Conserved Protein Domain Family
PBP1_iGluR_Kainate_KA1_2

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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
N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. 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. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels activated by kainate and glutamate when expressed in heterologous systems. Kainate receptors are involved in excitatory neurotransmission by activating postsynaptic receptors and in inhibitory neurotransmission by modulating release of the inhibitory neurotransmitter GABA through a presynaptic mechanism. Kainate receptors are closely related to AMPA receptors. In contrast of AMPA receptors, kainate receptors play only a minor role in signaling at synapses and their function is not well defined.
Statistics
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PSSM-Id: 107389
View PSSM: cd06394
Aligned: 6 rows
Threshold Bit Score: 577.983
Threshold Setting Gi: 47213150
Created: 12-Feb-2008
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 3287849     25 RMAAILDDqtvCGRGERLALALAREQINGiievpakARVEVDIFELqRDSQYETTDTMCQILPKGVVSVLGPSSSPASAS 104
gi 160773959   16 RMAAILDDssvCGRGERLALALARENINSvmenparARAEVDIFELqKDSQYETTDTMCQILPKGVVSVIGPASSPASGS 95
gi 118101923   26 RIAAILDDpmeCSRGERLSITLAKNRINRaperlgkAKVEVDIFELlRDSEYETAETMCQILPKGVVGVLGPSSSPASSS 105
gi 109109025   26 RIAAILDDpmeCSRGERLSITLAKNRINRaperlgkAKVEVDIFELlRDSEYETAETMCQILPKGVVAVLGPSSSPASSS 105
gi 29029595    26 RIAAILDDpmeCSRGERLSITLAKNRINRaperlgkAKVEVDIFELlRDSEYETAETMCQILPKGVVAVLGPSSSPASSS 105
gi 47213150     2 LLAAILDDqslCGRGERLALALARESVNSlmeassqSRVEVDLYELkNDSQYSTTDTMCQILPKGVVSVIGPASSPASGS 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                 #                                                                       
gi 3287849    105 TVSHICGEKEIPHIKVGPEEtprlqylrfasvSLYPSNEDVSLAVSRILKsfnYPSASLICAKAEC-------------- 170
gi 160773959   96 IVSHICGEKEIPHVKIGPEEtprlpylrfasvTLYPSNEDLSLAIGSILRsfsYPSASLVCAKAEC-------------- 161
gi 118101923  106 IISNICGEKEVPHFRVAPEEflklqlqrfttlNLHPSNTDISVAVAGILNffnCTTACLICAKAEC-------------- 171
gi 109109025  106 IISNICGEKEVPHFKVAPEEfvkfqfqrfttlNLHPSNTDISVAVAGILNffnCTTACLICAKAEC-------------- 171
gi 29029595   106 IISNICGEKEVPHFKVAPEEfvkfqfqrfttlNLHPSNTDISVAVAGILNffnCTTACLICAKAEC-------------- 171
gi 47213150    82 AVSHICGEKEIPHVKIGPEEtpklpylrfasvTLHPSNEDLSMAIGAMLRsfgYPPTSIICAKAECecrfhrdpaerqps 161
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                          #  #             # #           
gi 3287849    171 --------------------------------------------LLRLEELVRGFLISKetLSVRMLDDSrdPTPLLKEI 206
gi 160773959  162 --------------------------------------------LLRLEELIRRFLISRetLSIRMLDDNldPTPLLKEI 197
gi 118101923  172 --------------------------------------------LLNLEKLLRQFLISKdtLSVRMLDDSrdPTPLLKEI 207
gi 109109025  172 --------------------------------------------LLNLEKLLRQFLISKdtLSVRMLDDTrdPTPLLKEI 207
gi 29029595   172 --------------------------------------------LLNLEKLLRQFLISKdtLSVRMLDDTrdPTPLLKEI 207
gi 47213150   162 vggrtcspfkqvhrlswthaplstsgrgrwyfcvrqqcdsapsgLLRLEELVQSFLISRetLSVRMLDDSldPTPLLKEI 241
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                         
gi 3287849    207 RDDkvsTIIIDANASi-------------------------------------------------SHLILRKASELGMts 237
gi 160773959  198 RDDkiaTIIIDANASi-------------------------------------------------SYLILKKASELGMts 228
gi 118101923  208 RDDktaTIIVHANASm-------------------------------------------------SHTILQKAAELGMas 238
gi 109109025  208 RDDktaTIIIHANASm-------------------------------------------------SHTILLKAAELGMvs 238
gi 29029595   208 RDDktaTIIIHANASm-------------------------------------------------SHTILLKAAELGMvs 238
gi 47213150   242 RDDkvaTIIIDANASvsyrvlrkvstatdrsrspagvglanpgvsrslssptrrtgrrrglltlpPSVFVLQASDLGMms 321
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                         
gi 3287849    238 AFYKYILTTMDFpilhlDGIVEDSSNILGFSMFNtSHPFYPEFVRSLNMSWRENCeastylGPALSAALMFDAVHVVvsa 317
gi 160773959  229 AFYKYILTTMDFpllwlDDIVDEQSNIVGFSMFNtTHPFYLEFIRSLNLSWREGCdinpypGPALSSALLFDAVHVVvsa 308
gi 118101923  239 AYYTYIFTNLEFslqrlDSQLDDRVNILGFSIFNqSHAFFQEFVQSLNQSWQENCdhapftGPALSSALLFDAVYAVvsa 318
gi 109109025  239 AYYTYIFTNLEFslqrmDSLVDDRVNILGFSIFNqSHAFFQEFAQSLNQSWQENCdhvpftGPALSSALLFDAVYAVvta 318
gi 29029595   239 AYYTYIFTNLEFslqrmDSLVDDRVNILGFSIFNqSHAFFQEFAQSLNQSWQENCdhvpftGPALSSALLFDAVYAVvta 318
gi 47213150   322 AFYKYILTTMDFpllwlDDVVGDQSNVLGFSMLNsSHVSYLDFIRSLNLSWREGCrispypGPAVSSTPSGRGGASTltr 401
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                         
gi 3287849    318 vrelnrsqeigvkplactsaniwphgtslmnylrmveydGLTGRVEFNS-KGQRTNYTLRILeks-------rqGHREIG 389
gi 160773959  309 vqelnrsqeigvkplsctspqiwqhgtslmnylrmveydGLTGRVEFNS-KGQRTNYTLHILekh-------rgGHKEIG 380
gi 118101923  319 vqelnrsqeigvkplscgsaqiwqhgtslmnylrmveleGLTGHIEFNS-KGQRSNYALKILqht-------hsGFRQIG 390
gi 109109025  319 vqelnrsqeigvkplscgsaqiwqhgtslmnylrmveleGLTGHIEFNS-KGQRSNYALKILqft-------rnGFRQIG 390
gi 29029595   319 vqelnrsqeigvkplscgsaqiwqhgtslmnylrmveleGLTGHIEFNS-KGQRSNYALKILqft-------rnGFRQIG 390
gi 47213150   402 sc--------------------------------ligwkHLTSRSQYPTlMKLASMFTLRWLasrleprtglssVLWQIG 449
                         490
                  ....*....|
Feature 1                   
gi 3287849    390 VWYSNRTLAM 399
gi 160773959  381 IWYSNNTLLM 390
gi 118101923  391 HWHVSEGLSM 400
gi 109109025  391 QWHVAEGLSM 400
gi 29029595   391 QWHVAEGLSM 400
gi 47213150   450 TWFSNNTLVM 459

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