1N83,1NHZ,1M2Z,2HBH,1SR7,2AX9,1XP9,1OVL,3F5C,2NXX,1YOW,1YUC,1XIU,3CJW,1LV2,1XB7,2IZ2,1UPV,1XAP,3CQV,1PDU,1NAV,1XV9,3BEJ,1FM6,2J14,3CLD,1S0X,2AA6


Conserved Protein Domain Family
NR_LBD

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cd06157: NR_LBD 
Click on image for an interactive view with Cn3D
The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators
Ligand-binding domain (LBD) of nuclear receptor (NR): Nuclear receptors form a superfamily of ligand-activated transcription regulators, which regulate various physiological functions in metazoans, from development, reproduction, to homeostasis and metabolism. The superfamily contains not only receptors for known ligands but also orphan receptors for which ligands do not exist or have not been identified. The members of the family include receptors of steroids, thyroid hormone, retinoids, cholesterol by-products, lipids and heme. With few exceptions, NRs share a common structural organization with a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a non-conserved hinge and a C-terminal ligand binding domain (LBD).
Statistics
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PSSM-Id: 132726
View PSSM: cd06157
Aligned: 56 rows
Threshold Bit Score: 86.2032
Threshold Setting Gi: 74956965
Created: 25-Apr-2007
Updated: 17-Jan-2013
Structure
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Program:
Drawing:
Aligned Rows:
 
ligand bindingcoregulator
Conserved site includes 12 residues -Click on image for an interactive view with Cn3D
Feature 1:ligand binding site [chemical binding site]
Evidence:

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1          ##  #  ##                             ##  ##  #  #                            
1N83_A        68 QLCAIKITEAIQYVVEFAKRIDGFm-eLCQNDQIVLLKAGSLEVVFIRMCRAfdsqnntvyfdgky-------------- 132
gi 157747105 160 FDFYDWGVMNHLSCIAFATKFRFMm-yLSPADVKVLFKYSHLMYMILVTAMRsysaglevmchpdgs------------- 225
gi 187021898 145 SWIQLVSQCDFFTKLDFYDQVCLIqtnTNFKFQRALFSSNYLPIALLTGAMVtmsngrdilltphgedv----------- 213
gi 74965298  201 EDFTTIFQAQMVLMFEWVEKLPEFrmlCDHNDKTKLLRAFALKYMLLDNVYHtyelgfrdrlvlvnnnyivpgvpinfkg 280
gi 74956965  159 RKLKPWGSLGMLLAVETIKSLDFYp-kLLLSDRILLLETVTLKSFHLSVAFDsfsqkkekilapdgse------------ 225
gi 10720135  280 EDLIDGWRRHFTYYSDWCHAMDEFk-aLSPEDQIVLAKKKIILHGWLVHAYYsyksgcngicfangaah----------- 347
gi 74908085  182 TNFSYWRAKILTVLVEWAKSFEASfshLQPEDQKRLFIHTAFSNLVLAEAFHtpekyndrivfpdglcgfrnv-----aq 256
1NHZ_A        64 TTLNMLGGRQVIAAVKWAKAIPGFr-nLHLDDQMTLLQYSWMSLMAFALGWRsyrqssanllcfapdl------------ 130
gi 6093482   259 EELGVIAHRRAIAAVDWVDSLTEIadaVDTEDKVALVKSCYSPLTIFNFSARtaqntknpdilclcshsfv--------p 330
gi 74962710  265 DPVRYWMVVDLLLIVEFAKTFESFr-kLSEFDQKCLISHIGGVLHVATQSFYsyfeaksstltfpdginafer----kma 339
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                             #                                                          
1N83_A       133 ----aspdvfkslgcedfISFVFEFGKSLcsMHLTEDEIALFSAFVLMSadrs---wlqeKVKIEKLQQKIQLALQHVlq 205
gi 157747105 226 ---dvfpkevngynneflKGIKGNLIGRMreLRVTEEELLLLGAIILCNpavtd-msqsgRILLAAHRDSYGQALLQNcn 301
gi 187021898 214 --ypdevrelftgnpeilDSICTTLVGTLikLRVTKEECLFLTYVFLCNpalct-vsneaQKTLKSFQEELTSRLFAYcq 290
gi 74965298  281 sdvvdenqmrdimfgepmRALINELVLPIgsQNMLYGEIMTIRRIMFWNpgnvq-lsemaKALSAEACNVAMKELQQYli 359
gi 74956965  226 --mfpdslnkmdfckdliMRLLTTPVKPLiaMKLTETEYLLLGIIVICNpeidglspsgkAIITAFLQKTINVLLQFCli 303
gi 10720135  348 -lpegghpsitefykecmPRYLNYVIYPMhnFQMDDAEMVLIKCIMFFSsesgl--saagRQIVSAAREKYLSALYNYgr 424
gi 74908085  257 tvssdgvstktygltptvVAVINDVLVPIrrMRLTKVEYVLLQAIIFFDpdcls-ltkhgSQLIAAKRRRLLHALQDWlq 335
1NHZ_A       131 ---iineqrmtlpdmydqCKHMLYVSSELhrLQVSYEEYLCMKTLLLLSsvpkd--glksQELFDEIRMTYIKELGKAiv 205
gi 6093482   331 rrlppefnetnhlsnfliDRTLNELVAPLrkLNLKEEEIVPLKAIIILNpnakg-lsehaRHAISELRDKVQDMLFQIvk 409
gi 74962710  340 dvekddkrrsrkvflnyyAEMYNAPVNEFlkNKVTMTEYSFFKSISLFSpdnle-msdagRLIANEERERLTTLLRKYlv 418
                        170       180
                 ....*....|....*....|....*..
Feature 1                                   
1N83_A       206 knh-----redgiLTKLICKVSTLRAL 227
gi 157747105 302 vhs-----ygpsrFPEILSLTSIIIKT 323
gi 187021898 291 mtyq---kaaptrFLELLSIFNVMNKT 314
gi 74965298  360 segv---ddiearIKFILLLLPSFTTH 383
gi 74956965  304 nnpr----sapsrLLEIISINQILNRQ 326
gi 10720135  425 ankcttsaqatlrIAKFMIMLSAITSL 451
gi 74908085  336 qqnk---heaagrFAEILLRICNVQKV 359
1NHZ_A       206 kregn-ssqnwqrFYQLTKLLDSMHEV 231
gi 6093482   410 elhpi--ysassrFGNLLLLLPTITTL 434
gi 74962710  419 aeygf--kvgmnrFSLILMAISTFVNY 443

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