+....||.++......-.++.+++|||+||+.+|+++
T Consensus       390 ~~W~e~~~fv~~~t~a~~------~~d----~~~~~n~tvvvttiL~spyvm~kkn~~~~egn~ryEGyCvdLa~~iAkh  459 (897)
T KOG1054|consen  390 GYWNEGEGFVPGSTVAQS------RND----QASKENRTVVVTTILESPYVMLKKNHEQLEGNERYEGYCVDLAAEIAKH  459 (897)
T ss_pred             eeecccCceeeccccccc------ccc----ccccccceEEEEEecCCchhHHHhhHHHhcCCcccceeHHHHHHHHHHh
Confidence            999998888754321000      000    0112236777888887787665432111178899999999999999999


Q ss_pred             cCCCcCeEEEeCCC-------CC-HHHHHHHHHhCccceEEEeEEEeeccccccccccceeecceEEEEEeccCCCcCce
Q 005717          238 LEFPLPYEFVPFHD-------GS-FDELLHKIEKQEFDTAVGDTTIVANRSTFVDFTLPYSESGVSMLVLVKDDERKNFW  309 (681)
Q Consensus       238 l~f~~~~~~v~~~~-------g~-~~gli~~l~~g~~Dia~~~~~it~~R~~~vdFT~P~~~~~~~~vv~~~~~~~~~~~  309 (681)
                      .+++|.+.++.++.       ++ |+||+++|..|++|++++++|||.+|++++|||.|||..|+++|++||+...+..|
T Consensus       460 i~~~Y~l~iv~dgkyGardaD~k~WnGMvGeLv~grAdiavApLTIt~~REeviDFSKPfMslGISIMIKKPqKsk~gVF  539 (897)
T KOG1054|consen  460 IGIKYKLFIVGDGKYGARDADTKIWNGMVGELVYGRADIAVAPLTITLVREEVIDFSKPFMSLGISIMIKKPQKSKPGVF  539 (897)
T ss_pred             cCceEEEEEecCCcccccCCCcccccchhHHHhcCccceEEeeeeeehhhhhhhccccchhhcCeEEEEeCcccCCCCee
Confidence            99887777786654       55 99999999999999999999999999999999999999999999999999888999


Q ss_pred             eeeccCcHhHHHHHHHHHHHHHHHhhhhhcccCCCCC------CC-------CCCchhhHHHHHHHHHhccCcc-ccccc
Q 005717          310 IFLKPLSWDLWLTTGAAFIFTGLVVWVLEHRINTEFR------GP-------PQHQIGTIFWFSFSTLVFAHRE-RVVNN  375 (681)
Q Consensus       310 ~fl~PF~~~vW~~i~~~~~~v~~v~~~~~~~~~~~~~------~~-------~~~~~~~~~~~~~~~l~~~~~~-~~~s~  375 (681)
                      .||.|+..++|+||+.+++-|++++++..|++|+||+      |+       ..+++.|++||+++++|||+.. .|||.
T Consensus       540 SFldPLa~eIWm~ivfaYiGVSvvlFLVSrFSPYEwh~Ee~~rg~~t~~~~~NeFgifNsLWFsLgAFMQQG~DI~PRsl  619 (897)
T KOG1054|consen  540 SFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFERGRFTPSDPPNEFGIFNSLWFSLGAFMQQGCDISPRSL  619 (897)
T ss_pred             eecchhHHHHHHHHHHHHhcceEEEEEEeccCchheeccccccCCCCCCCCCccchhhHHHHHHHHHHHhcCCCCCcccc
Confidence            9999999999999999999999999999999998764      22       1247899999999999988865 49999


Q ss_pred             chhHHHHHHHHHHHHHHhHhhhhhhheeeecccCCCCCCHHHHHhCCC-eEEEecChhHHHHHhhhcCCccccccccC--
Q 005717          376 LSRFVLIIWVFVVLILTQSYTASLTSMLTVQRLQPSFTDVKDIQKNGY-FVGYQTNSFVKDLLTKKLNFNETRLKNYT--  452 (681)
Q Consensus       376 ~~R~l~~~w~~~~lil~s~YtA~L~s~LT~~~~~~~i~s~~dL~~~~~-~vg~~~~s~~~~~l~~~~~~~~~~~~~~~--  452 (681)
                      ++||+..+||||+|||+++|||||+||||++++.+||+++|||++|.+ .+|+..+....+++ +     .+++..|+  
T Consensus       620 SGRIvggvWWFFTlIIiSSYTANLAAFLTvErMvsPIESaEDLAkQteIaYGt~~~GSTkeFF-r-----~Skiavy~kM  693 (897)
T KOG1054|consen  620 SGRIVGGVWWFFTLIIISSYTANLAAFLTVERMVSPIESAEDLAKQTEIAYGTLDSGSTKEFF-R-----RSKIAVYEKM  693 (897)
T ss_pred             ccceeccchhhhhhhhhhhhhhHHHHHHhHHhhcCcchhHHHHhhcceeeeeecCCCchHHHH-h-----hhhHHHHHHH
Confidence            999999999999999999999999999999999999999999999987 67888777777777 2     22333333  


Q ss_pred             --------------ChhHHHHHH-ccCcceEEecchhhHHHHHhhc-CCceEEECcccccCCcEEEecCCCCChHHHHHH
Q 005717          453 --------------TSEDYHDAL-SNGEVAAIFDEIPYIKIFLASY-CSRYMMVGPTYRTDGFGFAFPLGSPLVPYISRA  516 (681)
Q Consensus       453 --------------~~~~~~~~l-~~g~~~a~i~e~~~~~~~~~~~-c~~l~~v~~~~~~~~~~~~~~k~spl~~~in~~  516 (681)
                                    +..|..+.+ +..+.+|++.|...-+|..++. | +-+.||..+.+.+||+|.||||.|+..+|.|
T Consensus       694 W~yM~SaepsVFv~t~aeGv~rVRksKGkyAfLLEsTmNey~eqRkPC-DTMKVGgNLds~GYGiATp~Gsslr~~vNLA  772 (897)
T KOG1054|consen  694 WTYMKSAEPSVFVRTTAEGVARVRKSKGKYAFLLESTMNEYIEQRKPC-DTMKVGGNLDSKGYGIATPKGSSLRNAVNLA  772 (897)
T ss_pred             HHHHhcCCcceeeehhhhHHHHHHhcCCceEeehHhhhhhhhhccCCc-cceecccccCCcceeecCCCCcccccchhhh
Confidence                          445555566 4445689999999889988776 9 7788999999999999999999999999999


Q ss_pred             HHhhccCccHHHHHHHHHcCC-CCCCCCCCC-cccccccccccchhHHHHHHHHHHHHHHHHHHHHHHhhcCCC
Q 005717          517 ILKVTEDKEKMENIEKALGNQ-ATCEGQGPT-TLSSDSLSVYSFGGLFIIAGIASMSSLLIYVFNFVCFHRPEL  588 (681)
Q Consensus       517 Il~l~e~~G~l~~i~~kw~~~-~~c~~~~~~-~~~~~~L~l~~~~g~F~il~~g~~lallvfi~E~l~~~~~~~  588 (681)
                      +++|.|. |+++++++|||.+ ++|...... .++...|+|.+++|+||||..|+++|.++.++||+|+.|...
T Consensus       773 vLkL~E~-G~LdKLkNKWWYDkGeC~sg~~ds~~ktsaLsLSnVAGvFYIL~gGl~laMlvALiEF~yksr~Ea  845 (897)
T KOG1054|consen  773 VLKLNEQ-GLLDKLKNKWWYDKGECGSGGGDSKDKTSALSLSNVAGVFYILVGGLGLAMLVALIEFCYKSRAEA  845 (897)
T ss_pred             hhhhccc-chHHHhhhhhcccccccCCCCCCCCcchhhcchhhccceeeeehhhHHHHHHHHHHHHHHHhhHHH
Confidence            9999999 9999999999988 999886644 245689999999999999999999999999999999987763

>KOG4440 consensus NMDA selective glutamate-gated ion channel receptor subunit GRIN1 [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]	Back alignment and domain information

>KOG1052 consensus Glutamate-gated kainate-type ion channel receptor subunit GluR5 and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]	Back alignment and domain information

>KOG1053 consensus Glutamate-gated NMDA-type ion channel receptor subunit GRIN2A and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]	Back alignment and domain information

>cd06390 PBP1_iGluR_AMPA_GluR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA receptor	Back alignment and domain information

>cd06387 PBP1_iGluR_AMPA_GluR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA receptor	Back alignment and domain information

>cd06391 PBP1_iGluR_delta_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family	Back alignment and domain information

>cd06392 PBP1_iGluR_delta_1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family	Back alignment and domain information

>PRK10797 glutamate and aspartate transporter subunit; Provisional	Back alignment and domain information

>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed	Back alignment and domain information

>cd06388 PBP1_iGluR_AMPA_GluR4 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA receptor	Back alignment and domain information

>PF00497 SBP_bac_3: Bacterial extracellular solute-binding proteins, family 3; InterPro: IPR001638 Bacterial high affinity transport systems are involved in active transport of solutes across the cytoplasmic membrane	Back alignment and domain information

>PRK11260 cystine transporter subunit; Provisional	Back alignment and domain information

>cd06389 PBP1_iGluR_AMPA_GluR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA receptor	Back alignment and domain information

>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional	Back alignment and domain information

>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed	Back alignment and domain information

>PRK15007 putative ABC transporter arginine-biding protein; Provisional	Back alignment and domain information

>TIGR02995 ectoine_ehuB ectoine/hydroxyectoine ABC transporter solute-binding protein	Back alignment and domain information

>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein	Back alignment and domain information

>cd06393 PBP1_iGluR_Kainate_GluR5_7 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR5-7 subunits of Kainate receptor	Back alignment and domain information

>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional	Back alignment and domain information

>PRK10859 membrane-bound lytic transglycosylase F; Provisional	Back alignment and domain information

>cd06380 PBP1_iGluR_AMPA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA receptor	Back alignment and domain information

>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional	Back alignment and domain information

>PF00060 Lig_chan: Ligand-gated ion channel; InterPro: IPR001320 The ability of synapses to modify their synaptic strength in response to activity is a fundamental property of the nervous system and may be an essential component of learning and memory	Back alignment and domain information

>TIGR03870 ABC_MoxJ methanol oxidation system protein MoxJ	Back alignment and domain information

>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]	Back alignment and domain information

>cd06379 PBP1_iGluR_NMDA_NR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor	Back alignment and domain information

>cd06378 PBP1_iGluR_NMDA_NR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family	Back alignment and domain information

>cd06367 PBP1_iGluR_NMDA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors	Back alignment and domain information

>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional	Back alignment and domain information

>TIGR02285 conserved hypothetical protein	Back alignment and domain information

>smart00062 PBPb Bacterial periplasmic substrate-binding proteins	Back alignment and domain information

>cd00134 PBPb Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic ions	Back alignment and domain information

>cd06381 PBP1_iGluR_delta_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2	Back alignment and domain information

>TIGR03871 ABC_peri_MoxJ_2 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein	Back alignment and domain information

>cd06374 PBP1_mGluR_groupI Ligand binding domain of the group I metabotropic glutamate receptor	Back alignment and domain information

>cd06377 PBP1_iGluR_NMDA_NR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family	Back alignment and domain information

>cd06376 PBP1_mGluR_groupIII Ligand-binding domain of the group III metabotropic glutamate receptor	Back alignment and domain information

>PF01094 ANF_receptor: Receptor family ligand binding region The Prosite family is a sub-family of the Pfam family; InterPro: IPR001828 This describes a ligand binding domain and includes extracellular ligand binding domains of a wide range of receptors, as well as the bacterial amino acid binding proteins of known structure []	Back alignment and domain information

>smart00079 PBPe Eukaryotic homologues of bacterial periplasmic substrate binding proteins	Back alignment and domain information

>cd06386 PBP1_NPR_C_like Ligand-binding domain of type C natriuretic peptide receptor	Back alignment and domain information

>cd06365 PBP1_Pheromone_receptor Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily	Back alignment and domain information

>cd06385 PBP1_NPR_A Ligand-binding domain of type A natriuretic peptide receptor	Back alignment and domain information

>cd06372 PBP1_GC_G_like Ligand-binding domain of membrane guanylyl cyclase G	Back alignment and domain information

>cd06394 PBP1_iGluR_Kainate_KA1_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor	Back alignment and domain information

>cd06383 PBP1_iGluR_AMPA_Like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of uncharacterized AMPA-like receptors	Back alignment and domain information

>cd06362 PBP1_mGluR Ligand binding domain of the metabotropic glutamate receptors (mGluR)	Back alignment and domain information

>cd06384 PBP1_NPR_B Ligand-binding domain of type B natriuretic peptide receptor	Back alignment and domain information

>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]	Back alignment and domain information

>cd06382 PBP1_iGluR_Kainate N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors	Back alignment and domain information

>KOG1055 consensus GABA-B ion channel receptor subunit GABABR1 and related subunits, G-protein coupled receptor superfamily [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]	Back alignment and domain information

>cd06361 PBP1_GPC6A_like Ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor	Back alignment and domain information

>cd06373 PBP1_NPR_like Ligand binding domain of natriuretic peptide receptor (NPR) family	Back alignment and domain information

>cd06364 PBP1_CaSR Ligand-binding domain of the CaSR calcium-sensing receptor, which is a member of the family C receptors within the G-protein coupled receptor superfamily	Back alignment and domain information

>cd06371 PBP1_sensory_GC_DEF_like Ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues	Back alignment and domain information

>cd06375 PBP1_mGluR_groupII Ligand binding domain of the group II metabotropic glutamate receptor	Back alignment and domain information

>cd06368 PBP1_iGluR_non_NMDA_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors	Back alignment and domain information

>cd06363 PBP1_Taste_receptor Ligand-binding domain of the T1R taste receptor	Back alignment and domain information

>cd06352 PBP1_NPR_GC_like Ligand-binding domain of membrane guanylyl-cyclase receptors	Back alignment and domain information

>cd06370 PBP1_Speract_GC_like Ligand-binding domain of membrane bound guanylyl cyclases	Back alignment and domain information

>cd06366 PBP1_GABAb_receptor Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA)	Back alignment and domain information

>cd06351 PBP1_iGluR_N_LIVBP_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs)	Back alignment and domain information

>TIGR01098 3A0109s03R phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein	Back alignment and domain information

>PF10613 Lig_chan-Glu_bd: Ligated ion channel L-glutamate- and glycine-binding site; InterPro: IPR019594 This entry, sometimes called the S1 domain, is the luminal domain just upstream of the first, M1, transmembrane region of transmembrane ion-channel proteins, and binds L-glutamate and glycine [, ]	Back alignment and domain information

>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed	Back alignment and domain information

>KOG1056 consensus Glutamate-gated metabotropic ion channel receptor subunit GRM2 and related subunits, G-protein coupled receptor superfamily [Inorganic ion transport and metabolism; Signal transduction mechanisms]	Back alignment and domain information

>cd06342 PBP1_ABC_LIVBP_like Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine)	Back alignment and domain information

>cd06369 PBP1_GC_C_enterotoxin_receptor Ligand-binding domain of the membrane guanylyl cyclase C	Back alignment and domain information

>TIGR03431 PhnD phosphonate ABC transporter, periplasmic phosphonate binding protein	Back alignment and domain information

>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional	Back alignment and domain information

>cd06345 PBP1_ABC_ligand_binding_like_10 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions	Back alignment and domain information

>cd06338 PBP1_ABC_ligand_binding_like_5 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions	Back alignment and domain information

>cd06348 PBP1_ABC_ligand_binding_like_13 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions	Back alignment and domain information

>cd06332 PBP1_aromatic_compounds_like Type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes	Back alignment and domain information

>cd06360 PBP1_alkylbenzenes_like Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene	Back alignment and domain information

>cd06357 PBP1_AmiC Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family	Back alignment and domain information

>cd06359 PBP1_Nba_like Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway	Back alignment and domain information

>PF13458 Peripla_BP_6: Periplasmic binding protein; PDB: 4EVS_A 4EY3_A 4EYG_B 4EYK_A 3H5L_B 3TD9_A 3EAF_A 1Z18_A 1Z17_A 2LIV_A	Back alignment and domain information

>TIGR03669 urea_ABC_arch urea ABC transporter, substrate-binding protein, archaeal type	Back alignment and domain information

>cd06344 PBP1_ABC_ligand_binding_like_9 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions	Back alignment and domain information

>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A	Back alignment and domain information

>cd06355 PBP1_FmdD_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF)	Back alignment and domain information

>cd06347 PBP1_ABC_ligand_binding_like_12 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions	Back alignment and domain information

>cd06331 PBP1_AmiC_like Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF)	Back alignment and domain information

>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional	Back alignment and domain information

>cd06350 PBP1_GPCR_family_C_like Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs)	Back alignment and domain information

>TIGR03407 urea_ABC_UrtA urea ABC transporter, urea binding protein	Back alignment and domain information

>cd06329 PBP1_SBP_like_3 Periplasmic solute-binding domain of active transport proteins	Back alignment and domain information

>cd06358 PBP1_NHase Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides	Back alignment and domain information

>cd06340 PBP1_ABC_ligand_binding_like_6 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions	Back alignment and domain information

>TIGR01729 taurine_ABC_bnd taurine ABC transporter, periplasmic binding protein	Back alignment and domain information

>cd06327 PBP1_SBP_like_1 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family	Back alignment and domain information

>cd06328 PBP1_SBP_like_2 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria	Back alignment and domain information

>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]	Back alignment and domain information

>cd06336 PBP1_ABC_ligand_binding_like_3 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions	Back alignment and domain information

>cd06349 PBP1_ABC_ligand_binding_like_14 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems	Back alignment and domain information

>cd06330 PBP1_Arsenic_SBP_like Periplasmic solute-binding domain of active transport proteins	Back alignment and domain information

>cd06337 PBP1_ABC_ligand_binding_like_4 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions	Back alignment and domain information

>cd06346 PBP1_ABC_ligand_binding_like_11 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions	Back alignment and domain information

>cd06356 PBP1_Amide_Urea_BP_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF)	Back alignment and domain information

>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]	Back alignment and domain information

>TIGR03427 ABC_peri_uca ABC transporter periplasmic binding protein, urea carboxylase region	Back alignment and domain information

>TIGR03863 PQQ_ABC_bind ABC transporter, substrate binding protein, PQQ-dependent alcohol dehydrogenase system	Back alignment and domain information

>cd06343 PBP1_ABC_ligand_binding_like_8 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions	Back alignment and domain information

>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A	Back alignment and domain information

>PF09084 NMT1: NMT1/THI5 like; InterPro: IPR015168 This entry is found in the NMT1 and THI5 proteins	Back alignment and domain information

>PF07885 Ion_trans_2: Ion channel; InterPro: IPR013099 This entry includes the two membrane helix type ion channels found in bacteria []	Back alignment and domain information

>TIGR02122 TRAP_TAXI TRAP transporter solute receptor, TAXI family	Back alignment and domain information

>TIGR01728 SsuA_fam ABC transporter, substrate-binding protein, aliphatic sulfonates family	Back alignment and domain information

>cd08468 PBP2_Pa0477 The C-terminal substrate biniding domain of an uncharacterized LysR-like transcriptional regulator Pa0477 related to DntR, contains the type 2 periplasmic binding fold	Back alignment and domain information

>TIGR00363 lipoprotein, YaeC family	Back alignment and domain information

>cd05466 PBP2_LTTR_substrate The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily	Back alignment and domain information

>PF03466 LysR_substrate: LysR substrate binding domain; InterPro: IPR005119 The structure of this domain is known and is similar to the periplasmic binding proteins []	Back alignment and domain information

>cd06339 PBP1_YraM_LppC_lipoprotein_like Periplasmic binding component of lipoprotein LppC, an immunodominant antigen	Back alignment and domain information

>TIGR00787 dctP tripartite ATP-independent periplasmic transporter solute receptor, DctP family	Back alignment and domain information

>cd08459 PBP2_DntR_NahR_LinR_like The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold	Back alignment and domain information

>cd08463 PBP2_DntR_like_4 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold	Back alignment and domain information

>cd06335 PBP1_ABC_ligand_binding_like_2 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions	Back alignment and domain information

>cd08418 PBP2_TdcA The C-terminal substrate binding domain of LysR-type transcriptional regulator TdcA, which is involved in the degradation of L-serine and L-threonine, contains the type 2 periplasmic binding fold	Back alignment and domain information

>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A	Back alignment and domain information

>cd08417 PBP2_Nitroaromatics_like The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold	Back alignment and domain information

>cd08462 PBP2_NodD The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold	Back alignment and domain information

>PRK11480 tauA taurine transporter substrate binding subunit; Provisional	Back alignment and domain information

>PRK11151 DNA-binding transcriptional regulator OxyR; Provisional	Back alignment and domain information

>cd08421 PBP2_LTTR_like_1 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold	Back alignment and domain information

>cd06341 PBP1_ABC_ligand_binding_like_7 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions	Back alignment and domain information

>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional	Back alignment and domain information

>cd06334 PBP1_ABC_ligand_binding_like_1 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions	Back alignment and domain information

>cd08461 PBP2_DntR_like_3 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold	Back alignment and domain information

>cd08460 PBP2_DntR_like_1 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold	Back alignment and domain information

>cd06326 PBP1_STKc_like Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins	Back alignment and domain information

>PF03480 SBP_bac_7: Bacterial extracellular solute-binding protein, family 7; InterPro: IPR018389 This family of proteins are involved in binding extracellular solutes for transport across the bacterial cytoplasmic membrane	Back alignment and domain information

>cd08433 PBP2_Nac The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold	Back alignment and domain information

>PF13531 SBP_bac_11: Bacterial extracellular solute-binding protein; PDB: 2HXW_B 3FJG_C 3FJM_B 3FJ7_B 3FIR_B 3AXF_C 1WOD_A 1AMF_A 3R26_A 1SBP_A	Back alignment and domain information

>cd08426 PBP2_LTTR_like_5 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold	Back alignment and domain information

>PRK12679 cbl transcriptional regulator Cbl; Reviewed	Back alignment and domain information

>cd08440 PBP2_LTTR_like_4 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold	Back alignment and domain information

>cd08466 PBP2_LeuO The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold	Back alignment and domain information

>cd08442 PBP2_YofA_SoxR_like The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold	Back alignment and domain information

>cd08465 PBP2_ToxR The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold	Back alignment and domain information

>cd08419 PBP2_CbbR_RubisCO_like The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold	Back alignment and domain information

>CHL00180 rbcR LysR transcriptional regulator; Provisional	Back alignment and domain information

>cd08464 PBP2_DntR_like_2 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold	Back alignment and domain information

>PRK12684 transcriptional regulator CysB-like protein; Reviewed	Back alignment and domain information

>PF12727 PBP_like: PBP superfamily domain; InterPro: IPR024370 This entry represents members of the periplasmic binding domain superfamily []	Back alignment and domain information

>cd08438 PBP2_CidR The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold	Back alignment and domain information

>cd08412 PBP2_PAO1_like The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily	Back alignment and domain information

>PRK11242 DNA-binding transcriptional regulator CynR; Provisional	Back alignment and domain information

>PRK10341 DNA-binding transcriptional activator TdcA; Provisional	Back alignment and domain information

>TIGR01256 modA molybdenum ABC transporter, periplasmic molybdate-binding protein	Back alignment and domain information

>PRK11233 nitrogen assimilation transcriptional regulator; Provisional	Back alignment and domain information

>cd08434 PBP2_GltC_like The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold	Back alignment and domain information

>PRK09791 putative DNA-binding transcriptional regulator; Provisional	Back alignment and domain information

>cd08413 PBP2_CysB_like The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold	Back alignment and domain information

>cd08441 PBP2_MetR The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold	Back alignment and domain information

>cd08414 PBP2_LTTR_aromatics_like The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold	Back alignment and domain information

>cd08469 PBP2_PnbR The C-terminal substrate binding domain of LysR-type transcriptional regulator PnbR, which is involved in regulating the pnb genes encoding enzymes for 4-nitrobenzoate catabolism, contains the type 2 periplasmic binding fold	Back alignment and domain information

>cd08467 PBP2_SyrM The C-terminal substrate binding of LysR-type symbiotic regulator SyrM, which activates expression of nodulation gene NodD3, contains the type 2 periplasmic binding fold	Back alignment and domain information

>cd08411 PBP2_OxyR The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily	Back alignment and domain information

>cd06269 PBP1_glutamate_receptors_like Family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors	Back alignment and domain information

>PRK12682 transcriptional regulator CysB-like protein; Reviewed	Back alignment and domain information

>cd08435 PBP2_GbpR The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold	Back alignment and domain information

>cd08444 PBP2_Cbl The C-terminal substrate binding domain of LysR-type transcriptional regulator Cbl, which is required for expression of sulfate starvation-inducible (ssi) genes, contains the type 2 periplasmic binding fold	Back alignment and domain information

>cd08420 PBP2_CysL_like C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold	Back alignment and domain information

>TIGR02424 TF_pcaQ pca operon transcription factor PcaQ	Back alignment and domain information

>cd08423 PBP2_LTTR_like_6 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold	Back alignment and domain information

>cd08425 PBP2_CynR The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold	Back alignment and domain information

>cd08415 PBP2_LysR_opines_like The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold	Back alignment and domain information

>PRK10837 putative DNA-binding transcriptional regulator; Provisional	Back alignment and domain information

>cd08429 PBP2_NhaR The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold	Back alignment and domain information

>COG1910 Periplasmic molybdate-binding protein/domain [Inorganic ion transport and metabolism]	Back alignment and domain information

>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]	Back alignment and domain information

>cd08443 PBP2_CysB The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold	Back alignment and domain information

>cd08437 PBP2_MleR The substrate binding domain of LysR-type transcriptional regulator MleR which required for malolactic fermentation, contains type 2 periplasmic binidning fold	Back alignment and domain information

>cd08458 PBP2_NocR The C-terminal substrate-domain of LysR-type transcriptional regulator, NocR, involved in the catabolism of nopaline, contains the type 2 periplasmic binding fold	Back alignment and domain information

>PRK12683 transcriptional regulator CysB-like protein; Reviewed	Back alignment and domain information

>cd08427 PBP2_LTTR_like_2 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold	Back alignment and domain information

>PRK11482 putative DNA-binding transcriptional regulator; Provisional	Back alignment and domain information

>cd08416 PBP2_MdcR The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold	Back alignment and domain information

>PRK15421 DNA-binding transcriptional regulator MetR; Provisional	Back alignment and domain information

>cd08448 PBP2_LTTR_aromatics_like_2 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold	Back alignment and domain information

>cd08436 PBP2_LTTR_like_3 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold	Back alignment and domain information

>COG0715 TauA ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]	Back alignment and domain information

>PRK09861 cytoplasmic membrane lipoprotein-28; Provisional	Back alignment and domain information

>PRK09508 leuO leucine transcriptional activator; Reviewed	Back alignment and domain information

>cd08453 PBP2_IlvR The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold	Back alignment and domain information

>TIGR03339 phn_lysR aminoethylphosphonate catabolism associated LysR family transcriptional regulator	Back alignment and domain information

>PRK10537 voltage-gated potassium channel; Provisional	Back alignment and domain information

>PLN03192 Voltage-dependent potassium channel; Provisional	Back alignment and domain information

>cd08449 PBP2_XapR The C-terminal substrate binding domain of LysR-type transcriptional regulator XapR involved in xanthosine catabolism, contains the type 2 periplasmic binding fold	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
Query		681
3kg2_A		823	Ampa Subtype Ionotropic Glutamate Receptor In Compl		7e-12
3oek_A		286	Crystal Structure Of Glun2d Ligand-Binding Core In		1e-04
2a5s_A		284	Crystal Structure Of The Nr2a Ligand Binding Core I		4e-04

>pdb|3KG2|A Chain A, Ampa Subtype Ionotropic Glutamate Receptor In Complex With Competitive Antagonist Zk 200775 Length = 823

Back alignment and structure

Iteration: 1

Score = 69.3 bits (168), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 112/548 (20%), Positives = 211/548 (38%), Gaps = 80/548 (14%) Query: 96 NTSKSRVDIAALGT-----------FEMGAKLLDTLINTTFEGLSGNFHL-VNGQLEPSA 143 N K R++I+ G + G ++ L EGLSGN NG+ Sbjct: 289 NLRKQRIEISRRGNAGDCLANPAVPWGQGVEIERALKQVQVEGLSGNIKFDQNGKRINYT 348 Query: 144 FEIFNVIGTSERVIGYWTKEKELLSELNDNNGRATNNLKNPIWPGNTIDQPRKLKIGVPV 203 I + R IGYW++ +++ +D +G + + ++ P Sbjct: 349 INIMELKTNGPRKIGYWSEVDKMVLTEDDTSGLE----QKTVVVTTILESP--------- 395 Query: 204 REGFTEFIKVVENKNKTT---QVSGFCYDMFHAVLQVLEFPLPYEFVPFHDGSF------ 254 ++ + N + G+C D+ + + F Y+ DG + Sbjct: 396 ------YVMMKANHAALAGNERYEGYCVDLAAEIAKHCGFK--YKLTIVGDGKYGARDAD 447 Query: 255 ----DELLHKIEKQEFDTAVGDTTIVANRSTFVDFTLPYSESGVSMLVLVKDDERKNFWI 310 + ++ ++ + D A+ TI R +DF+ P+ G+S+++ + + Sbjct: 448 TKIWNGMVGELVYGKADIAIAPLTITLVREEVIDFSKPFMSLGISIMIKKPQKSKPGVFS 507 Query: 311 FLKPLSWDLWLTTGAAFIFTGLVVWVLE----HRINT-EFRGPPQHQ---------IGTI 356 FL PL++++W+ A+I +V++++ + +T EF + Q I Sbjct: 508 FLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFEDGRETQSSESTNEFGIFNS 567 Query: 357 FWFSFSTLVFAHRERVVNNLS-RXXXXXXXXXXXXXTQSYTASLTSMLTVQRLQPSFTDV 415 WFS + + +LS R SYTA+L + LTV+R+ Sbjct: 568 LWFSLGAFMQQGADISPRSLSGRIVGGVWWFFTLIIISSYTANLAAFLTVERMVSPIESA 627 Query: 416 KDIQKN-----GYFVGYQTNSFVK-------DLLTKKLNFNETRLKNYTTSEDYHDAL-S 462 +D+ K G T F + D + + E + TT+E S Sbjct: 628 EDLSKQTEIAYGTLDSGSTKEFFRRSKIAVFDKMWTYMRSAEPSVFVRTTAEGVARVRKS 687 Query: 463 NGEVAAIFDEIPYIKIFLASYCSRYMMVGPTYRTDGFGFAFPLGSPLVPYISRAILKVTE 522 G+ A + + I C M VG + G+G A P GS L ++ A+LK++E Sbjct: 688 KGKYAYLLESTMNEYIEQRKPCDT-MKVGGNLDSKGYGIATPKGSSLGTPVNLAVLKLSE 746 Query: 523 DK--EKMENIEKALGNQATCEGQ-GPTTLSSDSLSVYSFGGLFIIAGIASMSSLLIYVFN 579 +K++N K ++ C + + + +LS+ + G+F I ++L+ + Sbjct: 747 QGLLDKLKN--KWWYDKGECGAKDSGSKEKTSALSLSNVAGVFYILVGGLGLAMLVALIE 804 Query: 580 FVCFHRPE 587 F R E Sbjct: 805 FCYKSRAE 812

PyMOL of 3kg2

>pdb|3OEK|A Chain A, Crystal Structure Of Glun2d Ligand-Binding Core In Complex With L- Aspartate Length = 286

Back alignment and structure

>pdb|2A5S|A Chain A, Crystal Structure Of The Nr2a Ligand Binding Core In Complex With Glutamate Length = 284

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
Query		681
3kg2_A		823	Glutamate receptor 2; ION channel, membrane protei	1e-132
3o21_A		389	Glutamate receptor 3; periplasmatic binding protei	3e-29
3saj_A		384	Glutamate receptor 1; rossman fold, ION channel, m	1e-28
3hsy_A		376	Glutamate receptor 2; ligand-gated ION channel, sy	3e-28
4f11_A		433	Gamma-aminobutyric acid type B receptor subunit 2;	9e-28
3om0_A		393	Glutamate receptor, ionotropic kainate 5; membrane	7e-27
3h6g_A		395	Glutamate receptor, ionotropic kainate 2; membrane	1e-26
1yae_A		312	Glutamate receptor, ionotropic kainate 2; kainate	6e-16
1yae_A		312	Glutamate receptor, ionotropic kainate 2; kainate	4e-09
1jdp_A		441	NPR-C, atrial natriuretic peptide clearance recept	7e-16
3qek_A		384	NMDA glutamate receptor subunit; amino terminal do	1e-13
3g3k_A		259	Glutamate receptor, ionotropic kainate 2; membrane	1e-13
3g3k_A		259	Glutamate receptor, ionotropic kainate 2; membrane	5e-09
1mqi_A		263	Glutamate receptor 2; GLUR2, ligand binding core,	7e-12
1mqi_A		263	Glutamate receptor 2; GLUR2, ligand binding core,	2e-10
2v3u_A		265	Glutamate receptor delta-2 subunit; postsynaptic m	7e-12
2v3u_A		265	Glutamate receptor delta-2 subunit; postsynaptic m	5e-08
1dp4_A		435	Atrial natriuretic peptide receptor A; periplasmic	8e-12
3qel_B		364	Glutamate [NMDA] receptor subunit epsilon-2; ION c	3e-11
4dz1_A		259	DALS D-alanine transporter; D-alanine binding, per	3e-10
1pb7_A		292	N-methyl-D-aspartate receptor subunit 1; ligand bi	8e-10
1pb7_A		292	N-methyl-D-aspartate receptor subunit 1; ligand bi	3e-09
2rc8_A		294	Glutamate [NMDA] receptor subunit 3A; membrane pro	9e-10
2rc8_A		294	Glutamate [NMDA] receptor subunit 3A; membrane pro	9e-07
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-08
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-05
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-04
2a5s_A		284	N-methyl-D-aspartate receptor nmdar2A subunit, NMD	2e-08
2a5s_A		284	N-methyl-D-aspartate receptor nmdar2A subunit, NMD	4e-06
4f3p_A		249	Glutamine-binding periplasmic protein; ssgcid, str	5e-07
4f3p_A		249	Glutamine-binding periplasmic protein; ssgcid, str	9e-04
3kbr_A		239	Cyclohexadienyl dehydratase; pseudomonas aeruginos	8e-07
3kbr_A		239	Cyclohexadienyl dehydratase; pseudomonas aeruginos	4e-06
3k4u_A		245	Binding component of ABC transporter; structural g	1e-06
3k4u_A		245	Binding component of ABC transporter; structural g	1e-04
2pyy_A		228	Ionotropic glutamate receptor bacterial homologue;	4e-06
1wdn_A		226	GLNBP, glutamine binding protein; closed form, com	2e-05
2o1m_A		258	Probable amino-acid ABC transporter extracellular-	3e-05
3h7m_A		234	Sensor protein; histidine kinase sensor domain, ki	3e-05
3h7m_A		234	Sensor protein; histidine kinase sensor domain, ki	3e-04
1ii5_A		233	SLR1257 protein; membrane protein; HET: GLU; 1.60A	4e-05
1ii5_A		233	SLR1257 protein; membrane protein; HET: GLU; 1.60A	6e-05
3qax_A		268	Probable ABC transporter arginine-binding protein;	4e-05
3qax_A		268	Probable ABC transporter arginine-binding protein;	7e-04
2vha_A		287	Periplasmic binding transport protein; periplasmic	6e-05
3mpk_A		267	Virulence sensor protein BVGS; venus flytrap, sens	7e-05
2iee_A		271	ORF2, probable ABC transporter extracellular-bindi	7e-05
2iee_A		271	ORF2, probable ABC transporter extracellular-bindi	5e-04
1xt8_A		292	Putative amino-acid transporter periplasmic solut	1e-04
3hv1_A		268	Polar amino acid ABC uptake transporter substrate	2e-04
3tql_A		227	Arginine-binding protein; transport and binding pr	3e-04
2yjp_A		291	Putative ABC transporter, periplasmic binding Pro	6e-04
1lst_A		239	Lysine, arginine, ornithine-binding protein; amino	7e-04

>3kg2_A Glutamate receptor 2; ION channel, membrane protein, cell membrane, glycoprotein, transport, membrane, postsynaptic cell membrane, editing; HET: ZK1 NAG BMA; 3.60A {Rattus norvegicus} Length = 823	Back alignment and structure

 Score =  409 bits (1053), Expect = e-132
 Identities = 116/624 (18%), Positives = 213/624 (34%), Gaps = 56/624 (8%)

Query: 1   MMSEGYAWIATQGLSTLLDPVKDMESMQGVLGLRPYIPSSKKLEHFKLRWIKSADK--PD 58
              +GY +I      T  D +K       V G +        +  F  RW    +K  P 
Sbjct: 204 KHVKGYHYIIANLGFTDGDLLKIQFGGAEVSGFQIVDYDDSLVSKFIERWSTLEEKEYPG 263

Query: 59  GSTGGSNLFGLWAYDTVWAIAMAVERAGIENSSFLKSNTSKSRVDIAALGTFEMGAKLLD 118
             T          YD V  +  A      +     +   +   +   A   +  G ++  
Sbjct: 264 AHTATIKYTSALTYDAVQVMTEAFRNLRKQRIEISRRGNAGDCLANPA-VPWGQGVEIER 322

Query: 119 TLINTTFEGLSGNFHLV-NGQLEPSAFEIFNVIGTSERVIGYWTKEKELLSELNDNNGRA 177
            L     EGLSGN     NG+       I  +     R IGYW          ++ +   
Sbjct: 323 ALKQVQVEGLSGNIKFDQNGKRINYTINIMELKTNGPRKIGYW----------SEVDKMV 372

Query: 178 TNNLKNPIWPGNTIDQPRKLKIGVPVREGFTEFIKVVENKNKTTQVSGFCYDMFHAVLQV 237
                       T+     L+        +              +  G+C D+   + + 
Sbjct: 373 LTEDDTSGLEQKTVVVTTILE------SPYVMMKANHAALAGNERYEGYCVDLAAEIAKH 426

Query: 238 LEFPLPYEFVPFH--------DGSFDELLHKIEKQEFDTAVGDTTIVANRSTFVDFTLPY 289
             F      V              ++ ++ ++   + D A+   TI   R   +DF+ P+
Sbjct: 427 CGFKYKLTIVGDGKYGARDADTKIWNGMVGELVYGKADIAIAPLTITLVREEVIDFSKPF 486

Query: 290 SESGVSMLVLVKDDERKNFWIFLKPLSWDLWLTTGAAFIFTGLVVWVLEHRINTEFRGP- 348
              G+S+++      +   + FL PL++++W+    A+I   +V++++      E+    
Sbjct: 487 MSLGISIMIKKPQKSKPGVFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEE 546

Query: 349 -------------PQHQIGTIFWFSFSTLVFAHRERVVNNLS-RFVLIIWVFVVLILTQS 394
                         +  I    WFS    +    +    +LS R V  +W F  LI+  S
Sbjct: 547 FEDGRETQSSESTNEFGIFNSLWFSLGAFMQQGADISPRSLSGRIVGGVWWFFTLIIISS 606

Query: 395 YTASLTSMLTVQRLQPSFTDVKDIQKNGYF-VGYQTNSFVKDLLTKKLNFNETRLKNY-- 451
           YTA+L + LTV+R+       +D+ K      G   +   K+   +       ++  Y  
Sbjct: 607 YTANLAAFLTVERMVSPIESAEDLSKQTEIAYGTLDSGSTKEFFRRSKIAVFDKMWTYMR 666

Query: 452 ---------TTSEDYHDALSNGEVAAIFDEIPYIKIFLASYCSRYMMVGPTYRTDGFGFA 502
                    TT+E       +    A   E    +          M VG    + G+G A
Sbjct: 667 SAEPSVFVRTTAEGVARVRKSKGKYAYLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIA 726

Query: 503 FPLGSPLVPYISRAILKVTEDKEKMENIEKALGNQATCEGQGP-TTLSSDSLSVYSFGGL 561
            P GS L   ++ A+LK++E     +   K   ++  C  +   +   + +LS+ +  G+
Sbjct: 727 TPKGSSLGTPVNLAVLKLSEQGLLDKLKNKWWYDKGECGAKDSGSKEKTSALSLSNVAGV 786

Query: 562 FIIAGIASMSSLLIYVFNFVCFHR 585
           F I       ++L+ +  F    R
Sbjct: 787 FYILVGGLGLAMLVALIEFCYKSR 810

PyMOL of 3kg2

>3o21_A Glutamate receptor 3; periplasmatic binding protein, oligomerization, membrane, TR protein; HET: NAG; 2.20A {Rattus norvegicus} PDB: 3p3w_A Length = 389	Back alignment and structure

>3saj_A Glutamate receptor 1; rossman fold, ION channel, membrane, transport protein; HET: NAG BMA MAN; 2.50A {Rattus norvegicus} Length = 384	Back alignment and structure

>3hsy_A Glutamate receptor 2; ligand-gated ION channel, synapse, cell CELL membrane, endoplasmic reticulum, glycoprotein, ION TRA ionic channel; HET: NAG BMA; 1.75A {Rattus norvegicus} PDB: 3h5v_A* 3h5w_A 3o2j_A* 2wjw_A* 2wjx_A 3n6v_A Length = 376	Back alignment and structure

>4f11_A Gamma-aminobutyric acid type B receptor subunit 2; venus flytrap module, G-protein coupled receptor, signaling; 2.38A {Homo sapiens} PDB: 4f12_A* Length = 433	Back alignment and structure

>3om0_A Glutamate receptor, ionotropic kainate 5; membrane protein, ION channel; HET: NAG BMA GOL; 1.40A {Rattus norvegicus} PDB: 3om1_A* 3qlu_A* 3qlv_A Length = 393	Back alignment and structure

>3h6g_A Glutamate receptor, ionotropic kainate 2; membrane protein glycoprotein, cell junction, cell membrane, glycoprotein, ION transport; HET: NAG TLA; 2.70A {Rattus norvegicus} PDB: 3h6h_A* 3qlv_C 3qlu_C* 3qlt_A* 3olz_A* Length = 395	Back alignment and structure

>1yae_A Glutamate receptor, ionotropic kainate 2; kainate receptor, membrane protein; HET: NAG FUC DOQ; 3.11A {Rattus norvegicus} SCOP: c.94.1.1 Length = 312	Back alignment and structure

>1yae_A Glutamate receptor, ionotropic kainate 2; kainate receptor, membrane protein; HET: NAG FUC DOQ; 3.11A {Rattus norvegicus} SCOP: c.94.1.1 Length = 312	Back alignment and structure

>1jdp_A NPR-C, atrial natriuretic peptide clearance receptor; hormone-receptor complex, natriuretic peptide receptor, ALLO activation, signaling protein; HET: NDG NAG; 2.00A {Homo sapiens} SCOP: c.93.1.1 PDB: 1jdn_A* 1yk0_A* 1yk1_A* Length = 441	Back alignment and structure

>3qek_A NMDA glutamate receptor subunit; amino terminal domain, ION channel, NMDA receptor, allosteri modulation, phenylethanolamine, polyamine; HET: NAG BMA; 2.00A {Xenopus laevis} PDB: 3qel_A* 3qem_A* 3q41_A* Length = 384	Back alignment and structure

>3g3k_A Glutamate receptor, ionotropic kainate 2; membrane protein, cell junction, cell membrane, glycoprotein, ION transport, ionic channel, membrane; HET: GLU IPA; 1.24A {Rattus norvegicus} PDB: 3g3j_A* 3g3i_A* 2i0b_A* 3g3h_A* 3g3g_A* 3g3f_A* 1s7y_A* 1s9t_A* 1sd3_A* 1tt1_A* 1s50_A* 2xxr_A* 2xxt_A* 2xxx_A* 2xxw_A* 2xxy_A* 2xxu_A* 2xxv_A* 3qxm_A* 2i0c_A* ... Length = 259	Back alignment and structure

>3g3k_A Glutamate receptor, ionotropic kainate 2; membrane protein, cell junction, cell membrane, glycoprotein, ION transport, ionic channel, membrane; HET: GLU IPA; 1.24A {Rattus norvegicus} PDB: 3g3j_A* 3g3i_A* 2i0b_A* 3g3h_A* 3g3g_A* 3g3f_A* 1s7y_A* 1s9t_A* 1sd3_A* 1tt1_A* 1s50_A* 2xxr_A* 2xxt_A* 2xxx_A* 2xxw_A* 2xxy_A* 2xxu_A* 2xxv_A* 3qxm_A* 2i0c_A* ... Length = 259	Back alignment and structure

>1mqi_A Glutamate receptor 2; GLUR2, ligand binding core, S1S2, partial agonist, WILLARDIINES, fluoro-WILLARDIINE, membrane protein; HET: FWD; 1.35A {Rattus norvegicus} SCOP: c.94.1.1 PDB: 1ftj_A* 1ftl_A* 1fto_A 1fw0_A* 1m5b_A* 1ftm_A* 1m5c_A* 1mm6_A* 1mm7_A* 1mqg_A* 1m5e_A* 1mqj_A* 1ms7_A* 1mxu_A* 1mxv_A 1mxw_A 1mxx_A 1mxy_A 1mxz_A 1my0_A ... Length = 263	Back alignment and structure

>1mqi_A Glutamate receptor 2; GLUR2, ligand binding core, S1S2, partial agonist, WILLARDIINES, fluoro-WILLARDIINE, membrane protein; HET: FWD; 1.35A {Rattus norvegicus} SCOP: c.94.1.1 PDB: 1ftj_A* 1ftl_A* 1fto_A 1fw0_A* 1m5b_A* 1ftm_A* 1m5c_A* 1mm6_A* 1mm7_A* 1mqg_A* 1m5e_A* 1mqj_A* 1ms7_A* 1mxu_A* 1mxv_A 1mxw_A 1mxx_A 1mxy_A 1mxz_A 1my0_A ... Length = 263	Back alignment and structure

>2v3u_A Glutamate receptor delta-2 subunit; postsynaptic membrane, ionotropic glutamate receptors, transmembrane, membrane protein; 1.74A {Rattus norvegicus} PDB: 2v3t_A Length = 265	Back alignment and structure

>2v3u_A Glutamate receptor delta-2 subunit; postsynaptic membrane, ionotropic glutamate receptors, transmembrane, membrane protein; 1.74A {Rattus norvegicus} PDB: 2v3t_A Length = 265	Back alignment and structure

>1dp4_A Atrial natriuretic peptide receptor A; periplasmic binding protein fold, dimer, hormone/growth FACT receptor, lyase complex; HET: NAG; 2.00A {Rattus norvegicus} SCOP: c.93.1.1 PDB: 1t34_A* 3a3k_A* Length = 435	Back alignment and structure

>3qel_B Glutamate [NMDA] receptor subunit epsilon-2; ION channel, allosteric modulation, phenylethanolamine, N-glycosylation, extracellular; HET: NAG BMA MAN FUC QEL; 2.60A {Rattus norvegicus} PDB: 3qem_B* 3jpw_A* 3jpy_A* Length = 364	Back alignment and structure

>4dz1_A DALS D-alanine transporter; D-alanine binding, periplasmic, transport protein; 1.90A {Salmonella enterica} PDB: 3r39_A 4f3s_A Length = 259	Back alignment and structure

>1pb7_A N-methyl-D-aspartate receptor subunit 1; ligand binding receptor, NR1, ligand binding protein; 1.35A {Rattus norvegicus} SCOP: c.94.1.1 PDB: 1pbq_A* 1y1m_A 1y1z_A 1y20_A 2a5t_A* 1pb8_A 1pb9_A Length = 292	Back alignment and structure

>1pb7_A N-methyl-D-aspartate receptor subunit 1; ligand binding receptor, NR1, ligand binding protein; 1.35A {Rattus norvegicus} SCOP: c.94.1.1 PDB: 1pbq_A* 1y1m_A 1y1z_A 1y20_A 2a5t_A* 1pb8_A 1pb9_A Length = 292	Back alignment and structure

>2rc8_A Glutamate [NMDA] receptor subunit 3A; membrane protein, cell junction, glycoprotein, ION transport channel, magnesium; 1.45A {Rattus norvegicus} PDB: 2rc7_A 2rc9_A 2rca_A 2rcb_A Length = 294	Back alignment and structure

>2rc8_A Glutamate [NMDA] receptor subunit 3A; membrane protein, cell junction, glycoprotein, ION transport channel, magnesium; 1.45A {Rattus norvegicus} PDB: 2rc7_A 2rc9_A 2rca_A 2rcb_A Length = 294	Back alignment and structure

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

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

>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

>2a5s_A N-methyl-D-aspartate receptor nmdar2A subunit, NMDA receptor nmdar2A; protein-ligand complex, metal transport,membrane protein; HET: GLU; 1.70A {Rattus norvegicus} SCOP: c.94.1.1 PDB: 2a5t_B* 3oen_A* 3oel_A* 3oem_A* 3oek_A* Length = 284	Back alignment and structure

>2a5s_A N-methyl-D-aspartate receptor nmdar2A subunit, NMDA receptor nmdar2A; protein-ligand complex, metal transport,membrane protein; HET: GLU; 1.70A {Rattus norvegicus} SCOP: c.94.1.1 PDB: 2a5t_B* 3oen_A* 3oel_A* 3oem_A* 3oek_A* Length = 284	Back alignment and structure

>4f3p_A Glutamine-binding periplasmic protein; ssgcid, structural genomics, GLUT seattle structural genomics center for infectious disease; 2.40A {Burkholderia pseudomallei} Length = 249	Back alignment and structure

>4f3p_A Glutamine-binding periplasmic protein; ssgcid, structural genomics, GLUT seattle structural genomics center for infectious disease; 2.40A {Burkholderia pseudomallei} Length = 249	Back alignment and structure

>3kbr_A Cyclohexadienyl dehydratase; pseudomonas aeruginos structural genomics, PSI-2, protein structure initiative; HET: EPE; 1.66A {Pseudomonas aeruginosa} Length = 239	Back alignment and structure

>3kbr_A Cyclohexadienyl dehydratase; pseudomonas aeruginos structural genomics, PSI-2, protein structure initiative; HET: EPE; 1.66A {Pseudomonas aeruginosa} Length = 239	Back alignment and structure

>3k4u_A Binding component of ABC transporter; structural genomics, protein structure INI NEW YORK structural genomix research consortium, nysgxrc; HET: LYS; 2.62A {Wolinella succinogenes} Length = 245	Back alignment and structure

>3k4u_A Binding component of ABC transporter; structural genomics, protein structure INI NEW YORK structural genomix research consortium, nysgxrc; HET: LYS; 2.62A {Wolinella succinogenes} Length = 245	Back alignment and structure

>2pyy_A Ionotropic glutamate receptor bacterial homologue; GLUR0 ligand binding domain, transport protein; HET: GLU; 2.10A {Nostoc punctiforme} Length = 228	Back alignment and structure

>1wdn_A GLNBP, glutamine binding protein; closed form, complex, peptide, complex (binding protein/peptide); 1.94A {Escherichia coli} SCOP: c.94.1.1 PDB: 1ggg_A Length = 226	Back alignment and structure

>2o1m_A Probable amino-acid ABC transporter extracellular-binding protein YTMK; NESG X-RAY O34852 YTMK_bacsu, structural genomics, PSI-2; 2.00A {Bacillus subtilis} Length = 258	Back alignment and structure

>3h7m_A Sensor protein; histidine kinase sensor domain, kinase, phosphoprotein, transferase; 2.40A {Geobacter sulfurreducens} Length = 234	Back alignment and structure

>3h7m_A Sensor protein; histidine kinase sensor domain, kinase, phosphoprotein, transferase; 2.40A {Geobacter sulfurreducens} Length = 234	Back alignment and structure

>1ii5_A SLR1257 protein; membrane protein; HET: GLU; 1.60A {Synechocystis SP} SCOP: c.94.1.1 PDB: 1iit_A 1iiw_A Length = 233	Back alignment and structure

>1ii5_A SLR1257 protein; membrane protein; HET: GLU; 1.60A {Synechocystis SP} SCOP: c.94.1.1 PDB: 1iit_A 1iiw_A Length = 233	Back alignment and structure

>3qax_A Probable ABC transporter arginine-binding protein; periplasmic, transport PR; HET: ARG; 2.00A {Chlamydophila pneumoniae} PDB: 3g41_A* 3n26_A* Length = 268	Back alignment and structure

>3qax_A Probable ABC transporter arginine-binding protein; periplasmic, transport PR; HET: ARG; 2.00A {Chlamydophila pneumoniae} PDB: 3g41_A* 3n26_A* Length = 268	Back alignment and structure

>2vha_A Periplasmic binding transport protein; periplasmic binding protein, ligand binding, ultrahigh resolution; HET: GLU; 1.00A {Shigella flexneri} PDB: 2ia4_A* Length = 287	Back alignment and structure

>3mpk_A Virulence sensor protein BVGS; venus flytrap, sensor domain, signaling protein; 2.04A {Bordetella pertussis} PDB: 3mpl_A Length = 267	Back alignment and structure

>2iee_A ORF2, probable ABC transporter extracellular-binding protein YCKB; SR574, NESG, X-RAY, structural genomics, PSI-2; 2.20A {Bacillus subtilis} Length = 271	Back alignment and structure

>2iee_A ORF2, probable ABC transporter extracellular-binding protein YCKB; SR574, NESG, X-RAY, structural genomics, PSI-2; 2.20A {Bacillus subtilis} Length = 271	Back alignment and structure

>1xt8_A Putative amino-acid transporter periplasmic solut protein; ABC transport, cysteine uptake; 2.00A {Campylobacter jejuni} SCOP: c.94.1.1 Length = 292	Back alignment and structure

>3hv1_A Polar amino acid ABC uptake transporter substrate binding protein; protein structure initiative II(PSI II), nysgxrc; 1.90A {Streptococcus thermophilus lmg 18311} Length = 268	Back alignment and structure

>3tql_A Arginine-binding protein; transport and binding proteins, transport protein; HET: MSE ARG; 1.59A {Coxiella burnetii} Length = 227	Back alignment and structure

>2yjp_A Putative ABC transporter, periplasmic binding Pro amino acid; transport protein, solute-binding protein; 2.26A {Neisseria gonorrhoeae} Length = 291	Back alignment and structure

>1lst_A Lysine, arginine, ornithine-binding protein; amino-acid binding protein; HET: LYS; 1.80A {Salmonella typhimurium} SCOP: c.94.1.1 PDB: 2lao_A 1lag_E* 1lah_E 1laf_E 1hsl_A* 1hpb_P* Length = 239	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		681
3kg2_A		823	Glutamate receptor 2; ION channel, membrane protei	100.0
1yae_A		312	Glutamate receptor, ionotropic kainate 2; kainate	99.95
1pb7_A		292	N-methyl-D-aspartate receptor subunit 1; ligand bi	99.94
2rc8_A		294	Glutamate [NMDA] receptor subunit 3A; membrane pro	99.93
3g3k_A		259	Glutamate receptor, ionotropic kainate 2; membrane	99.93
2a5s_A		284	N-methyl-D-aspartate receptor nmdar2A subunit, NMD	99.93
4h5g_A		243	Amino acid ABC superfamily ATP binding cassette tr	99.91
4gvo_A		243	LMO2349 protein; structural genomics, IDP05245, L-	99.91
2v3u_A		265	Glutamate receptor delta-2 subunit; postsynaptic m	99.9
1mqi_A		263	Glutamate receptor 2; GLUR2, ligand binding core,	99.89
3k4u_A		245	Binding component of ABC transporter; structural g	99.89
3i6v_A		232	Periplasmic His/Glu/Gln/Arg/opine family-binding;	99.89
4f3p_A		249	Glutamine-binding periplasmic protein; ssgcid, str	99.88
3del_B		242	Arginine binding protein; alpha and beta protein (	99.88
3hv1_A		268	Polar amino acid ABC uptake transporter substrate	99.88
3kzg_A		237	Arginine 3RD transport system periplasmic binding	99.88
4gpa_A		389	Glutamate receptor 4; PBP fold, ligand-gated ION c	99.87
3kbr_A		239	Cyclohexadienyl dehydratase; pseudomonas aeruginos	99.87
1ii5_A		233	SLR1257 protein; membrane protein; HET: GLU; 1.60A	99.87
3tql_A		227	Arginine-binding protein; transport and binding pr	99.87
4dz1_A		259	DALS D-alanine transporter; D-alanine binding, per	99.86
3h7m_A		234	Sensor protein; histidine kinase sensor domain, ki	99.86
4eq9_A		246	ABC transporter substrate-binding protein-amino A	99.85
3mpk_A		267	Virulence sensor protein BVGS; venus flytrap, sens	99.85
1wdn_A		226	GLNBP, glutamine binding protein; closed form, com	99.85
1lst_A		239	Lysine, arginine, ornithine-binding protein; amino	99.85
2y7i_A		229	STM4351; arginine-binding protein; HET: ARG; 1.90A	99.84
2q88_A		257	EHUB, putative ABC transporter amino acid-binding	99.84
3o21_A		389	Glutamate receptor 3; periplasmatic binding protei	99.84
2pyy_A		228	Ionotropic glutamate receptor bacterial homologue;	99.84
2iee_A		271	ORF2, probable ABC transporter extracellular-bindi	99.83
3hsy_A		376	Glutamate receptor 2; ligand-gated ION channel, sy	99.83
3qax_A		268	Probable ABC transporter arginine-binding protein;	99.82
4i62_A		269	Amino acid ABC transporter, periplasmic amino ACI	99.82
2pvu_A		272	ARTJ; basic amino acid binding protein, ABC transp	99.81
2vha_A		287	Periplasmic binding transport protein; periplasmic	99.81
3saj_A		384	Glutamate receptor 1; rossman fold, ION channel, m	99.8
2yln_A		283	Putative ABC transporter, periplasmic binding Pro	99.8
1xt8_A		292	Putative amino-acid transporter periplasmic solut	99.8
2yjp_A		291	Putative ABC transporter, periplasmic binding Pro	99.8
3om0_A		393	Glutamate receptor, ionotropic kainate 5; membrane	99.78
3qel_B		364	Glutamate [NMDA] receptor subunit epsilon-2; ION c	99.72
3h6g_A		395	Glutamate receptor, ionotropic kainate 2; membrane	99.71
2v25_A		259	Major cell-binding factor; antigen, adhesin, aspar	99.67
4f11_A		433	Gamma-aminobutyric acid type B receptor subunit 2;	99.65
3qek_A		384	NMDA glutamate receptor subunit; amino terminal do	99.61
1jdp_A		441	NPR-C, atrial natriuretic peptide clearance recept	99.45
1dp4_A		435	Atrial natriuretic peptide receptor A; periplasmic	99.44
3mq4_A		481	Mglur7, metabotropic glutamate receptor 7; glutama	99.14
2e4u_A		555	Metabotropic glutamate receptor 3; G-protein-coupl	99.08
3sm9_A		479	Mglur3, metabotropic glutamate receptor 3; structu	99.06
3ks9_A		496	Mglur1, metabotropic glutamate receptor 1; glutama	99.05
3td9_A		366	Branched chain amino acid ABC transporter, peripl	98.82
3n5l_A		310	Binding protein component of ABC phosphonate TRAN;	98.78
2ozz_A		231	Hypothetical protein YHFZ; alpha-beta structure, s	98.72
3p7i_A		321	PHND, subunit of alkylphosphonate ABC transporter;	98.66
4evq_A		375	Putative ABC transporter subunit, substrate-bindi	98.64
3hut_A		358	Putative branched-chain amino acid ABC transporter	98.62
1usg_A		346	Leucine-specific binding protein; leucine-binding	98.61
3i45_A		387	Twin-arginine translocation pathway signal protei;	98.6
3ipc_A		356	ABC transporter, substrate binding protein (amino;	98.59
3n0x_A		374	Possible substrate binding protein of ABC transpo	98.48
3h5l_A		419	Putative branched-chain amino acid ABC transporter	98.45
4eyg_A		368	Twin-arginine translocation pathway signal; PSI-bi	98.41
3lkb_A		392	Probable branched-chain amino acid ABC transporter	98.36
1pea_A		385	Amidase operon; gene regulator, receptor, binding	98.33
3i09_A		375	Periplasmic branched-chain amino acid-binding Pro;	98.3
3eaf_A		391	ABC transporter, substrate binding protein; PSI2,	98.16
4gnr_A		353	ABC transporter substrate-binding protein-branche	98.16
4f06_A		371	Extracellular ligand-binding receptor; PSI-biology	98.15
3n0w_A		379	ABC branched chain amino acid family transporter,	98.1
3snr_A		362	Extracellular ligand-binding receptor; structural	98.08
3sg0_A		386	Extracellular ligand-binding receptor; structural	97.88
2x26_A		308	Periplasmic aliphatic sulphonates-binding protein;	97.83
3lop_A		364	Substrate binding periplasmic protein; protein str	97.83
3uif_A		348	Sulfonate ABC transporter, periplasmic sulfonate-	97.74
3un6_A		341	Hypothetical protein saouhsc_00137; structural gen	97.72
3ksx_A		324	Nitrate transport protein; SSUA, alkanesulfonate-b	97.57
3qsl_A		346	Putative exported protein; unknown, structural gen	97.53
3ix1_A		302	N-formyl-4-amino-5-aminomethyl-2-methylpyrimidine	97.44
2qpq_A		301	Protein BUG27; alpha/beta domain, venus flytrap, t	97.37
2dvz_A		314	BUGE, putative exported protein; periplamsic bindi	97.34
2f5x_A		312	BUGD; periplasmic binding protein, transport prote	97.22
2k1e_A		103	Water soluble analogue of potassium channel, KCSA;	96.85
2ih3_C		122	Voltage-gated potassium channel; ION channel D-ami	96.83
4ddd_A		327	Immunogenic protein; ssgcid, structural genomics,	96.83
2a9h_A		155	Voltage-gated potassium channel; potassium channel	96.46
3eff_K		139	Voltage-gated potassium channel; FULL length KCSA,	96.42
2x7q_A		321	Ca3427, possible thiamine biosynthesis enzyme; unk	96.12
4h33_A		137	LMO2059 protein; bilayers, KVLM, lipidic cubic pha	95.97
2zzv_A		361	ABC transporter, solute-binding protein; periplasm	95.8
3ckm_A		327	YRAM (HI1655), LPOA; periplasmic-binding protein,	95.74
4ab5_A		222	Transcriptional regulator, LYSR family; transcript	95.33
2g29_A		417	Nitrate transport protein NRTA; solute-binding pro	95.21
3ldc_A		82	Calcium-gated potassium channel MTHK; transmembran	95.06
1zbm_A		280	Hypothetical protein AF1704; alpha-beta protein, s	94.9
3ouf_A		97	Potassium channel protein; ION channel, membrane,	94.84
2q67_A		114	Potassium channel protein; inverted teepee, helix	94.77
1us5_A		314	Putative GLUR0 ligand binding core; receptor, memb	94.67
2hzl_A		365	Trap-T family sorbitol/mannitol transporter, perip	94.49
2h4a_A		325	YRAM (HI1655); perplasmic binding protein, lipopro	94.18
2pfy_A		301	Putative exported protein; extracytoplasmic solute	94.1
3vou_A		148	ION transport 2 domain protein, voltage-gated SOD	94.1
2pfz_A		301	Putative exported protein; extracytoplasmic solute	93.91
1p7b_A		333	Integral membrane channel and cytosolic domains; t	93.79
3ho7_A		232	OXYR; beta-alpha-barrels, DNA-binding, transcripti	93.75
1xl4_A		301	Inward rectifier potassium channel; integral membr	93.71
1orq_C		223	Potassium channel; voltage-dependent, KVAP, FAB co	93.7
3jv9_A		219	OXYR, transcriptional regulator, LYSR family; LYSR	93.69
3oxn_A		241	Putative transcriptional regulator, LYSR family; s	93.62
3pjs_K		166	KCSA, voltage-gated potassium channel; ION channel	93.31
4gx0_A		565	TRKA domain protein; membrane protein, ION channel	92.97
2esn_A		310	Probable transcriptional regulator; PA0477, APC582	92.24
1atg_A		231	MODA, periplasmic molybdate-binding protein; tungs	92.17
2i49_A		429	Bicarbonate transporter; alpha-beta protein, C-cla	91.91
2y7p_A		218	LYSR-type regulatory protein; transcription regula	91.82
3fxq_A		305	LYSR type regulator of TSAMBCD; transcriptional re	91.82
2hxr_A		238	HTH-type transcriptional regulator CYNR; CYNR tran	91.46
2qks_A		321	KIR3.1-prokaryotic KIR channel chimera; G-protein	91.45
4esw_A		342	Pyrimidine biosynthesis enzyme THI13; thiamin pyri	91.26
1lnq_A		336	MTHK channels, potassium channel related protein;	91.13
3beh_A		355	MLL3241 protein; transmembrane protein, membrane p	90.82
3r26_A		237	Molybdate-binding periplasmic protein; protein bin	90.52
3fzv_A		306	Probable transcriptional regulator; LYSR, structur	89.11
1sw5_A		275	Osmoprotection protein (PROX); binding-protein, co	88.85
2fyi_A		228	HTH-type transcriptional regulator CBL; Lys-R fami	88.77
1i6a_A		219	OXYR, hydrogen peroxide-inducible genes activator;	87.78
3gzg_A		253	Molybdate-binding periplasmic protein; permease; m	87.74
2r9r_B		514	Paddle chimera voltage gated potassium channel KV;	87.2
2ql3_A		209	Probable transcriptional regulator, LYSR family P;	86.48
3ukm_A		280	Potassium channel subfamily K member 1; membrane p	85.99
2xwv_A		312	Sialic acid-binding periplasmic protein SIAP; tran	85.83
1uth_A		315	LYSR-type regulatory protein; transcription regula	85.61
1xs5_A		241	29 kDa protein, membrane lipoprotein TPN32; peripl	85.48
2hpg_A		327	ABC transporter, periplasmic substrate-binding pro	85.37
1al3_A		324	Cys regulon transcriptional activator CYSB; LYSR f	84.84
1ixc_A		294	CBNR, LYSR-type regulatory protein; long alpha hel	80.93
2vpn_A		316	Periplasmic substrate binding protein; ectoine, hy	80.81

>3kg2_A Glutamate receptor 2; ION channel, membrane protein, cell membrane, glycoprotein, transport, membrane, postsynaptic cell membrane, editing; HET: ZK1 NAG BMA; 3.60A {Rattus norvegicus}	Back alignment and structure

Probab=100.00  E-value=1.1e-75  Score=695.40  Aligned_cols=565  Identities=20%  Similarity=0.303  Sum_probs=458.8

Q ss_pred             CCCCCeEEEecCCccccCCccccccCccceEEEEEecCCChhHHHHHHHHHhh--cCCCCCCCCCCchhHHHHHHHHHHH
Q 005717            1 MMSEGYAWIATQGLSTLLDPVKDMESMQGVLGLRPYIPSSKKLEHFKLRWIKS--ADKPDGSTGGSNLFGLWAYDTVWAI   78 (681)
Q Consensus         1 mm~~~y~WI~t~~~~~~~~~~~~~~~~~Gvlg~~~~~~~~~~~~~f~~~~~~~--~~~~~~~~~~~~~~~~~aYDav~~l   78 (681)
                      |++++|+||++++.....+.....+...|++|++++.+..+.+++|.++|+++  .++++.....++.+++++||||+++
T Consensus       204 ~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~a~~~YDAv~~l  283 (823)
T 3kg2_A          204 KHVKGYHYIIANLGFTDGDLLKIQFGGAEVSGFQIVDYDDSLVSKFIERWSTLEEKEYPGAHTATIKYTSALTYDAVQVM  283 (823)
T ss_dssp             TTBTTCEEEECSSBSSSSCCSSSSSSBCEEEEEESSCTTSHHHHHHHHHHTTSCTTTSTTCCSSCCCHHHHHHHHHHHHH
T ss_pred             cCCCCeEEEEecccccccchHHhhcCCCCceEeeeecCCchHHHHHHHHHHhhcccccCCCCccccchhhHHHHHHHHHH
Confidence            57789999999964444443345567778999999999999999999999876  4455545556788999999999999


Q ss_pred             HHHHHHHcccCCcccccCCCCCCCccccc--CCCcchHHHHHHHhccceecceeeEEE-eCCcccCccEEEEEeeeCCee
Q 005717           79 AMAVERAGIENSSFLKSNTSKSRVDIAAL--GTFEMGAKLLDTLINTTFEGLSGNFHL-VNGQLEPSAFEIFNVIGTSER  155 (681)
Q Consensus        79 A~Al~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~G~~l~~~l~~~~f~GltG~i~F-~~G~~~~~~~~I~n~~~~~~~  155 (681)
                      |+|++++...+.....   .....+|...  ..|.+|..|+++|++++|+|+||+|+| ++|++.+..|+|+|+++++++
T Consensus       284 a~Al~~~~~~~~~~~~---~~~~~~c~~~~~~~~~~g~~l~~~l~~~~f~G~tG~i~fd~~G~~~~~~~~I~~~~~~g~~  360 (823)
T 3kg2_A          284 TEAFRNLRKQRIEISR---RGNAGDCLANPAVPWGQGVEIERALKQVQVEGLSGNIKFDQNGKRINYTINIMELKTNGPR  360 (823)
T ss_dssp             HHHHHHHHTTTCCCCC---SSCCCCTTCSSCCCCTHHHHHHHHHTTCCCEETTEECCBCSSSCBCSCEEEEEEECSSCEE
T ss_pred             HHHHHHHHhhcccccc---CCCCCCccCCCCCcccchHHHHHHHHhcccCCcccCeEECCCCcccccEEEEEEEcCCCCe
Confidence            9999999865433322   2234567654  568899999999999999999999999 889999999999999999999


Q ss_pred             EeeeeeCCCCccccccCCCCccCCCCCCccCCCCCcCCCceEEEEeeccCCccceEEEeecC-CCCeeEEeehHHHHHHH
Q 005717          156 VIGYWTKEKELLSELNDNNGRATNNLKNPIWPGNTIDQPRKLKIGVPVREGFTEFIKVVENK-NKTTQVSGFCYDMFHAV  234 (681)
Q Consensus       156 ~vG~W~~~~gl~~~~~~~~~~~~~~l~~i~Wpg~~~~~p~~lrV~v~~~~p~~~~~~~~~~~-~~~~~~~G~~idll~~l  234 (681)
                      +||+|++..|+....+     ...+           ...++|+|++...+||..+.. ..++ ++++++.|||+||++++
T Consensus       361 ~vg~w~~~~g~~~~~~-----~~~~-----------~~~~~l~v~~~~~~P~~~~~~-~~~~~~~~~~~~G~~~dl~~~~  423 (823)
T 3kg2_A          361 KIGYWSEVDKMVLTED-----DTSG-----------LEQKTVVVTTILESPYVMMKA-NHAALAGNERYEGYCVDLAAEI  423 (823)
T ss_dssp             EEEEEETTTEEEECCC-----CCSS-----------CCCCCEEEEECCCTTTSEECT-TGGGCCGGGGEESHHHHHHHHH
T ss_pred             eEEEEcCCCCceeccC-----cccc-----------cCCCEEEEEEecCCCcEEEec-CccccCCCCceEEEHHHHHHHH
Confidence            9999999988875432     0011           123789999988888754321 1122 56789999999999999


Q ss_pred             HHHcCCCcCeEEEeCCC--------CCHHHHHHHHHhCccceEEEeEEEeeccccccccccceeecceEEEEEeccCCCc
Q 005717          235 LQVLEFPLPYEFVPFHD--------GSFDELLHKIEKQEFDTAVGDTTIVANRSTFVDFTLPYSESGVSMLVLVKDDERK  306 (681)
Q Consensus       235 ~~~l~f~~~~~~v~~~~--------g~~~gli~~l~~g~~Dia~~~~~it~~R~~~vdFT~P~~~~~~~~vv~~~~~~~~  306 (681)
                      ++++||+++++.++++.        |+|++++++|.+|++|++++++++|++|.+.+|||.||+.+++++++|++.....
T Consensus       424 a~~l~~~~~~~~~~~~~~g~~~~~~g~~~~~~~~l~~~~~D~~~~~~~~t~~R~~~~dfs~py~~~~~~~~v~~~~~~~~  503 (823)
T 3kg2_A          424 AKHCGFKYKLTIVGDGKYGARDADTKIWNGMVGELVYGKADIAIAPLTITLVREEVIDFSKPFMSLGISIMIKKPQKSKP  503 (823)
T ss_dssp             HHHHTCCEEEEECSSCCCCCBCTTTCCBCHHHHHHHTTSCSEECSCCBCCHHHHTTEEECSCSEEECEEEEEECCCCCCC
T ss_pred             HHHcCCcEEEEEccCCcccccCCCCCchhhHHHhhccccCcEEecceecchhheeeEEeccchhhCCEEEEEECCCcccc
Confidence            99999886666655322        5699999999999999999999999999999999999999999999999887777


Q ss_pred             CceeeeccCcHhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCC--------------CCchhhHHHHHHHHHhccCcc-c
Q 005717          307 NFWIFLKPLSWDLWLTTGAAFIFTGLVVWVLEHRINTEFRGPP--------------QHQIGTIFWFSFSTLVFAHRE-R  371 (681)
Q Consensus       307 ~~~~fl~PF~~~vW~~i~~~~~~v~~v~~~~~~~~~~~~~~~~--------------~~~~~~~~~~~~~~l~~~~~~-~  371 (681)
                      +++.|++||++.+|++++++++++++++|+++|..+.+++.+.              ..++.+++|++++++++++.. .
T Consensus       504 ~~~~fl~Pf~~~vW~~i~~~~~~~~~~l~~~~~~~p~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~  583 (823)
T 3kg2_A          504 GVFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFEDGRETQSSESTNEFGIFNSLWFSLGAFMQQGADIS  583 (823)
T ss_dssp             CGGGTTTTSCHHHHHHHHHHHHHHHTTGGGTC-----------------------CHHHHHHHHHHHTTTTSCC------
T ss_pred             cchHhhcCCchhHHHHHHHHHHHHHHHHHHHHhcChhhccCcccccccccccccccccccHHHHHHHHHHHHHhcCCCcC
Confidence            8999999999999999999999999999999998766554322              124789999999999877754 4


Q ss_pred             ccccchhHHHHHHHHHHHHHHhHhhhhhhheeeecccCCCCCCHHHHHhCCC-eEEEecChhHHHHHhhhcCCcc-c---
Q 005717          372 VVNNLSRFVLIIWVFVVLILTQSYTASLTSMLTVQRLQPSFTDVKDIQKNGY-FVGYQTNSFVKDLLTKKLNFNE-T---  446 (681)
Q Consensus       372 ~~s~~~R~l~~~w~~~~lil~s~YtA~L~s~LT~~~~~~~i~s~~dL~~~~~-~vg~~~~s~~~~~l~~~~~~~~-~---  446 (681)
                      |++.++|+++++|||++||++++|||+|+|+||++++.++|++++||.+++. .+|+..++....++ ++...+. .   
T Consensus       584 p~~~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~I~s~~dL~~~~~i~~~~~~~~~~~~~~-~~~~~~~~~~~~  662 (823)
T 3kg2_A          584 PRSLSGRIVGGVWWFFTLIIISSYTANLAAFLTVERMVSPIESAEDLSKQTEIAYGTLDSGSTKEFF-RRSKIAVFDKMW  662 (823)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCSSHHHHHCCSSEEECBSSSHHHHHH-HHCCCHHHHHHH
T ss_pred             CcchhhhhHHHHHHHHHHHHHHHHHHHHHHHhcccccCCCCCCHHHHhhCCCeeEEEEeCCcHHHHH-HhccchHHHHHH
Confidence            8999999999999999999999999999999999999999999999998654 78888777777777 3322211 0   


Q ss_pred             -------cccccCChhHHHHHHc-cCcceEEecchhhHHHHHhhc-CCceEEECcccccCCcEEEecCCCCChHHHHHHH
Q 005717          447 -------RLKNYTTSEDYHDALS-NGEVAAIFDEIPYIKIFLASY-CSRYMMVGPTYRTDGFGFAFPLGSPLVPYISRAI  517 (681)
Q Consensus       447 -------~~~~~~~~~~~~~~l~-~g~~~a~i~e~~~~~~~~~~~-c~~l~~v~~~~~~~~~~~~~~k~spl~~~in~~I  517 (681)
                             ....+++.+++++++. +++.+|++.+.+.++|+.+++ | +++++++.+...++++++||||||++.||++|
T Consensus       663 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~y~~~~~~c-~l~~v~~~~~~~~~~~~~~k~spl~~~~~~~i  741 (823)
T 3kg2_A          663 TYMRSAEPSVFVRTTAEGVARVRKSKGKYAYLLESTMNEYIEQRKPC-DTMKVGGNLDSKGYGIATPKGSSLGTPVNLAV  741 (823)
T ss_dssp             HHHHHCSSCCCBSSHHHHHHHHHTTTTSEEEEEEHHHHHHHHTSTTC-CEEEESCCSSCEEECCEEETTCSSHHHHHHHH
T ss_pred             HHHHhcCCccccCCHHHHHHHHhccCCceEEEechHHHHHHHhcCCC-ceEEccccccccceeEeecCCChHHHHHHHHH
Confidence                   1123468899999995 566789999999999988877 9 89999999999999999999999999999999


Q ss_pred             HhhccCccHHHHHHHHHcCC-CCCCCCCCC-cccccccccccchhHHHHHHHHHHHHHHHHHHHHHHhhcCCC
Q 005717          518 LKVTEDKEKMENIEKALGNQ-ATCEGQGPT-TLSSDSLSVYSFGGLFIIAGIASMSSLLIYVFNFVCFHRPEL  588 (681)
Q Consensus       518 l~l~e~~G~l~~i~~kw~~~-~~c~~~~~~-~~~~~~L~l~~~~g~F~il~~g~~lallvfi~E~l~~~~~~~  588 (681)
                      ++++|+ |++++|.++|+.. ..|...... ..+..+|+++++.|+|+++++|+++|+++|++|++|++++.+
T Consensus       742 l~l~e~-G~~~~~~~~w~~~~~~c~~~~~~~~~~~~~L~l~~l~g~f~il~~g~~la~~vf~~E~~~~~~~~~  813 (823)
T 3kg2_A          742 LKLSEQ-GLLDKLKNKWWYDKGECGAKDSGSKEKTSALSLSNVAGVFYILVGGLGLAMLVALIEFCYKSRAEA  813 (823)
T ss_dssp             HHHHHT-THHHHHHHHHHTTSCSCSSTTTSTTTCCCSCCSHHHHHHHHHHHHHHHHHHHHHHHHHHHC-----
T ss_pred             HHHHhC-CcHHHHHHhhCcCCCCCCCCCccccccCCccchhhhhhHHHHHHHHHHHHHHHHHHHHHHHcchhh
Confidence            999999 9999999999976 788875432 135679999999999999999999999999999999887764

PyMOL of 3kg2

>1yae_A Glutamate receptor, ionotropic kainate 2; kainate receptor, membrane protein; HET: NAG FUC DOQ; 3.11A {Rattus norvegicus} SCOP: c.94.1.1	Back alignment and structure

>1pb7_A N-methyl-D-aspartate receptor subunit 1; ligand binding receptor, NR1, ligand binding protein; 1.35A {Rattus norvegicus} SCOP: c.94.1.1 PDB: 1pbq_A* 1y1m_A 1y1z_A 1y20_A 2a5t_A* 1pb8_A 1pb9_A	Back alignment and structure

>2rc8_A Glutamate [NMDA] receptor subunit 3A; membrane protein, cell junction, glycoprotein, ION transport channel, magnesium; 1.45A {Rattus norvegicus} PDB: 2rc7_A 2rc9_A 2rca_A 2rcb_A	Back alignment and structure

>3g3k_A Glutamate receptor, ionotropic kainate 2; membrane protein, cell junction, cell membrane, glycoprotein, ION transport, ionic channel, membrane; HET: GLU IPA; 1.24A {Rattus norvegicus} PDB: 3g3j_A* 3g3i_A* 2i0b_A* 3g3h_A* 3g3g_A* 3g3f_A* 1s7y_A* 1s9t_A* 1sd3_A* 1tt1_A* 1s50_A* 2xxr_A* 2xxt_A* 2xxx_A* 2xxw_A* 2xxy_A* 2xxu_A* 2xxv_A* 3qxm_A* 2i0c_A* ...	Back alignment and structure

>2a5s_A N-methyl-D-aspartate receptor nmdar2A subunit, NMDA receptor nmdar2A; protein-ligand complex, metal transport,membrane protein; HET: GLU; 1.70A {Rattus norvegicus} SCOP: c.94.1.1 PDB: 2a5t_B* 3oen_A* 3oel_A* 3oem_A* 3oek_A*	Back alignment and structure

>4h5g_A Amino acid ABC superfamily ATP binding cassette transporter, binding protein; center for structural genomics of infectious diseases (csgid national institute of allergy and infectious diseases; HET: ARG; 1.78A {Streptococcus pneumoniae} PDB: 4h5f_A*	Back alignment and structure

>4gvo_A LMO2349 protein; structural genomics, IDP05245, L-cystine, ABC transporter, periplasmic binding protein, niaid; HET: HIS; 1.45A {Listeria monocytogenes} PDB: 2o1m_A	Back alignment and structure

>2v3u_A Glutamate receptor delta-2 subunit; postsynaptic membrane, ionotropic glutamate receptors, transmembrane, membrane protein; 1.74A {Rattus norvegicus} PDB: 2v3t_A	Back alignment and structure

>1mqi_A Glutamate receptor 2; GLUR2, ligand binding core, S1S2, partial agonist, WILLARDIINES, fluoro-WILLARDIINE, membrane protein; HET: FWD; 1.35A {Rattus norvegicus} SCOP: c.94.1.1 PDB: 1ftj_A* 1ftl_A* 1fto_A 1fw0_A* 1m5b_A* 1ftm_A* 1m5c_A* 1mm6_A* 1mm7_A* 1mqg_A* 1m5e_A* 1mqj_A* 1ms7_A* 1mxu_A* 1mxv_A 1mxw_A 1mxx_A 1mxy_A 1mxz_A 1my0_A ...	Back alignment and structure

>3k4u_A Binding component of ABC transporter; structural genomics, protein structure INI NEW YORK structural genomix research consortium, nysgxrc; HET: LYS; 2.62A {Wolinella succinogenes} SCOP: c.94.1.0	Back alignment and structure

>3i6v_A Periplasmic His/Glu/Gln/Arg/opine family-binding; structural genomics, transporter, PSI-2, protein structure initiative; HET: LYS; 2.00A {Silicibacter pomeroyi} SCOP: c.94.1.0	Back alignment and structure

>4f3p_A Glutamine-binding periplasmic protein; ssgcid, structural genomics, GLUT seattle structural genomics center for infectious disease; 2.40A {Burkholderia pseudomallei}	Back alignment and structure

>3del_B Arginine binding protein; alpha and beta protein (A/B), periplasmic protein, arginine protein binding, transport protein; 1.92A {Chlamydia trachomatis} SCOP: c.94.1.0	Back alignment and structure

>3hv1_A Polar amino acid ABC uptake transporter substrate binding protein; protein structure initiative II(PSI II), nysgxrc; 1.90A {Streptococcus thermophilus lmg 18311}	Back alignment and structure

>3kzg_A Arginine 3RD transport system periplasmic binding protein; arginine transport system, protein structure initiative II(PSI II); 2.06A {Legionella pneumophila subsp} SCOP: c.94.1.0	Back alignment and structure

>4gpa_A Glutamate receptor 4; PBP fold, ligand-gated ION channel, ION transport, transmembrane AMPA receptor regulating proteins, cornichons, ckamp44; HET: NAG; 2.25A {Rattus norvegicus}	Back alignment and structure

>3kbr_A Cyclohexadienyl dehydratase; pseudomonas aeruginos structural genomics, PSI-2, protein structure initiative; HET: EPE; 1.66A {Pseudomonas aeruginosa}	Back alignment and structure

>1ii5_A SLR1257 protein; membrane protein; HET: GLU; 1.60A {Synechocystis SP} SCOP: c.94.1.1 PDB: 1iit_A 1iiw_A	Back alignment and structure

>3tql_A Arginine-binding protein; transport and binding proteins, transport protein; HET: MSE ARG; 1.59A {Coxiella burnetii} SCOP: c.94.1.0	Back alignment and structure

>4dz1_A DALS D-alanine transporter; D-alanine binding, periplasmic, transport protein; 1.90A {Salmonella enterica} PDB: 3r39_A 4f3s_A	Back alignment and structure

>3h7m_A Sensor protein; histidine kinase sensor domain, kinase, phosphoprotein, transferase; 2.40A {Geobacter sulfurreducens} SCOP: c.94.1.0	Back alignment and structure

>4eq9_A ABC transporter substrate-binding protein-amino A transport; structural genomics, niaid; HET: GSH; 1.40A {Streptococcus pneumoniae}	Back alignment and structure

>3mpk_A Virulence sensor protein BVGS; venus flytrap, sensor domain, signaling protein; 2.04A {Bordetella pertussis} PDB: 3mpl_A	Back alignment and structure

>1wdn_A GLNBP, glutamine binding protein; closed form, complex, peptide, complex (binding protein/peptide); 1.94A {Escherichia coli} SCOP: c.94.1.1 PDB: 1ggg_A	Back alignment and structure

>1lst_A Lysine, arginine, ornithine-binding protein; amino-acid binding protein; HET: LYS; 1.80A {Salmonella typhimurium} SCOP: c.94.1.1 PDB: 2lao_A 1lag_E* 1lah_E 1laf_E 1hsl_A* 1hpb_P*	Back alignment and structure

>2y7i_A STM4351; arginine-binding protein; HET: ARG; 1.90A {Salmonella enterica subsp}	Back alignment and structure

>2q88_A EHUB, putative ABC transporter amino acid-binding prote; substrate-binding protein, compatible solues, ABC-transporte osmoprotection; HET: 4CS; 1.90A {Sinorhizobium meliloti} PDB: 2q89_A*	Back alignment and structure

>3o21_A Glutamate receptor 3; periplasmatic binding protein, oligomerization, membrane, TR protein; HET: NAG; 2.20A {Rattus norvegicus} PDB: 3p3w_A	Back alignment and structure

>2pyy_A Ionotropic glutamate receptor bacterial homologue; GLUR0 ligand binding domain, transport protein; HET: GLU; 2.10A {Nostoc punctiforme}	Back alignment and structure

>2iee_A ORF2, probable ABC transporter extracellular-binding protein YCKB; SR574, NESG, X-RAY, structural genomics, PSI-2; 2.20A {Bacillus subtilis}	Back alignment and structure

>3hsy_A Glutamate receptor 2; ligand-gated ION channel, synapse, cell CELL membrane, endoplasmic reticulum, glycoprotein, ION TRA ionic channel; HET: NAG BMA; 1.75A {Rattus norvegicus} PDB: 3h5v_A* 3h5w_A 3o2j_A* 2wjw_A* 2wjx_A 3n6v_A	Back alignment and structure

>3qax_A Probable ABC transporter arginine-binding protein; periplasmic, transport PR; HET: ARG; 2.00A {Chlamydophila pneumoniae} PDB: 3g41_A* 3n26_A*	Back alignment and structure

>4i62_A Amino acid ABC transporter, periplasmic amino ACI protein, putative; center for structural genomics of infectious diseases (csgid national institute of allergy and infectious diseases (NIAI niaid; HET: ARG; 1.05A {Streptococcus pneumoniae}	Back alignment and structure

>2pvu_A ARTJ; basic amino acid binding protein, ABC transport system, THER bacterium, transport protein; HET: LYS; 1.79A {Geobacillus stearothermophilus} PDB: 2q2a_A* 2q2c_A*	Back alignment and structure

>2vha_A Periplasmic binding transport protein; periplasmic binding protein, ligand binding, ultrahigh resolution; HET: GLU; 1.00A {Shigella flexneri} PDB: 2ia4_A*	Back alignment and structure

>3saj_A Glutamate receptor 1; rossman fold, ION channel, membrane, transport protein; HET: NAG BMA MAN; 2.50A {Rattus norvegicus}	Back alignment and structure

>2yln_A Putative ABC transporter, periplasmic binding Pro amino acid; transport protein, solute-BIND protein; HET: CYS GOL; 1.12A {Neisseria gonorrhoeae} PDB: 3zsf_A	Back alignment and structure

>1xt8_A Putative amino-acid transporter periplasmic solut protein; ABC transport, cysteine uptake; 2.00A {Campylobacter jejuni} SCOP: c.94.1.1	Back alignment and structure

>2yjp_A Putative ABC transporter, periplasmic binding Pro amino acid; transport protein, solute-binding protein; 2.26A {Neisseria gonorrhoeae}	Back alignment and structure

>3om0_A Glutamate receptor, ionotropic kainate 5; membrane protein, ION channel; HET: NAG BMA GOL; 1.40A {Rattus norvegicus} PDB: 3om1_A* 3qlu_A* 3qlv_A	Back alignment and structure

>3qel_B Glutamate [NMDA] receptor subunit epsilon-2; ION channel, allosteric modulation, phenylethanolamine, N-glycosylation, extracellular; HET: NAG BMA MAN FUC QEL; 2.60A {Rattus norvegicus} PDB: 3qem_B* 3jpw_A* 3jpy_A*	Back alignment and structure

>3h6g_A Glutamate receptor, ionotropic kainate 2; membrane protein glycoprotein, cell junction, cell membrane, glycoprotein, ION transport; HET: NAG TLA; 2.70A {Rattus norvegicus} PDB: 3h6h_A* 3qlv_C 3qlu_C* 3qlt_A* 3olz_A*	Back alignment and structure

>2v25_A Major cell-binding factor; antigen, adhesin, aspartate, glutamate, transport, ABC transport, virulence factor, receptor; 1.49A {Campylobacter jejuni}	Back alignment and structure

>4f11_A Gamma-aminobutyric acid type B receptor subunit 2; venus flytrap module, G-protein coupled receptor, signaling; 2.38A {Homo sapiens} PDB: 4f12_A*	Back alignment and structure

>3qek_A NMDA glutamate receptor subunit; amino terminal domain, ION channel, NMDA receptor, allosteri modulation, phenylethanolamine, polyamine; HET: NAG BMA; 2.00A {Xenopus laevis} PDB: 3qel_A* 3qem_A* 3q41_A*	Back alignment and structure

>1jdp_A NPR-C, atrial natriuretic peptide clearance receptor; hormone-receptor complex, natriuretic peptide receptor, ALLO activation, signaling protein; HET: NDG NAG; 2.00A {Homo sapiens} SCOP: c.93.1.1 PDB: 1jdn_A* 1yk0_A* 1yk1_A*	Back alignment and structure

>1dp4_A Atrial natriuretic peptide receptor A; periplasmic binding protein fold, dimer, hormone/growth FACT receptor, lyase complex; HET: NAG; 2.00A {Rattus norvegicus} SCOP: c.93.1.1 PDB: 1t34_A* 3a3k_A*	Back alignment and structure

>3mq4_A Mglur7, metabotropic glutamate receptor 7; glutamate receptors, dimerization, glutamic acid BIN structural genomics, structural genomics consortium; HET: Z99; 2.80A {Homo sapiens} SCOP: c.93.1.0 PDB: 2e4z_A*	Back alignment and structure

>2e4u_A Metabotropic glutamate receptor 3; G-protein-coupled receptor, neuron, central nerve system, SI protein; HET: NAG GLU; 2.35A {Rattus norvegicus} PDB: 2e4v_A* 2e4w_A* 2e4x_A* 2e4y_A*	Back alignment and structure

>3sm9_A Mglur3, metabotropic glutamate receptor 3; structural genomics, structural genomics consortium, SGC, CE membrane, G-protein coupled receptor; HET: Z99; 2.26A {Homo sapiens}	Back alignment and structure

>3ks9_A Mglur1, metabotropic glutamate receptor 1; glutamate receptors, dimerization, glutamic acid BIN structural genomics, structural genomics consortium; HET: Z99 NAG; 1.90A {Homo sapiens} SCOP: c.93.1.1 PDB: 1ewk_A* 1ewt_A* 1ewv_A 1isr_A* 1iss_A* 3lmk_A*	Back alignment and structure

>3td9_A Branched chain amino acid ABC transporter, peripl amino acid-binding protein; leucine binding, structural genomics; HET: MSE PHE; 1.90A {Thermotoga maritima}	Back alignment and structure

>3n5l_A Binding protein component of ABC phosphonate TRAN; structural genomics, joint center for structural genomics; HET: UNL; 1.97A {Pseudomonas aeruginosa}	Back alignment and structure

>2ozz_A Hypothetical protein YHFZ; alpha-beta structure, structural genomics, PSI-2, protein structure initiative; 2.30A {Shigella flexneri 2A} SCOP: c.94.1.1	Back alignment and structure

>3p7i_A PHND, subunit of alkylphosphonate ABC transporter; phosphonate binding protein, transport protein; 1.71A {Escherichia coli UTI89} PDB: 3qk6_A 3quj_A* 3s4u_A	Back alignment and structure

>4evq_A Putative ABC transporter subunit, substrate-bindi component; structural genomics, PSI-biology, midwest center for structu genomics; HET: MSE PHB; 1.40A {Rhodopseudomonas palustris} PDB: 4evr_A	Back alignment and structure

>3hut_A Putative branched-chain amino acid ABC transporter; extracellular ligand-binding receptor,transport protein; 1.93A {Rhodospirillum rubrum atcc 11170}	Back alignment and structure

>1usg_A Leucine-specific binding protein; leucine-binding protein, X-RAY crystallography, protein structure, ABC transport systems, transport protein; 1.53A {Escherichia coli} SCOP: c.93.1.1 PDB: 1usi_A* 1usk_A 2lbp_A 1z15_A 1z16_A 1z17_A 1z18_A 2liv_A	Back alignment and structure

>3i45_A Twin-arginine translocation pathway signal protei; structural genomics; 1.36A {Rhodospirillum rubrum}	Back alignment and structure

>3ipc_A ABC transporter, substrate binding protein (amino; venus flytrap domain, transport protein; 1.30A {Agrobacterium tumefaciens} PDB: 3ip5_A 3ip6_A 3ip7_A 3ip9_A 3ipa_A	Back alignment and structure

>3n0x_A Possible substrate binding protein of ABC transpo system; receptor family ligand binding region, structural genomics; HET: MSE; 1.50A {Rhodopseudomonas palustris} PDB: 3nnd_B	Back alignment and structure

>3h5l_A Putative branched-chain amino acid ABC transporter; structural genomics, PSI-2, protein structure initiative; 1.70A {Ruegeria pomeroyi}	Back alignment and structure

>4eyg_A Twin-arginine translocation pathway signal; PSI-biology, MCSG, midwest center for structural genomics, transporter; HET: VNL; 1.86A {Rhodopseudomonas palustris} PDB: 4ey3_A* 3t0n_A* 4eyk_A*	Back alignment and structure

>3lkb_A Probable branched-chain amino acid ABC transporter, amino acid binding protein; branched amino acid, PSI-II, NYSGXRC, structural genomics; 2.40A {Thermus thermophilus}	Back alignment and structure

>1pea_A Amidase operon; gene regulator, receptor, binding protein; 2.10A {Pseudomonas aeruginosa} SCOP: c.93.1.1 PDB: 1qo0_A 1qnl_A	Back alignment and structure

>3i09_A Periplasmic branched-chain amino acid-binding Pro; type I periplasmic binding protein, structural genomics, JOI for structural genomics; HET: MSE CIT; 1.80A {Burkholderia mallei}	Back alignment and structure

>3eaf_A ABC transporter, substrate binding protein; PSI2, NYSGXRC, substrate binding P structural genomics, protein structure initiative; 2.00A {Aeropyrum pernix}	Back alignment and structure

>4gnr_A ABC transporter substrate-binding protein-branche amino acid transport; amino acid-binding protein, surface-exposed protein; HET: MLY; 1.00A {Streptococcus pneumoniae}	Back alignment and structure

>4f06_A Extracellular ligand-binding receptor; PSI-biology, MCSG, midwest center for structural genomics, transporter; HET: MSE PHB; 1.30A {Rhodopseudomonas palustris} PDB: 4evs_A*	Back alignment and structure

>3n0w_A ABC branched chain amino acid family transporter, periplasmic ligand binding protein...; receptor family ligand binding region; HET: MSE; 1.88A {Burkholderia xenovorans}	Back alignment and structure

>3sg0_A Extracellular ligand-binding receptor; structural genomics, PSI-biology; HET: 173; 1.20A {Rhodopseudomonas palustris} PDB: 4dqd_A*	Back alignment and structure

>2x26_A Periplasmic aliphatic sulphonates-binding protein; transport protein; 1.75A {Escherichia coli}	Back alignment and structure

>3lop_A Substrate binding periplasmic protein; protein structure initiative II(PSI II), NYSGXRC, structural genomics; 1.55A {Ralstonia solanacearum}	Back alignment and structure

>3uif_A Sulfonate ABC transporter, periplasmic sulfonate- protein SSUA; structural genomics; 2.60A {Methylobacillus flagellatus}	Back alignment and structure

>3un6_A Hypothetical protein saouhsc_00137; structural genomics, center for structural genomics of infec diseases, csgid; 2.01A {Staphylococcus aureus subsp}	Back alignment and structure

>3ksx_A Nitrate transport protein; SSUA, alkanesulfonate-binding protein, periplasmic-binding P transport protein; HET: MPO; 1.70A {Xanthomonas axonopodis PV} PDB: 3e4r_A* 3ksj_A*	Back alignment and structure

>3qsl_A Putative exported protein; unknown, structural genomics, PSI-biology, midwest center FO structural genomics, MCSG, unknown function; HET: MSE CIT; 2.00A {Bordetella bronchiseptica}	Back alignment and structure

>3ix1_A N-formyl-4-amino-5-aminomethyl-2-methylpyrimidine protein; periplasmic N-formyl-4-amino-5-aminomethyl-2-methylpyrimidin protein; HET: NFM; 2.40A {Bacillus halodurans c-125}	Back alignment and structure

>2qpq_A Protein BUG27; alpha/beta domain, venus flytrap, transport protein; HET: CIT; 1.92A {Bordetella pertussis}	Back alignment and structure

>2dvz_A BUGE, putative exported protein; periplamsic binding proteins, carboxylate binding, glutamate, transport protein; HET: GLU; 2.30A {Bordetella pertussis}	Back alignment and structure

>2f5x_A BUGD; periplasmic binding protein, transport protein; 1.72A {Bordetella pertussis tohama I}	Back alignment and structure

>2k1e_A Water soluble analogue of potassium channel, KCSA; homotetramer, ION transport, ionic channel, membrane, transmembrane, transport; NMR {Escherichia coli} PDB: 2kb1_A	Back alignment and structure

>2ih3_C Voltage-gated potassium channel; ION channel D-amino acid semi-synthetic, membrane protein; HET: 1EM; 1.72A {Streptomyces lividans} PDB: 2ih1_C* 1r3j_C* 1k4d_C* 1r3i_C* 1k4c_C* 1r3k_C* 1r3l_C* 2bob_C* 2boc_C* 2hvj_C* 2hvk_C* 2itc_C 2itd_C 3gb7_C* 3iga_C* 1jvm_A 1s5h_C* 3ifx_A* 1j95_A 2jk5_C* ...	Back alignment and structure

>4ddd_A Immunogenic protein; ssgcid, structural genomics, seattle structural genomics CEN infectious disease, immune system; 1.90A {Ehrlichia chaffeensis}	Back alignment and structure

>2a9h_A Voltage-gated potassium channel; potassium channel, KCSA, structure, membrane protein, metal transport; HET: PCA; NMR {Streptomyces lividans} SCOP: f.14.1.1	Back alignment and structure

>3eff_K Voltage-gated potassium channel; FULL length KCSA, bulge helix, cell membrane, ION transport, ionic channel, membrane, transmembrane; 3.80A {Streptomyces lividans}	Back alignment and structure

>2x7q_A Ca3427, possible thiamine biosynthesis enzyme; unknown function; 2.00A {Candida albicans} PDB: 2x7p_A	Back alignment and structure

>4h33_A LMO2059 protein; bilayers, KVLM, lipidic cubic phase (LCP), pore module, ION membrane protein; HET: OLC; 3.10A {Listeria monocytogenes} PDB: 4h37_A	Back alignment and structure

>2zzv_A ABC transporter, solute-binding protein; periplasmic substrate binding protein, calcium, lactate, trap transporter, transport protein; 1.40A {Thermus thermophilus} PDB: 2zzw_A 2zzx_A	Back alignment and structure

>3ckm_A YRAM (HI1655), LPOA; periplasmic-binding protein, lipoprotein, unliganded, biosynthetic protein; 1.35A {Haemophilus influenzae} SCOP: c.93.1.1	Back alignment and structure

>4ab5_A Transcriptional regulator, LYSR family; transcription factors; 2.51A {Neisseria meningitidis serogroup B} PDB: 4ab6_A	Back alignment and structure

>2g29_A Nitrate transport protein NRTA; solute-binding protein, alpha-beta protein; 1.50A {Synechocystis SP}	Back alignment and structure

>3ldc_A Calcium-gated potassium channel MTHK; transmembrane, ION channel, open conformation, IO transport; 1.45A {Methanothermobacter thermautotrophicusorganism_taxid} PDB: 3lde_A 4hyo_A 4hz3_D 3r65_A 3ous_A 3ldd_A	Back alignment and structure

>1zbm_A Hypothetical protein AF1704; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.30A {Archaeoglobus fulgidus} SCOP: c.94.1.1	Back alignment and structure

>3ouf_A Potassium channel protein; ION channel, membrane, membrane protein; 1.55A {Bacillus cereus} PDB: 3t4z_A 3tcu_A 3t1c_A 3tet_A 3t4d_A 3t2m_A 3e86_A 3e83_A 3e89_A 3e8b_A 3e8f_A 3e8g_A 3e8h_A 3k0d_A 3k0g_A 3k06_A 3k08_A 3k04_A 3k03_A	Back alignment and structure

>2q67_A Potassium channel protein; inverted teepee, helix bundle, tetramer, central cavity, ION metal transport, membrane protein; 2.30A {Bacillus cereus} PDB: 2q68_A 2q6a_A 2q69_A 2ahy_A 2ahz_A	Back alignment and structure

>1us5_A Putative GLUR0 ligand binding core; receptor, membrane protein, glutamate receptor, L-glutamate; HET: GLU; 1.5A {Thermus thermophilus} SCOP: c.94.1.1 PDB: 1us4_A*	Back alignment and structure

>2hzl_A Trap-T family sorbitol/mannitol transporter, periplasmic binding protein, SMOM; trap transporter, periplasmic subunit, ligand binding; 1.40A {Rhodobacter sphaeroides 2} PDB: 2hzk_A	Back alignment and structure

>2pfy_A Putative exported protein; extracytoplasmic solute receptor, tripartite ATP independent periplasmic transport, pyroglutamic acid; 1.95A {Bordetella pertussis tohama I}	Back alignment and structure

>3vou_A ION transport 2 domain protein, voltage-gated SOD channel; 4-helical bundle, ION channel, membrane, transport protein; 3.20A {Bacillus weihenstephanensis}	Back alignment and structure

>2pfz_A Putative exported protein; extracytoplasmic solute receptor, tripartite ATP independent periplasmic transport, pyroglutamic acid; 1.80A {Bordetella pertussis tohama I}	Back alignment and structure

>1p7b_A Integral membrane channel and cytosolic domains; transmembrane helices, ION conduction, immunoglobulin fold, assembly; 3.65A {Burkholderia pseudomallei} SCOP: b.1.18.16 f.14.1.1 PDB: 2wll_B* 2wll_A*	Back alignment and structure

>3ho7_A OXYR; beta-alpha-barrels, DNA-binding, transcription, transcriptio regulation; 1.58A {Porphyromonas gingivalis}	Back alignment and structure

>1xl4_A Inward rectifier potassium channel; integral membrane protein, ION channel, inwardly rectifying channel, metal transport; 2.60A {Magnetospirillum magnetotacticum} SCOP: b.1.18.16 f.14.1.1 PDB: 1xl6_A* 2wlh_A 2wli_B 2wlj_A* 2wlk_A* 2wlm_A 2wlo_A 2wln_A 3zrs_A 2wli_A 2x6c_A* 2x6b_A* 2x6a_A*	Back alignment and structure

>1orq_C Potassium channel; voltage-dependent, KVAP, FAB complex, MEM protein; 3.20A {Aeropyrum pernix} SCOP: f.14.1.1 PDB: 2a0l_A	Back alignment and structure

>3jv9_A OXYR, transcriptional regulator, LYSR family; LYSR-type transcriptional regulator, LTTR, redox, structural genomics, OPPF; 2.39A {Neisseria meningitidis}	Back alignment and structure

>3oxn_A Putative transcriptional regulator, LYSR family; structural genomics, PSI-2, protein structure initiative; 2.70A {Vibrio parahaemolyticus}	Back alignment and structure

>3pjs_K KCSA, voltage-gated potassium channel; ION channel, conducts K+ IONS, cell membrane, transport PROT; 3.80A {Streptomyces lividans} PDB: 1f6g_A	Back alignment and structure

>4gx0_A TRKA domain protein; membrane protein, ION channel, ADP binding, NAD binding, MEM transport protein; HET: MAL GLC; 2.60A {Geobacter sulfurreducens} PDB: 4gx1_A* 4gx2_A* 4gx5_A 4gvl_A*	Back alignment and structure

>2esn_A Probable transcriptional regulator; PA0477, APC5828,transcription, PSI, protein struc initiative, MCSG; 2.10A {Pseudomonas aeruginosa} SCOP: a.4.5.37 c.94.1.1	Back alignment and structure

>1atg_A MODA, periplasmic molybdate-binding protein; tungstate, ABC transporter; 1.20A {Azotobacter vinelandii} SCOP: c.94.1.1	Back alignment and structure

>2i49_A Bicarbonate transporter; alpha-beta protein, C-clamp, ABC transporter, periplasmic SO binding protein, bicarbonate-binding protein; 1.35A {Synechocystis SP} PDB: 2i48_A 2i4b_A 2i4c_A	Back alignment and structure

>2y7p_A LYSR-type regulatory protein; transcription regulator, DNA-binding, transcription, transcr factor, transcription regulation; HET: SAL PEU; 1.85A {Burkholderia SP} PDB: 2y7k_A* 2y84_A 2y7w_A 2y7r_A	Back alignment and structure

>3fxq_A LYSR type regulator of TSAMBCD; transcriptional regulator, LTTR, TSAR, WHTH, DNA- transcription, transcription regulation; 1.85A {Comamonas testosteroni} PDB: 3fxr_A* 3fxu_A* 3fzj_A 3n6t_A 3n6u_A*	Back alignment and structure

>2hxr_A HTH-type transcriptional regulator CYNR; CYNR transcriptional regulator LYSR struc genomics, PSI-2, protein structure initiative; 2.05A {Escherichia coli} PDB: 3hfu_A	Back alignment and structure

>2qks_A KIR3.1-prokaryotic KIR channel chimera; G-protein gated inward rectifier, potassium channel selectivity filter, metal transport; HET: BNG; 2.20A {Burkholderia xenovorans}	Back alignment and structure

>4esw_A Pyrimidine biosynthesis enzyme THI13; thiamin pyrimidine biosynthesis, transferase; HET: CIT; 1.60A {Candida albicans} PDB: 4esx_A*	Back alignment and structure

>1lnq_A MTHK channels, potassium channel related protein; rossman fold, helix bundle, membrane protein; 3.30A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: c.2.1.9 d.286.1.1 f.14.1.1 PDB: 3rbz_A	Back alignment and structure

>3beh_A MLL3241 protein; transmembrane protein, membrane protein; HET: LDA; 3.10A {Mesorhizobium loti} PDB: 2zd9_A*	Back alignment and structure

>3r26_A Molybdate-binding periplasmic protein; protein binding; 1.70A {Escherichia coli} SCOP: c.94.1.1 PDB: 3axf_A 1amf_A 1wod_A	Back alignment and structure

>3fzv_A Probable transcriptional regulator; LYSR, structural genomics, PSI-2, structure initiative; 2.71A {Pseudomonas aeruginosa PA01}	Back alignment and structure

>1sw5_A Osmoprotection protein (PROX); binding-protein, compatible solutes, cation-PI interactions, classical hydrogen bonds, protein binding; 1.80A {Archaeoglobus fulgidus} SCOP: c.94.1.1 PDB: 1sw4_A 1sw1_A 1sw2_A 3mam_A*	Back alignment and structure

>2fyi_A HTH-type transcriptional regulator CBL; Lys-R family, cofactor-binding DO cysteine biosynthesis; 2.80A {Escherichia coli K12} SCOP: c.94.1.1	Back alignment and structure

>1i6a_A OXYR, hydrogen peroxide-inducible genes activator; OXYR regulatory domain, oxidized form, transcription; 2.30A {Escherichia coli} SCOP: c.94.1.1 PDB: 1i69_A	Back alignment and structure

>3gzg_A Molybdate-binding periplasmic protein; permease; molybdate complex, mutant K127S, metal binding protein; 1.55A {Xanthomonas axonopodis PV} PDB: 2h5y_A	Back alignment and structure

>2r9r_B Paddle chimera voltage gated potassium channel KV; voltage sensor, voltage dependent, ION CH shaker, membrane protein, eukaryotic; HET: NAP PGW; 2.40A {Rattus norvegicus} PDB: 3lnm_B* 3lut_B* 2a79_B*	Back alignment and structure

>2ql3_A Probable transcriptional regulator, LYSR family P; APC7314, rhodococcus RHA1, structural genomics, PSI-2; HET: MSE; 2.05A {Rhodococcus SP}	Back alignment and structure

>3ukm_A Potassium channel subfamily K member 1; membrane protein, eukaryotic, two-pore DO potassium channel, K2P channel, membrane; HET: UND; 3.40A {Homo sapiens}	Back alignment and structure

>2xwv_A Sialic acid-binding periplasmic protein SIAP; transport protein, trap, sugar transport; HET: SLB; 1.05A {Haemophilus influenzae} PDB: 2xxk_A* 2xa5_A* 2wyp_A* 2wx9_A* 2xwo_A* 2xwk_A* 2v4c_A* 2wyk_A* 2xwi_A* 3b50_A* 2cey_A 2cex_A	Back alignment and structure

>1uth_A LYSR-type regulatory protein; transcription regulation, transcriptional regulator; 2.2A {Burkholderia SP} SCOP: c.94.1.1 PDB: 1utb_A 1utb_B 1uth_B 2uyf_A 2uye_A	Back alignment and structure

>1xs5_A 29 kDa protein, membrane lipoprotein TPN32; periplasmic binding protein, methionine, membrane protein; 1.85A {Treponema pallidum} SCOP: c.94.1.1	Back alignment and structure

>2hpg_A ABC transporter, periplasmic substrate-binding protein; periplasmic binding protein, thermophilic proteins, trap- transport; HET: MSE; 1.90A {Thermotoga maritima}	Back alignment and structure

>1al3_A Cys regulon transcriptional activator CYSB; LYSR family, cysteine biosynthesis, transcription regulation; 1.80A {Klebsiella aerogenes} SCOP: c.94.1.1	Back alignment and structure

>1ixc_A CBNR, LYSR-type regulatory protein; long alpha helix connecting DNA binding and regulatory domai binding protein; 2.20A {Cupriavidus necator} SCOP: a.4.5.37 c.94.1.1 PDB: 1iz1_A	Back alignment and structure

>2vpn_A Periplasmic substrate binding protein; ectoine, hydroxyectoine, trap-transporter, periplasmic binding protein, transport; HET: 4CS; 1.55A {Halomonas elongata} PDB: 2vpo_A* 3gyy_A	Back alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Alignment Graph	Length	Definition	E-value
Query		681
d2a5sa1		277	c.94.1.1 (A:7-142,A:145-285) N-methyl-D-aspartate	4e-11
d2a5sa1		277	c.94.1.1 (A:7-142,A:145-285) N-methyl-D-aspartate	1e-06
d1jdpa_		401	c.93.1.1 (A:) Hormone binding domain of the atrial	7e-11
d1dp4a_		425	c.93.1.1 (A:) Hormone binding domain of the atrial	2e-10
d1pb7a_		289	c.94.1.1 (A:) N-methyl-D-aspartate receptor subuni	2e-10
d1pb7a_		289	c.94.1.1 (A:) N-methyl-D-aspartate receptor subuni	2e-07
d1mqia_		260	c.94.1.1 (A:) Glutamate receptor ligand binding co	2e-10
d1mqia_		260	c.94.1.1 (A:) Glutamate receptor ligand binding co	2e-07
d1ewka_		477	c.93.1.1 (A:) Metabotropic glutamate receptor subt	1e-06
d2f34a1		246	c.94.1.1 (A:5-116,A:119-252) Glutamate receptor li	5e-06
d2f34a1		246	c.94.1.1 (A:5-116,A:119-252) Glutamate receptor li	0.001
d1ii5a_		226	c.94.1.1 (A:) Glutamate receptor ligand binding co	8e-05
d1usga_		346	c.93.1.1 (A:) Leucine-binding protein {Escherichia	0.001

>d2a5sa1 c.94.1.1 (A:7-142,A:145-285) N-methyl-D-aspartate receptor subunit 1 {Rat (Rattus norvegicus), subtype 2A [TaxId: 10116]} Length = 277	Back information, alignment and structure


class: Alpha and beta proteins (a/b)
fold: Periplasmic binding protein-like II
superfamily: Periplasmic binding protein-like II
family: Phosphate binding protein-like
domain: N-methyl-D-aspartate receptor subunit 1
species: Rat (Rattus norvegicus), subtype 2A [TaxId: 10116]

 Score = 62.0 bits (149), Expect = 4e-11
 Identities = 29/130 (22%), Positives = 55/130 (42%), Gaps = 7/130 (5%)

Query: 197 LKIGVPVREGFTEFIKVVENKNKTTQVSGFCYDMFHAVLQVLEFPLPYEFVPF------H 250
           ++  VP R+         E  N      GFC D+   + + ++F      V         
Sbjct: 27  VRNTVPCRKFVKINNSTNEGMNVKKCCKGFCIDILKKLSRTVKFTYDLYLVTNGKHGKKV 86

Query: 251 DGSFDELLHKIEKQEFDTAVGDTTIVANRSTFVDFTLPYSESGVSMLVLVKDDERKNFWI 310
           +  ++ ++ ++  Q    AVG  TI   RS  VDF++P+ E+G+S++V  +     +   
Sbjct: 87  NNVWNGMIGEVVYQRAVMAVGSLTINEERSEVVDFSVPFVETGISVMV-SRQVTGLSDKK 145

Query: 311 FLKPLSWDLW 320
           F +P  +   
Sbjct: 146 FQRPHDYSPP 155

PyMOL of d2a5sa1

>d2a5sa1 c.94.1.1 (A:7-142,A:145-285) N-methyl-D-aspartate receptor subunit 1 {Rat (Rattus norvegicus), subtype 2A [TaxId: 10116]} Length = 277	Back information, alignment and structure

>d1jdpa_ c.93.1.1 (A:) Hormone binding domain of the atrial natriuretic peptide receptor {Human (Homo sapiens) [TaxId: 9606]} Length = 401	Back information, alignment and structure

>d1dp4a_ c.93.1.1 (A:) Hormone binding domain of the atrial natriuretic peptide receptor {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 425	Back information, alignment and structure

>d1pb7a_ c.94.1.1 (A:) N-methyl-D-aspartate receptor subunit 1 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 289	Back information, alignment and structure

>d1pb7a_ c.94.1.1 (A:) N-methyl-D-aspartate receptor subunit 1 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 289	Back information, alignment and structure

>d1mqia_ c.94.1.1 (A:) Glutamate receptor ligand binding core {Rat (Rattus norvegicus), GluR2 [TaxId: 10116]} Length = 260	Back information, alignment and structure

>d1mqia_ c.94.1.1 (A:) Glutamate receptor ligand binding core {Rat (Rattus norvegicus), GluR2 [TaxId: 10116]} Length = 260	Back information, alignment and structure

>d1ewka_ c.93.1.1 (A:) Metabotropic glutamate receptor subtype 1 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 477	Back information, alignment and structure

>d2f34a1 c.94.1.1 (A:5-116,A:119-252) Glutamate receptor ligand binding core {Rat (Rattus norvegicus), GluR5 [TaxId: 10116]} Length = 246	Back information, alignment and structure

>d2f34a1 c.94.1.1 (A:5-116,A:119-252) Glutamate receptor ligand binding core {Rat (Rattus norvegicus), GluR5 [TaxId: 10116]} Length = 246	Back information, alignment and structure

>d1ii5a_ c.94.1.1 (A:) Glutamate receptor ligand binding core {Synechocystis sp., GluR0 [TaxId: 1143]} Length = 226	Back information, alignment and structure

>d1usga_ c.93.1.1 (A:) Leucine-binding protein {Escherichia coli [TaxId: 562]} Length = 346	Back information, alignment and structure

Homologous Domains Detected by HHsearch

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

ID	Alignment Graph	Length	Definition	Probability
Query		681
d2a5sa1		277	N-methyl-D-aspartate receptor subunit 1 {Rat (Ratt	99.95
d1pb7a_		289	N-methyl-D-aspartate receptor subunit 1 {Rat (Ratt	99.94
d1mqia_		260	Glutamate receptor ligand binding core {Rat (Rattu	99.92
d1ii5a_		226	Glutamate receptor ligand binding core {Synechocys	99.91
d1wdna_		223	Glutamine-binding protein {Escherichia coli [TaxId	99.91
d1xt8a1		248	Putative amino-acid transporter CjaA {Campylobacte	99.88
d1lsta_		238	Lysine-,arginine-,ornithine-binding (LAO) protein	99.86
d2f34a1		246	Glutamate receptor ligand binding core {Rat (Rattu	99.86
d1dp4a_		425	Hormone binding domain of the atrial natriuretic p	99.58
d1jdpa_		401	Hormone binding domain of the atrial natriuretic p	99.39
d1ewka_		477	Metabotropic glutamate receptor subtype 1 {Rat (Ra	99.36
d1usga_		346	Leucine-binding protein {Escherichia coli [TaxId:	98.5
d2ozza1		228	Hypothetical protein YhfZ {Shigella flexneri [TaxI	98.02
d1qo0a_		373	Amide receptor/negative regulator of the amidase o	97.97
d1r3jc_		103	Potassium channel protein {Streptomyces coelicolor	96.98
d1xl4a2		116	Inward rectifier potassium channel kirbac3.1 {Magn	95.72
d3ckma1		317	YraM C-terminal domain {Haemophilus influenzae [Ta	95.5
d2fyia1		220	LysR-type regulatory protein Cbl {Escherichia coli	93.91
d1p7ba2		116	Inward rectifier potassium channel Kirbac1.1 {Burk	93.88
d1al3a_		237	Cofactor-binding fragment of LysR-type protein Cys	93.85
d1xs5a_		240	Putative lipoprotein (NlpA family) {Treponema pall	88.97
d2esna2		212	Probable LysR-type transcriptional regulator PA047	88.87
d1us5a_		298	Putative GluR0 ligand binding core {Thermus thermo	83.46
d1lnqa2		80	Potassium channel-related protein MthK {Archaeon M	82.75

>d2a5sa1 c.94.1.1 (A:7-142,A:145-285) N-methyl-D-aspartate receptor subunit 1 {Rat (Rattus norvegicus), subtype 2A [TaxId: 10116]}	Back information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: Periplasmic binding protein-like II
superfamily: Periplasmic binding protein-like II
family: Phosphate binding protein-like
domain: N-methyl-D-aspartate receptor subunit 1
species: Rat (Rattus norvegicus), subtype 2A [TaxId: 10116]

Probab=99.95  E-value=5.8e-29  Score=253.14  Aligned_cols=236  Identities=23%  Similarity=0.364  Sum_probs=186.5

Q ss_pred             eEEEEeeccCCccceEEEeecC--------------------------CCCeeEEeehHHHHHHHHHHcCCCcCeEEEeC
Q 005717          196 KLKIGVPVREGFTEFIKVVENK--------------------------NKTTQVSGFCYDMFHAVLQVLEFPLPYEFVPF  249 (681)
Q Consensus       196 ~lrV~v~~~~p~~~~~~~~~~~--------------------------~~~~~~~G~~idll~~l~~~l~f~~~~~~v~~  249 (681)
                      ||||+|..++||......  +|                          +...+++|||+||+++|+++|||+++++.+++
T Consensus         2 hl~v~t~~~~Pfv~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~iDl~~~ia~~lg~~~e~~~v~~   79 (277)
T d2a5sa1           2 HLSIVTLEEAPFVIVEDI--DPLTETCVRNTVPCRKFVKINNSTNEGMNVKKCCKGFCIDILKKLSRTVKFTYDLYLVTN   79 (277)
T ss_dssp             CEEEEECCBTTTBEEEEC--CCC-CCCCTTCEEEEEEEESSSSSSCEEEEEEEEESHHHHHHHHHHHHHTCCEEEEECCS
T ss_pred             ceEEEEEecCCeEEEecc--CcccCcccCCCcccceecccccCCCCCcccccceeeeHHHHHHHHHHHhCCCEEEEEccC
Confidence            799999999888643321  11                          22457899999999999999998877776665


Q ss_pred             CC------CCHHHHHHHHHhCccceEEEeEEEeeccccccccccceeecceEEEEEeccCCCcCceeeeccCcHhHHHHH
Q 005717          250 HD------GSFDELLHKIEKQEFDTAVGDTTIVANRSTFVDFTLPYSESGVSMLVLVKDDERKNFWIFLKPLSWDLWLTT  323 (681)
Q Consensus       250 ~~------g~~~gli~~l~~g~~Dia~~~~~it~~R~~~vdFT~P~~~~~~~~vv~~~~~~~~~~~~fl~PF~~~vW~~i  323 (681)
                      +.      ++|++++.+|.+|++|++++++++|++|.+.++||.||+..+++++++++.... +.+.|+.|         
T Consensus        80 ~~~g~~~~~~w~~~l~~l~~g~~Di~i~~~tit~eR~~~v~Fs~Py~~~~~~ilv~k~~~~~-~~~~~~~~---------  149 (277)
T d2a5sa1          80 GKHGKKVNNVWNGMIGEVVYQRAVMAVGSLTINEERSEVVDFSVPFVETGISVMVSRQVTGL-SDKKFQRP---------  149 (277)
T ss_dssp             SSSCCEETTEECHHHHHHHTTSCSEECSSCBCCHHHHTTEEECCCCEEECEEEEEETCCCST-TSHHHHSG---------
T ss_pred             CCcCccCCCCHHHHHhhhhcccEEEEEEccEeehhhhhhhcccCCceecceEEEEecCcccC-ChhHhcCc---------
Confidence            32      679999999999999999999999999999999999999999999999775322 11122111         


Q ss_pred             HHHHHHHHHHhhhhhcccCCCCCCCCCCchhhHHHHHHHHHhccCcccccccchhHHHHHHHHHHHHHHhHhhhhhhhee
Q 005717          324 GAAFIFTGLVVWVLEHRINTEFRGPPQHQIGTIFWFSFSTLVFAHRERVVNNLSRFVLIIWVFVVLILTQSYTASLTSML  403 (681)
Q Consensus       324 ~~~~~~v~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~l~~~w~~~~lil~s~YtA~L~s~L  403 (681)
                                                                                                      
T Consensus       150 --------------------------------------------------------------------------------  149 (277)
T d2a5sa1         150 --------------------------------------------------------------------------------  149 (277)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             --------------------------------------------------------------------------------
Confidence                                                                                            


Q ss_pred             eecccCCCCCCHHHHHhCCCeEEEecChhHHHHHhhhcCCcc----ccccccCChhHHHHHHccCcceEEecchhhHHHH
Q 005717          404 TVQRLQPSFTDVKDIQKNGYFVGYQTNSFVKDLLTKKLNFNE----TRLKNYTTSEDYHDALSNGEVAAIFDEIPYIKIF  479 (681)
Q Consensus       404 T~~~~~~~i~s~~dL~~~~~~vg~~~~s~~~~~l~~~~~~~~----~~~~~~~~~~~~~~~l~~g~~~a~i~e~~~~~~~  479 (681)
                                  .|+. .+.++|+..++....++.+.  ++.    .....+.+.++++++|.+|++||++.+.+.+.|+
T Consensus       150 ------------~~~~-~~~~~g~v~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~G~~Da~i~d~~~~~y~  214 (277)
T d2a5sa1         150 ------------HDYS-PPFRFGTVPNGSTERNIRNN--YPYMHQYMTRFNQRGVEDALVSLKTGKLDAFIYDAAVLNYK  214 (277)
T ss_dssp             ------------GGSS-SCCCEECCTTSHHHHHHHTT--CHHHHHHHGGGCCSSHHHHHHHHHTTSCSEEEEEHHHHHHH
T ss_pred             ------------cccc-hheeeeccchhhHHHHHHHh--hhhhcceEEEecCCCHHHHHHHHHcCCcceecccHHHHHHH
Confidence                        1111 13468888888888888332  221    1234567889999999999999999999999999


Q ss_pred             Hhhc--CCceEEECc--ccccCCcEEEecCCCCChHHHHHHHHhhccCccHHHHHHHHHcCCCCCC
Q 005717          480 LASY--CSRYMMVGP--TYRTDGFGFAFPLGSPLVPYISRAILKVTEDKEKMENIEKALGNQATCE  541 (681)
Q Consensus       480 ~~~~--c~~l~~v~~--~~~~~~~~~~~~k~spl~~~in~~Il~l~e~~G~l~~i~~kw~~~~~c~  541 (681)
                      .+++  | ++..++.  .+...+|||++||||||++.||++|.+++++ |.+++|.+|||+ +.|.
T Consensus       215 ~~~~~~~-~l~~~~~~~~~~~~~ygia~~k~s~l~~~in~al~~l~~~-G~~~~L~~KW~~-g~~~  277 (277)
T d2a5sa1         215 AGRDEGC-KLVTIGSGYIFATTGYGIALQKGSPWKRQIDLALLQFVGD-GEMEELETLWLT-GICH  277 (277)
T ss_dssp             HHTCTTS-CEEEEECCCGGGCEEECCEEETTCTTHHHHHHHHHHHHHH-THHHHHHHHHTC-CCCC
T ss_pred             HhhCCCC-cEEEecCCCCcCcceEEEEEeCChHHHHHHHHHHHHHHHC-CHHHHHHhhhcC-CCCC
Confidence            8876  7 6766643  5677889999999999999999999999999 999999999995 6663

PyMOL of d2a5sa1

>d1pb7a_ c.94.1.1 (A:) N-methyl-D-aspartate receptor subunit 1 {Rat (Rattus norvegicus) [TaxId: 10116]}	Back information, alignment and structure

>d1mqia_ c.94.1.1 (A:) Glutamate receptor ligand binding core {Rat (Rattus norvegicus), GluR2 [TaxId: 10116]}	Back information, alignment and structure

>d1ii5a_ c.94.1.1 (A:) Glutamate receptor ligand binding core {Synechocystis sp., GluR0 [TaxId: 1143]}	Back information, alignment and structure

>d1wdna_ c.94.1.1 (A:) Glutamine-binding protein {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d1xt8a1 c.94.1.1 (A:10-257) Putative amino-acid transporter CjaA {Campylobacter jejuni [TaxId: 197]}	Back information, alignment and structure

>d1lsta_ c.94.1.1 (A:) Lysine-,arginine-,ornithine-binding (LAO) protein {Salmonella typhimurium [TaxId: 90371]}	Back information, alignment and structure

>d2f34a1 c.94.1.1 (A:5-116,A:119-252) Glutamate receptor ligand binding core {Rat (Rattus norvegicus), GluR5 [TaxId: 10116]}	Back information, alignment and structure

>d1dp4a_ c.93.1.1 (A:) Hormone binding domain of the atrial natriuretic peptide receptor {Rat (Rattus norvegicus) [TaxId: 10116]}	Back information, alignment and structure

>d1jdpa_ c.93.1.1 (A:) Hormone binding domain of the atrial natriuretic peptide receptor {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1ewka_ c.93.1.1 (A:) Metabotropic glutamate receptor subtype 1 {Rat (Rattus norvegicus) [TaxId: 10116]}	Back information, alignment and structure

>d1usga_ c.93.1.1 (A:) Leucine-binding protein {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d2ozza1 c.94.1.1 (A:1-228) Hypothetical protein YhfZ {Shigella flexneri [TaxId: 623]}	Back information, alignment and structure

>d1qo0a_ c.93.1.1 (A:) Amide receptor/negative regulator of the amidase operon (AmiC) {Pseudomonas aeruginosa [TaxId: 287]}	Back information, alignment and structure

>d1r3jc_ f.14.1.1 (C:) Potassium channel protein {Streptomyces coelicolor [TaxId: 1902]}	Back information, alignment and structure

>d1xl4a2 f.14.1.1 (A:23-138) Inward rectifier potassium channel kirbac3.1 {Magnetospirillum magnetotacticum [TaxId: 188]}	Back information, alignment and structure

>d3ckma1 c.93.1.1 (A:257-573) YraM C-terminal domain {Haemophilus influenzae [TaxId: 727]}	Back information, alignment and structure

>d2fyia1 c.94.1.1 (A:88-307) LysR-type regulatory protein Cbl {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d1p7ba2 f.14.1.1 (A:36-151) Inward rectifier potassium channel Kirbac1.1 {Burkholderia pseudomallei [TaxId: 28450]}	Back information, alignment and structure

>d1al3a_ c.94.1.1 (A:) Cofactor-binding fragment of LysR-type protein CysB {Klebsiella aerogenes [TaxId: 28451]}	Back information, alignment and structure

>d1xs5a_ c.94.1.1 (A:) Putative lipoprotein (NlpA family) {Treponema pallidum [TaxId: 160]}	Back information, alignment and structure

>d2esna2 c.94.1.1 (A:92-303) Probable LysR-type transcriptional regulator PA0477 {Pseudomonas aeruginosa [TaxId: 287]}	Back information, alignment and structure

>d1us5a_ c.94.1.1 (A:) Putative GluR0 ligand binding core {Thermus thermophilus [TaxId: 274]}	Back information, alignment and structure

>d1lnqa2 f.14.1.1 (A:19-98) Potassium channel-related protein MthK {Archaeon Methanothermobacter thermautotrophicus [TaxId: 145262]}	Back information, alignment and structure