2IZ2,3CLD,1YOW,1M2Z,1NHZ,1YUC,1LV2,1XP9,1XB7,2AX9,1XIU,2AA6,3CJW,1SR7,3F5C


Conserved Protein Domain Family
NR_LBD_F2

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cd06930: NR_LBD_F2 
Click on image for an interactive view with Cn3D
Ligand-binding domain of nuclear receptor family 2
Ligand-binding domain (LBD) of nuclear receptor (NR) family 2: This is one of the major subfamily of nuclear receptors, including some well known nuclear receptors such as glucocorticoid receptor (GR), mineralocorticoid receptor (MR), estrogen receptor (ER), progesterone receptor (PR), and androgen receptor (AR), other related receptors. Nuclear receptors form a superfamily of ligand-activated transcription regulators, which regulate various physiological functions, from development, reproduction, to homeostasis and metabolism in animals (metazoans). The family contains not only receptors for known ligands but also orphan receptors for which ligands do not exist or have not been identified. 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: 132728
View PSSM: cd06930
Aligned: 47 rows
Threshold Bit Score: 121.949
Threshold Setting Gi: 74964889
Created: 19-Nov-2008
Updated: 17-Jan-2013
Structure
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Program:
Drawing:
Aligned Rows:
 
ligand bindingcoactivator
Conserved site includes 14 residues -Click on image for an interactive view with Cn3D
Feature 1:ligand binding site [chemical binding site]
Evidence:
  • Structure:1NHZ_a; human Glucocorticoid receptor binds to antagonist RU-486, contacts at 4A
    View structure with Cn3D
  • Structure:3CLD_a; human glucocoticoid receptor binds to agonist fluticasone furoate, contacts at 4A
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1        #  ##  #  ##                            ##  ##  #  #           #                
2IZ2_A        48 FELXCKVLDQNLFSQVDWARNTVFFkdLKVDDQXKLLQHSWSDXLVLDHLHHRihnglpdETQLNn-gQVFNlxslgl-- 124 fruit fly
XP_001898165 348 FQFCKSVIEESLNSIVTWAKSAPYFeqLPVDDQIALIYTSWAPIHVLDFTFHIlhshlpiSIQFGn-sPLPVsticlm-- 424 agent of lympha...
AAF67038     345 HAFSIQVAEENLKDIVIWAKNDQLFskLSLDDQMILLQTSWTTVHIVDITNAMvhgnllsQYKMSn-gDEVPvglval-- 421 nematode
1YOW_A        43 FGLLCRMADQTFISIVDWARRCMVFkeLEVADQMTLLQNCWSELLVFDHIYRQvqhgkegSILLVt-gQEVElttvatqa 121 human
1NHZ_A        63 MTTLNMLGGRQVIAAVKWAKAIPGFrnLHLDDQMTLLQYSWMSLMAFALGWRSyrqssanLLCFAp-dLIINeqrmtl-- 139 human
1YUC_A        56 FGLMCKMADQTLFSIVEWARSSIFFreLKVDDQMKLLQNCWSELLILDHIYRQvvhgkegSIFLVt-gQQVDysiiasqa 134 human
XP_001624292 153 LAHLTQLAEQQLVRCASWFKHLKLLkgICELDQQTLVTNVWVELMLANLIKESenlenkaKLCDGq-iLDFEtaeit--- 228 starlet sea ane...
AAA28543     617 IAHLCNVADHRLYKIVKWCKSLPLFknISIDDQICLLINSWCELLLFSCCFRSidtpgeiKMSQGr-kITLSqaksn--- 692 fruit fly
1XB7_A        49 VATLCDLFDREIVVTISWAKSIPGFssLSLSDQMSVLQSVWMEVLVLGVAQRSlpl--qdELAFAe-dLVLDeegara-- 123 human
XP_001235478 379 FALLCRLADELLFRQIAWIKKLPFFceLSIKDYTCLLSSTWQELILLSSLTVYskq-ifgDLADVtskYSPSddelhrf- 456 chicken
Feature 1                  #                                                                     
2IZ2_A       125 -lgvpqlGDYFNELQNKLqdLKFDXGDYVCXKFLILLNpsvr--givnRKTVSEGHDNVQAALLDYtltcy----psvnd 197 fruit fly
XP_001898165 425 --gfdtlAPKFNELCSKLqsLNFDRCDYAAFKVLTLFEdrgersavnnCALTAQVHASVLTAWAAYrsv--------pna 494 agent of lympha...
AAF67038     422 -lgnqtfVSSWNDVVIRLrnMGFTNFDYCAFRFLALFDqsm-----dsFPAVSTARSRVLQSWREVr------------- 482 nematode
1YOW_A       122 gsllhslVLRAQELVLQLlaLQLDRQEFVCLKFIILFSldlk--flnnHILVKDAQEKANAALLDYtlchy----phcgd 195 human
1NHZ_A       140 -pdmydqCKHMLYVSSELhrLQVSYEEYLCMKTLLLLSsvpkd-glksQELFDEIRMTYIKELGKAivkregn-ssqnwq 216 human
1YUC_A       135 gatlnnlMSHAQELVAKLrsLQFDQREFVCLKFLVLFSldvk--nlenFQLVEGVQEQVNAALLDYtmcny----pqqte 208 human
XP_001624292 229 --gigdiLQRVVQMAAKFreFQLEKVEIVCMKMIILLNpdlp--glqnQQLIEQLQDKVHSALQEHinlaf----prepn 300 starlet sea ane...
AAA28543     693 --glqtcIERMLNLTDHLrrLRVDRYEYVAMKVIVLLQsdtt--elqeAVKVRECQEKALQSLQAYtlahy----pdtps 764 fruit fly
1XB7_A       124 -aglgelGAALLQLVRRLqaLRLEREEYVLLKALALANsdsv--hiedAEAVEQLREALHEALLEYeagragpgggaerr 200 human
XP_001235478 457 seegmevMERLIYLFRKFnqLKVSNEEYACMKAINFLNqdir--gltnASQLEQLNKRYWYVCQDFteyky----phqpn 530 chicken
Feature 1                       
2IZ2_A       198 KFRGLVNILPEIHAX 212 fruit fly
XP_001898165 495 TDHPLYVVYEELKLL 509 agent of lymphatic filariasis
AAF67038     483 CTTAFLEIFEQIRRL 497 nematode
1YOW_A       196 KFQQLLLCLVEVRAL 210 human
1NHZ_A       217 RFYQLTKLLDSMHEV 231 human
1YUC_A       209 KFGQLLLRLPEIRAI 223 human
XP_001624292 301 RFGNILLRLPELRSI 315 starlet sea anemone
AAA28543     765 KFGELLLRIPDLQRT 779 fruit fly
1XB7_A       201 RAGRLLLTLPLLRQT 215 human
XP_001235478 531 RFPDLMMCLPEIRYI 545 chicken

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