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:
Feature 1          ##  #  ##                             ##  ##  #  #                            
1N83_A        68 QLCAIKITEAIQYVVEFAKRIDGFm-eLCQNDQIVLLKAGSLEVVFIRMCRAfdsqnntvyfdgky-------------- 132 human
XP_001668647 160 FDFYDWGVMNHLSCIAFATKFRFMm-yLSPADVKVLFKYSHLMYMILVTAMRsysaglevmchpdgs------------- 225 Caenorhabditis ...
CAP38948     145 SWIQLVSQCDFFTKLDFYDQVCLIqtnTNFKFQRALFSSNYLPIALLTGAMVtmsngrdilltphgedv----------- 213 Caenorhabditis ...
Q21372       201 EDFTTIFQAQMVLMFEWVEKLPEFrmlCDHNDKTKLLRAFALKYMLLDNVYHtyelgfrdrlvlvnnnyivpgvpinfkg 280 Caenorhabditis ...
O16609       159 RKLKPWGSLGMLLAVETIKSLDFYp-kLLLSDRILLLETVTLKSFHLSVAFDsfsqkkekilapdgse------------ 225 Caenorhabditis ...
O45436       280 EDLIDGWRRHFTYYSDWCHAMDEFk-aLSPEDQIVLAKKKIILHGWLVHAYYsyksgcngicfangaah----------- 347 Caenorhabditis ...
Q629C0       182 TNFSYWRAKILTVLVEWAKSFEASfshLQPEDQKRLFIHTAFSNLVLAEAFHtpekyndrivfpdglcgfrnv-----aq 256 Caenorhabditis ...
1NHZ_A        64 TTLNMLGGRQVIAAVKWAKAIPGFr-nLHLDDQMTLLQYSWMSLMAFALGWRsyrqssanllcfapdl------------ 130 human
Q18192       259 EELGVIAHRRAIAAVDWVDSLTEIadaVDTEDKVALVKSCYSPLTIFNFSARtaqntknpdilclcshsfv--------p 330 Caenorhabditis ...
Q18150       265 DPVRYWMVVDLLLIVEFAKTFESFr-kLSEFDQKCLISHIGGVLHVATQSFYsyfeaksstltfpdginafer----kma 339 Caenorhabditis ...
Feature 1                             #                                                          
1N83_A       133 ----aspdvfkslgcedfISFVFEFGKSLcsMHLTEDEIALFSAFVLMSadrs---wlqeKVKIEKLQQKIQLALQHVlq 205 human
XP_001668647 226 ---dvfpkevngynneflKGIKGNLIGRMreLRVTEEELLLLGAIILCNpavtd-msqsgRILLAAHRDSYGQALLQNcn 301 Caenorhabditis ...
CAP38948     214 --ypdevrelftgnpeilDSICTTLVGTLikLRVTKEECLFLTYVFLCNpalct-vsneaQKTLKSFQEELTSRLFAYcq 290 Caenorhabditis ...
Q21372       281 sdvvdenqmrdimfgepmRALINELVLPIgsQNMLYGEIMTIRRIMFWNpgnvq-lsemaKALSAEACNVAMKELQQYli 359 Caenorhabditis ...
O16609       226 --mfpdslnkmdfckdliMRLLTTPVKPLiaMKLTETEYLLLGIIVICNpeidglspsgkAIITAFLQKTINVLLQFCli 303 Caenorhabditis ...
O45436       348 -lpegghpsitefykecmPRYLNYVIYPMhnFQMDDAEMVLIKCIMFFSsesgl--saagRQIVSAAREKYLSALYNYgr 424 Caenorhabditis ...
Q629C0       257 tvssdgvstktygltptvVAVINDVLVPIrrMRLTKVEYVLLQAIIFFDpdcls-ltkhgSQLIAAKRRRLLHALQDWlq 335 Caenorhabditis ...
1NHZ_A       131 ---iineqrmtlpdmydqCKHMLYVSSELhrLQVSYEEYLCMKTLLLLSsvpkd--glksQELFDEIRMTYIKELGKAiv 205 human
Q18192       331 rrlppefnetnhlsnfliDRTLNELVAPLrkLNLKEEEIVPLKAIIILNpnakg-lsehaRHAISELRDKVQDMLFQIvk 409 Caenorhabditis ...
Q18150       340 dvekddkrrsrkvflnyyAEMYNAPVNEFlkNKVTMTEYSFFKSISLFSpdnle-msdagRLIANEERERLTTLLRKYlv 418 Caenorhabditis ...
Feature 1                                   
1N83_A       206 knh-----redgiLTKLICKVSTLRAL 227 human
XP_001668647 302 vhs-----ygpsrFPEILSLTSIIIKT 323 Caenorhabditis briggsae AF16
CAP38948     291 mtyq---kaaptrFLELLSIFNVMNKT 314 Caenorhabditis briggsae
Q21372       360 segv---ddiearIKFILLLLPSFTTH 383 Caenorhabditis elegans
O16609       304 nnpr----sapsrLLEIISINQILNRQ 326 Caenorhabditis elegans
O45436       425 ankcttsaqatlrIAKFMIMLSAITSL 451 Caenorhabditis elegans
Q629C0       336 qqnk---heaagrFAEILLRICNVQKV 359 Caenorhabditis briggsae
1NHZ_A       206 kregn-ssqnwqrFYQLTKLLDSMHEV 231 human
Q18192       410 elhpi--ysassrFGNLLLLLPTITTL 434 Caenorhabditis elegans
Q18150       419 aeygf--kvgmnrFSLILMAISTFVNY 443 Caenorhabditis elegans

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