1LBC,3DP6,3FAT,3O28,3O29,3PD8,3PD9,1FTJ,1FW0,1GR2,1LB8,1LBB,1M5D,1MQD,1MQH,1P1N,1P1W,1SYH,1SYI,2ANJ,2GFE,2I3V,2I3W,2XHD,2XX7,3B6T,3B6W,3B7D,3DP4,3FAS,3H6T,3KG2


Conserved Protein Domain Family
PBP2_iGluR_AMPA

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cd13715: PBP2_iGluR_AMPA 
Click on image for an interactive view with Cn3D
The ligand-binding domain of the AMPA (alpha-amino-3-hydroxyl-5-methyl-4-isoxazolepropionic acid) subtypes of ionotropic glutamate receptors, a member of the type 2 periplasmic binding fold protein superfamily.
This family represents the ligand-binding domain of the AMPA receptor subunits, a member of non-NMDA (N-methyl-D-aspartate) type iGluRs which are ligand-gated ion channels that mediate excitatory synaptic transmission in the central nervous system. While this ligand-binding domain is structurally homologous to the periplasmic-binding fold type II superfamily, the N-terminal domain of AMPA receptors belongs to the periplasmic-binding fold type I. They consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current.
Statistics
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PSSM-Id: 270433
Aligned: 85 rows
Threshold Bit Score: 443.336
Created: 14-Nov-2007
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site includes 13 residues -Click on image for an interactive view with Cn3D
Feature 1:peptide binding site [polypeptide binding site]
Evidence:
  • Structure:1LBC; Rattus novegitus Glur2 ligand-binding core in complexes with glutamate, contacts 4 A.
    View structure with Cn3D
  • Structure:3FAT; Rattus norvegicus iGluR6 ligand-binding core in complexes with AMPA, contacts at 4 A
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                                                     #                  
1LBC_A         3 NKTVVVTTILESPYVMMKknhem---legnERYEGYCVDLAAEIAKHCGFKYKLTIVGdgkYGARDad-tKIWNGMVGEL 78   Norway rat
P26591       424 NRTRIVTTIIKEPYVMVNnvirdgkplvgnEPVEGFCIDLTKAVAEKVGFDFVIQFVKdgsYGSVLs--nGTWDGIVGEL 501  great pond snail
AAB20422     424 NRTRIVTTIIKEPYVMVNnvirdgkplvgnEPVEGFCIDLTKAVAEKVGFDFVIQFVKdgsYGSVLs--nGTWDGIVGEL 501  great pond snail
CAB65182     436 NRTRIVTTIQTPPYIMKKpkpidghplignDKYEGYCVDLARKVAHEVGFDYVFQMVKdgaYGSKLa--nDSWNGMVGEL 513  Loligo opalescens
AAP41205     425 NRTRIVVTIIKEPYVMWKgapkngeplvavEHLEGFCIDLTKAVAEKVGFDYAIRFVKdgsYGSVLs--nGSWDGIVGEL 502  California sea...
AAP41206     423 NRTRIVTSIDEEPYLMKVvapiqglpvtgrHRFEGYCSDLAELVAENVGYDYHIRFVKdgeYGKKEp--dGTWNGVIGEL 500  California sea...
ABB03887     423 NRTRIVTSIDEEPYLMKVvapiqglpvtgrHRFEGYCSDLAELVAENVGYDYHIRFVKdgeYGKKEp--dGTWNGVIGEL 500  California sea...
ABB03888     408 NRTRIVVTIIKEPYVMWKgapkngeplvavEHLEGFCIDLTKAVAEKVGFDYAIRFVKdgsYGSVLs--nGSWDGIVGEL 485  California sea...
EEC02286     264 NKTYIVTSILEEPYLMFKkpepgq-vlvgnDQFEGYCKDLADLVAEHIRITYVLKLVNdskYGGRDvnspAGWNGMVGEL 342  black-legged tick
XP_002409162 264 NKTYIVTSILEEPYLMFKkpepgq-vlvgnDQFEGYCKDLADLVAEHIRITYVLKLVNdskYGGRDvnspAGWNGMVGEL 342  black-legged tick
Feature 1                  ###    #                                                              
1LBC_A        79 VYGKADIAIAPLTITLVREEVIDFSKPFMSLGISIMIKKGT--------------------------------------- 119  Norway rat
P26591       502 IRHEADMAIAPFTITADRSRVIDFTKPFMSLGISIMIKRPQpagkhffsfmeplsseiwmcivfayigvsvvlflvsrfs 581  great pond snail
AAB20422     502 IRHEADMAIAPFTITADRSRVIDFTKPFMSLGISIMIKRPQpagkhffsfmeplsseiwmcivfayigvsvvlflvsrfs 581  great pond snail
CAB65182     514 IRLEADMAIAPLTISAVRERVIDFSKPFMSLGISIMIKKPAdqkahvfsfldplsyeiwmcilfafigvsvvlflvsrfs 593  Loligo opalescens
AAP41205     503 IAHEAHMAIAPFTITADRSRVIDFTKPFMSLGISIMIKRPQpagkhffsfmeplsyeiwmcivfayigvsvvlflvsrfs 582  California sea...
AAP41206     501 TRHEADIAIAPLTITSDREKVLDFTKPFMSLGISLMIKKPVdtdphvfsfmqplsreiwlctvfafigvsvvlflvsrfs 580  California sea...
ABB03887     501 TRHEADIAIAPLTITSDREKVLDFTKPFMSLGISLMIKKPVdtdphvfsfmqplsreiwlctvfafigvsvvlflvsrfs 580  California sea...
ABB03888     486 IAHEAHMAIAPFTITADRSRVIDFTKPFMSLGISIMIKRPQpagkhffsfmdplsyeiwmcivxayigvsvvlflvsrfs 565  California sea...
EEC02286     343 IRQEADMAIAPLTITSARERVIDFTKPFMSLGISIMIKKPMkmkpgvfsfmnplsreiwmciifayvgvsvvlflvsrfs 422  black-legged tick
XP_002409162 343 IRQEADMAIAPLTITSARERVIDFTKPFMSLGISIMIKKPMkmkpgvfsfmnplsreiwmciifayvgvsvvlflvsrfs 422  black-legged tick
Feature 1                                                                                        
1LBC_A       120 -------------------------------------------------------------------------------P 120  Norway rat
P26591       582 pnewhlseahhsyiandfsi-snslwfslgafmqqgcdisprsmsgrivgsvwwfftliiissytanlaafltvermltP 660  great pond snail
AAB20422     582 pnewhlseahhsyiandfsi-snslwfslgafmqqgcdisprsmsgrivgsvwwfftliiissytanlaafltvermltP 660  great pond snail
CAB65182     594 psgwhvedesnitndftis---nslwfslgafmqqgcdfsprsisgrivgsvwwfftliiissytanlaafltvermstP 670  Loligo opalescens
AAP41205     583 pnewhlsetehsiandfsi--snslwfslgafmqqgcdisprsmsgrivgsvwwfftliiissytanlaafltvermltP 660  California sea...
AAP41206     581 seewqldsdsklendftig---nslwfslgafmqqgcdvlpksvsgrivtsvwwfftliiissytanlaaflttmrmsgS 657  California sea...
ABB03887     581 seewqldsdsklendftig---nslwfslgafmqqgcdvlpksvsgrivtsvwwfftliiissytanlaaflttmrmsgS 657  California sea...
ABB03888     566 pnewhlsetehsiandfsi--snslwfslgafmqqgcdisprsmsgrivgsvwwfftliiissytanlaafltvermltP 643  California sea...
EEC02286     423 phewryeetfvgpsvsndfslynslwfslgafmqqgcdicprsvagrivgsvwwfftliiissytanlaafltvermvtP 502  black-legged tick
XP_002409162 423 phewryeetfvgpsvsndfslynslwfslgafmqqgcdicprsvagrivgsvwwfftliiissytanlaafltvermvtP 502  black-legged tick
Feature 1                         #  ###                                                ##  #    
1LBC_A       121 IESAEDLSKqteIAYGTLDSGSTKEFFRrskiAVFDKMWTYMRsaepSVFVRTTAEGVARVRKSkgkYAYLLESTMNEYI 200  Norway rat
P26591       661 IDSAEDLARqteIQYGTIMSGSTKAFFKnsqfQTYQRMWAYMTsaqpSVFVKTHEEGIQRVRQSngkYAYLTESSTIDYV 740  great pond snail
AAB20422     661 IDSAEDLARqteIQYGTIMSGSTKAFFKnsqfQTYQRMWAYMTsaqpSVFVKTHEEGIQRVRQSngkYAYLTESSTIDYV 740  great pond snail
CAB65182     671 IESAEDLAKqteIEYGTLRSGTTEAFFKtskvAVYERMWAYMTsktpSVFTDKIQDGITSVRDSngkYAFLVESSTNDYI 750  Loligo opalescens
AAP41205     661 IDSAEDLARqtdIQYGTIISGSTRAFFQnsefQTYKRMWAYMTsaqpNVFVQKHEDGIARVRDSggkYAYLTESTTIEYV 740  California sea...
AAP41206     658 IRSAEDLVKqteIKYGPYRGGSTYMFFNqttvSLYQRMWSFMTsq-pDVFVENNDKGIDRVRDShgkYVFLIESTLNEYY 736  California sea...
ABB03887     658 IRSAEDLVKqteIKYGPYRGGSTYMFFNqttvSLYQRMWSFMTsq-pDVFVENNDKGIDRVRDShgkYVFLIESTLNEYY 736  California sea...
ABB03888     644 IDSAEDLARqtdIQYGTIISGSTRAFFQnsefQTYKRMWAYMTsaqpNVFVQKHEDGIARVRDSggkYAYLTESTTIEYV 723  California sea...
EEC02286     503 INSADDLAKqteVEYGTLSFSSTQEFFRrskiAVYARMWEFMNtr-kHVFTSTYEEGIRRVRESkgkYAFLMESTKNDYI 581  black-legged tick
XP_002409162 503 INSADDLAKqteVEYGTLSFSSTQEFFRrskiAVYARMWEFMNtr-kHVFTSTYEEGIRRVRESkgkYAFLMESTKNDYI 581  black-legged tick
Feature 1                           #                                         
1LBC_A       201 EQRkpCDTMKVGgnLDSKGYGIATPKGSSLGNAVNLAVLKLSEQGLLDKLKNKWWYdkGEC 261  Norway rat
P26591       741 SNRkpCDTLKVGsnLNSDGFGIGTPVGSDLRDKLNFSVLELRENGDLAKWEKIWFDr-GEC 800  great pond snail
AAB20422     741 SNRkpCDTLKVGsnLNSDGFGIGTPVGSDLRDKLNFAVLELRENGDLAKWEKIWFDr-GEC 800  great pond snail
CAB65182     751 NNRlpCDTMKVGsnLDSKGFGIATPAGSDLGDKLTLAVLKLREDGELDKLQKFWWVgkGQC 811  Loligo opalescens
AAP41205     741 SSRkpCDTLKVGnnLNSDGFGIGTPLGSDLKNKLNFAVLELRENGDLAKWEKHWFDq-GDC 800  California sea hare
AAP41206     737 SSRypCNTMKAGsnLDSKGYGIATPMGSDIRDKLTLAILQLREDGVLDELKKTWWVekSQC 797  California sea hare
ABB03887     737 SSRypCNTMKAGsnLNSKGYGIATPMGSDIRDKLTLAILQLREDGVLDELKKTWWVekSQC 797  California sea hare
ABB03888     724 SSRkpCDTLKVGnnLNSDGFGIGTPLGSDLKNKLNFAVFELRENGDLAKWEKHWFDq-GDC 783  California sea hare
EEC02286     582 NERhpCDTMKVGrnLDAKGYGVATPLGSNLRDRLNLAVLSMKENGDLARLENKWWYdrSEC 642  black-legged tick
XP_002409162 582 NERhpCDTMKVGrnLDAKGYGVATPLGSNLRDRLNLAVLSMKENGDLARLENKWWYdrSEC 642  black-legged tick

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