Conserved Protein Domain Family
PBP1_iGluR_AMPA

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cd06380: PBP1_iGluR_AMPA 
N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA receptor
N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor, a member of the glutamate-receptor ion channels (iGluRs). AMPA receptors are the major mediators of excitatory synaptic transmission in the central nervous system. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excitatory synaptic current.
Statistics
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PSSM-Id: 107375
View PSSM: cd06380
Aligned: 24 rows
Threshold Bit Score: 369.717
Threshold Setting Gi: 33860153
Created: 17-May-2007
Updated: 17-Jan-2013
Structure
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Aligned Rows:
 
putative
Feature 1:putative dimerization interface [polypeptide binding site]
Evidence:
  • Comment:based on sequence similarity to mGluR

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                       
gi 77416864  35 SIGGLFmrn----------------tvQEHSAFRFAVQLYNTnqntt----------------ekpfhLNYHVDHld--- 79
gi 121438    25 PIGGIFdsr----------------svQALTAFRHEIHMFNRayshv-----------------yrykLKNDTTIld--- 68
gi 29429176  10 MFGVLFtvfnl------------tvvqPYPSHIIIKSFGNNEevsrvalkameytsdhinsrddvpfkLAFDHRVvee-- 75
gi 29823896  38 SIGSVFdve----------------seKIQTAFRFAVDRFNTiens------------------aqlkLNPLREEid--- 80
gi 31074377  12 LSGQFVtlakrkacrpqswrtrcsgrrPYAQAFDFASTVMNNnllnerr------------pgrdrtvLFPITKNftd-- 77
gi 31074379  23 PIGIIVdvd----------------erDVITILKRMIARHNSeqtss-----------------nhiiISPSWYIan--- 66
gi 31074385  39 PIGTLFnmd---------------aepVSRSALMYAISTNNElrkg------------------gkgiTFNMLSDdvd-- 83
gi 33860153   7 VFGFLIfvki--------------getSKKFPLRAFVASTDIdndta----------------haiieMLRLAEMtfnal 56
gi 68067727  41 PLGAIFeqg----------------tdDVQSAFKYAMLNHNLnvss------------------rrfeLQAYVDVin--- 83
gi 77812626  30 PIGLIFdersp------------tlerSVLQHLREHSDNNNYf------------------------tLETQVHRld--- 70
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                              # ##  ##                             #                   
gi 77416864  80 -------------------ssNSFSVTNAFCSQFSr-GVYAIFGFYdqmsmntltsFCGALHTSFVTPSFptd------- 132
gi 121438    69 -------------------vtDSFAVSNALCHHLSr-GDLAIFGVSnasslatiqsYTDTFNVPFVTISMaqnn-----s 123
gi 29429176  76 ------------------gaaVSWNMVNAVCDELKe-GAMALLSSVdgkgregirgVSDALEMPLVSLTAlsnddhqqqq 136
gi 29823896  81 -------------------dtDSFSLGNALCSIMSk-GVFAVFGKAnssmlatvksYSDTFQIPYLTTSMamnt-----t 135
gi 31074377  78 -------------------lsDNYKLGGAICSMVNk-GVLLIVGTSrdssfntiqsYCQALQVPYILASPsrphl----f 133
gi 31074379  67 -------------------inNNCDLIRAICQRLDa-GVFLLLGSSssrsyniiqsYSHALHVPYVVYSQnvnqp----r 122
gi 31074385  84 -------------------idSNFAVTSKLCAQMSs-GIFVMYGSTsqstfktlqaYSAKFNMPFITPDLsgtih----k 139
gi 33860153  57 sdvdfdvllgtrdlppmematMMWNLNRIICDEMKlgYMLMLAGTNfknyg-iyedIANHMKMPLIDWEPsksenigktt 135
gi 68067727  84 -------------------taDAFKLSRLICNQFSr-GVYSMLGAVspdsfdtlhsYSNTFQMPFVTPWFpekvla-pss 142
gi 77812626  71 -------------------tsDSYNVSRALCSLLSg-GAVTIIGDIrpqaldtvidYADDTQIPFIFLNNpadpkr-wsd 129
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                    #  #                    # #        
gi 77416864 133 advQFVIQMRPALKGAILSLLGhy--kWEKFVYLYDTErgFSILQAIMEAAVQNn-------wQVTARSVGNIkdvqeFR 203
gi 121438   124 hngSYQIYMRPMYINALVDVIVhy--rWEKVAFYYDSDegLVRLQQLFQATNKYdkm----iiSIDTKRITSVengyhML 197
gi 29429176 137 fgnLFEVSVRPPISELLADFIVhk--gWGEVLVLIDPVhaSLHLPSLWRHLRTRtn------tSVKASMFDLPadekqFE 208
gi 29823896 136 dqsPYMLFLRPINIRAIVDLIEhl--gWRVVHYIYISNegLMRVQQLFQVMGKSdl-----qmTLNVKRASDVnssyvIL 208
gi 31074377 134 sgyHFDISLTPPYISAVMKVLAnmtssSNKVFYVYDSDdgLWRLQQLYNYFQLEdsv----prALDAFRVRDVs---rAY 206
gi 31074379 123 dgyDYDVTVSPGYVTAVAELIKff--nWEKVYYVFDSDdaLWELQRLHDYVRLPpn-----dvMIDARRLRNVt---sSH 192
gi 31074385 140 ehqPQMLFAKPVYADAIVDLVKgl--nWRRLDYVYDNSegLLRVQHVYDRLKREqy-----giEIGFRRIEQVesaheDL 212
gi 33860153 136 ennPMIFSVAPSAEQLLIDYIQyk--gWRDVVYIHDGKnaDRTLRTMFSYLHEKsp-----kyQLFVDNYVAPsdeemFK 208
gi 68067727 143 gllDFAISMRPDYHQAIIDTIQyy--gWQSIIYLYDSHdgLLRLQQIYQELKPGnet----frVQMVKRIANVtmaieFL 216
gi 77812626 130 drrSMQVYMEPSLTKAIVGMVYtw-yrWRRFYYIYDQLdsITRIEQTHDFLHEFprdyryatpDVQPHRVDGAh---qCL 205
                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                       
gi 77416864 204 RIIEEMDRRqe-------------------kRYLIDCev----erINTILEQVVILgkh-srGYHYMLANLGftd----- 254
gi 121438   198 KELHLMDPEme-------------------hRVLLDVrt----dkAEQIILKVMNDskinnaKFHFLLGDLGmle----- 249
gi 29429176 209 AYLMQFNMMrnn----------------etnRILIDCasp---krLKKLLINIRSAqfn-qaNYHYVLANYDflp----- 263
gi 29823896 209 KELHHTNPEld-------------------iHAVLDMsi----pmASELMNLLSEDprvhnrRFHFLLVEPGiqe----- 260
gi 31074377 207 SLLRSLDLKdmde---------------gnkLIVLDLsse---esFKLVLEQIVDVgmn-rdNYHYILAGPDamdldlsr 267
gi 31074379 193 DFLRQLDRFsth-----------------tkRIILNLssr---daYQKVLNQLVDVgmn-rdNYHYLLSGPYids----- 246
gi 31074385 213 RRLDYLDREkm-------------------rNIVLDLssl---naYAALLRQIPEVgmn-rhGYNYILGTLDmls----- 264
gi 33860153 209 EFLNEFHRRistqhtlksndsseeidepipvNVIVDLegsyrtraFLRALEESVLVk----kEYHYVFSNFDvde----- 279
gi 68067727 217 HTLEDLGRFsk-------------------kRIVLDCpa----emAKEIIVQHVRDiklgrrTYHYLLSGLVmdnh---- 269
gi 77812626 206 RLLLDIFENnrg----------------edvRVVLDIpp----edTQWVITQLVEDkdihkiRFHFIIPYLSlrs----- 260
                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                       
gi 77416864 255 illERVMHGGANITGFQIvnnenpmVQQFIQRWvrlderefp-------eaknaplkyTSALTHDAILVIaeafrylrrq 327
gi 121438   250 intTHFKIGGVNITGFQLvdpfnstSELFISTWssldpvywp-------gagtnhvnyEAALAADSVRLFksafgsilqk 322
gi 29429176 264 ydqEMFQNGNINISGFNIinkdgreYWSLKKHLktssslg-----------ggddvsvEAAVGHDAMLVTwhgfakclqa 332
gi 29823896 261 ldfAKIGLYGYNVSGFQLvdfnnmtVRLFLSDWtkidpaewp-------gagvktityEAALAVDAVSLFtramknlsnl 333
gi 31074377 268 dffSQFLYGGVEISAFRFvdntsdtYRKWEQLWqqykdeyp----------glfplktGSAMMIDAVRAVhealmldlp- 336
gi 31074379 247 ldlRSFLYGGVNVTGFRLpi----dLQEVTPSWarvpalele-------pllnkristDAALAADGLQLVinalndlkvs 315
gi 31074385 265 ldvSRFLHGGVKVYGFQLvdvsrrqVQTFLEEWqelepgiwp-------gagtnllqtDAALSVDMLHTIraaltamike 337
gi 33860153 280 tdlSGFHFSLINITIFRIfd---knNKKFLKTRaefhdvyrgg------fsntdsiptAAAFAHDAILVAgkalqiamne 350
gi 68067727 270 wpsDVVEFGAINITGFRIvdsnrraVRDFHDSRkrlepsgqsqsqnaggpnslpaisaQAALMYDAVFVLveafnrilrk 349
gi 77812626 261 iflESFITGGVNITGFEIf-----eEGKSLQYRrknpn----------------tikvRDHIAADTAQLLeqslmmlqrh 319
                       410       420       430       440       450       460       470       480
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                       
gi 77416864 328 r----------------------vdvsrrgsagDCLAN--------PAVPWSQGidIERALKMVQVQGm-----TGNIQF 372
gi 121438   323 dpnf----------------lrrsrsgtagksmKCTDD--------SEIKTGHGqmILEEMKKVKFEGv-----TGHVAF 373
gi 29429176 333 ndslfh-----------gtfrhrrffnrgfpgiYCDPLsdrshpnrPFSSFEHGktIGVAFRNMKIGHkeg-tlTGNIEF 400
gi 29823896 334 glfe---------------slfvrarsgansskTCAAE--------RLNVWNKGkhVLKAMKETEFDGl-----TGRVAF 385
gi 31074377 337 ------------------------qsirgpqtrTCDME--------NPQPSEVGpaIMTSLAKVQFEG------LTGPLA 378
gi 31074379 316 natrhif----------ktfrhselynngtrgvQCWRH--------PPLPWVHGpvIRQALLKSNFTGi-----TGPLTI 372
gi 31074385 338 qrdvfhy----------vfrrgkmynmnktigiQCNSN--------PPLPWMHGeqIYRALKQVDFDGl-----TGHIQF 394
gi 33860153 351 hgkgifd----------ksfvrhqlfnrgrkglYCRPHedqt-esrQFETFEHGkkIAEAIKKVVLTDkdgtltGRIQFD 419
gi 68067727 350 kpdqfrsnhlqrrshggsssssatgtnessallDCNTSk------gWVTPWEQGekISRVLRKVEIDGl-----SGEIRF 418
gi 77812626 320 qgsas--------------vfgnvngwqlsqemTCLPQ--------LRWRWRYGraLAKVFQNTTFHGr-----SGYVQF 372
                       490       500       510
                ....*....|....*....|....*....|....*....
Feature 1                                              
gi 77416864 373 DTYGRRTNYTIDVYemk-----vsgSRKAGYWNEYERFV 406
gi 121438   374 NEQGHRKDFTLGVYnva-----mtrGTAKIGYWNEREGK 407
gi 29429176 401 DRFGNRKNFDVSIVdlvsntkatfnSKEVLAWRQGVGFF 439
gi 29823896 386 DDRGHRKEFTLDVLdigi----trgAVKIGYWTPRDGLT 420
gi 31074377 379 LRQGQRSEYKLDVYrlqf----krpMRKIETWHPEDLRE 413
gi 31074379 373 NSHGQRVGHRLDLMqldy----rnpLRKVGSWSETLGLT 407
gi 31074385 395 DEFGQRANYSLDIItagl----dtgLAKIGKWHSRYGLL 429
gi 33860153 420 KVTGKRTNFSAEIVeik-----pgvNSLNSIWERFQWAE 453
gi 68067727 419 DEDGRRINYTLHVVemsv----nstLQQVAEWRDDAGLL 453
gi 77812626 373 DSTGQRTELSVEVQevtm----yrgLTIVGTWDKDGFQA 407

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