3CJW


Conserved Protein Domain Family
NR_LBD_COUP-TF

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cd06948: NR_LBD_COUP-TF 
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Ligand binding domain of chicken ovalbumin upstream promoter transcription factors, a member of the nuclear receptor family
The ligand binding domain of chicken ovalbumin upstream promoter transcription factors (COUP-TFs): COUP-TFs are orphan members of the steroid/thyroid hormone receptor superfamily. They are expressed in many tissues and are involved in the regulation of several important biological processes, such as neurogenesis, organogenesis, cell fate determination, and metabolic homeostasis. In mammals two isoforms named COUP-TFI and COUP-TFII have been identified. Both genes show an exceptional homology and overlapping expression patterns, suggesting that they may serve redundant functions. Although COUP-TF was originally characterized as a transcriptional activator of the chicken ovalbumin gene, COUP-TFs are generally considered to be repressors of transcription for other nuclear hormone receptors, such as retinoic acid receptor (RAR), thyroid hormone receptor (TR), vitamin D receptor (VDR), peroxisome proliferator activated receptor (PPAR), and hepatocyte nuclear factor 4 (HNF4). Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, COUP-TFs have a central well cons erved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Statistics
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PSSM-Id: 132746
View PSSM: cd06948
Aligned: 12 rows
Threshold Bit Score: 320.942
Threshold Setting Gi: 51860121
Created: 19-Nov-2008
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
putative ligandputative
Conserved site includes 8 residues -Click on image for an interactive view with Cn3D
Feature 1:putative ligand binding site [chemical binding site]
Evidence:
  • Comment:predicted based on homologous proteins.
  • Citation:PMID 9744270

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                          ##   #                                 #   #  
3CJW_A         7 YLSGYISLLLRAEPYPTsrfgsqcmqpnnimgIENICELAARMLFSAVEWARNIPFFPDLQITDQVALLRLTWSELFVLN 86  human
XP_001898597 291 HVSSIVTHLIHAEPYPPiacsss----sssigMDNIYEFGAKLLFSAVEWAKNIPFFNELSDTDQLTLLRASWAELFVIN 366 agent of lympha...
ABA41639      99 FLSGYISLLLRAEPYPTsryaqcm-qtnsvmgIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRMCWSELFVLN 177 purple urchin
CAH59197     117 YLSSFISLLLRAEPYPPsryaqcv-qqnnimgIDNICELAARLLFSAVEWARNIPFFPDLQVTDQVALLRLVWSELFVLN 195 Cupiennius salei
Q6GL59       152 PVSELISQLLRAEPYPAsrygsqyaqqgsvmgIDNICELAARLLFSTVEWSRNIPYFPELAMADQVSLLRLSWSELFVLS 231 western clawed ...
CAM16573     173 YLSGYISLLLRAEPYPTsrygsqcmqpnnimgIENICELAARLLFSAVEWARNIPFFPDLQITDQVSLLRLTWSELFVLN 252 zebrafish
NP_989752    173 YLSGYISLLLRAEPYPTsrfgsqcmqpnnimgIENICELAARMLFSAVEWARNIPFFPDLQITDQVALLRLTWSELFVLN 252 chicken
NP_001071673 179 YMSGYISMLLRAEPYPTsrfalqcpvpnqimgIDNICELAARLLFSAVEWARNIPFFPELQVTDQVAMLKWVWSELFVLN 258 Ciona intestinalis
AAM76194     307 YLSSYISLLLRAEPYPTsrygqcm-qpnnimgIDNICELAARLLFSAVEWAKNIPFFPELQVTDQVALLRLVWSELFVLN 385 fruit fly
Q95WF7       131 FLSGFISLLLRAEPYPTtrfqqgmnmpcgimgIENICELAARLLFSAVEWARNIPFFPDLAVTDQVALLRLVWSELFVLN 210 Acropora millepora
XP_001634340 130 FYSSYITLLLRADTIARyqqsltl--pcningLENTPELAARLLVSAVEWAKNIPFYSDLPLPDQAVLLRSCWSELFTLN 207 starlet sea ane...
AAU11312      86 IANYSNVLSARLQQQQQnqylsq----nnlfgGDSIYEMATRLLFNAVEWARNVPFFSALPTSDQIALLKSSWSELYILS 161 Hydra vulgaris
Feature 1        #             #                            #                                    
3CJW_A        87 AAQCSmPLHVAPLLAAAGLHASpmsa--------drvVAFMDHIRIFQEQVEKLKaLHVDSAEYSCLKAIVLFTSDa-cG 157 human
XP_001898597 367 AAQFGmPVHVAPLLAASGLHSSpplp-------tdqlVVFMDRIRVFQGQIERLKaLQMDLAEFCSLKAVILFSVDc-cG 438 agent of lympha...
ABA41639     178 ASQCSmPLHVAPLLAASGLHASpmsa--------drvVAFMDHIRIFQEQVEKLKaLHVDSAEYSCIKAIVLFTSTdacG 249 purple urchin
CAH59197     196 ASQCSmPLHVAPLLAAAGLHASpmaa--------drvVAFMDHIRIFQEQVEKLKaLQVDAAEYSCLKAIVLFTTDa-cG 266 Cupiennius salei
Q6GL59       232 AAQSAlPLHMAPLLAAAGFHASpmsa--------drvVSFMDQIRLFQDQVEKLNrLQVDSAEYACLKAIALFTSDa-cG 302 western clawed ...
CAM16573     253 AAQCSmPLHVAPLLAAAGLHASpmsa--------drvVAFMDHIRIFQEQVEKLKaLHVDSAEYSCIKAIVLFTSDa-cG 323 zebrafish
NP_989752    253 AAQCSmPLHVAPLLAAAGLHASpmsa--------drvVAFMDHIRIFQEQVEKLKaLHVDSAEYSCLKAIVLFTSDa-cG 323 chicken
NP_001071673 259 AAQSHmPLHVAPLLAAAGLHTSmsa---------drvMTFMDHIRIFQEQVERLKsLHVDSAEYSCLKAIVLFTADs-hG 328 Ciona intestinalis
AAM76194     386 ASQCSmPLHVAPLLAAAGLHASpmaa--------drvVAFMDHIRIFQEQVEKLKaLHVDSAEYSCLKAIVLFTTDa-cG 456 fruit fly
Q95WF7       211 AAQCPmPLQVAPLLASAGIHSNhmsp--------drmVTFMDNVRIFQEQIEKYRnLHVDAAEFACLKAIVLFTSDa-sG 281 Acropora millepora
XP_001634340 208 AAQHCsPFHISPTLTSNSSGFAgngggylntrvmsafDCQNNNMKLFEEQVEKLKnMHIDSAEFACLKAIVLFNPDs-qG 286 starlet sea ane...
AAU11312     162 TSQHCiAFQINARALTSEQNLSeikk--------rseGANEASVKMFEELVERFKnLQTDAAEFSCLKALVLFNPDs-pG 232 Hydra vulgaris
Feature 1                                                                                        
3CJW_A       158 LSDVAHVESLQEKSQCALEEYVRSQYPNQp--tRFGKLLLRLPSLRTVSSSVIEQLFFVRLVgktpieTLIRDMLLSGs- 234 human
XP_001898597 439 LNDVIRVETIQEKVQSALEEYCRTQKQLQv--gRFGRLLLRLPSLRSISASVIEQLFFVKLVgetpieFLLRDMLRTQne 516 agent of lympha...
ABA41639     250 LSDAAHIEALQEKSQCALEEYVRSQYPNQp--nRFGKLLLRLPSLRTVSSHVIEQLFFVRLVgktpieTLIRDMLLSGs- 326 purple urchin
CAH59197     267 LSDVAHIESLQEKSQCALEEYCRTQYPNRp--tRFGKLLLRLPSLRTVSSQVIEQLFFVRLVgktpieTLIRDMLLSGs- 343 Cupiennius salei
Q6GL59       303 LTDPAHVESLQEKAQVALTEYVRAQYPSQp--qRFGRLLLRLPALRAVPASLISQLFFMRLVgktpieTLIRDMLLSGs- 379 western clawed ...
CAM16573     324 LSDAAHIESLQEKSQCALEEYVRSQYPNQp--sRFGKLLLRLPSLRTVSSSVIEQLFFVRLVgktpieTLIRDMLLSGs- 400 zebrafish
NP_989752    324 LSDVAHVESLQEKSQCALEEYVRSQYPNQp--tRFGKLLLRLPSLRTVSSSVIEQLFFVRLVgktpieTLIRDMLLSGs- 400 chicken
NP_001071673 329 LSDMTHIESVQEKSQCALEEYVRHQYPNQp--sRFGKLLLRLPSLRTVSASAIEQLFFVRLVgktpieTLIRDMLLSGs- 405 Ciona intestinalis
AAM76194     457 LSDVTHIESLQEKSQCALEEYCRTQYPNQp--tRFGKLLLRLPSLRTVSSQVIEQLFFVRLVgktpieTLIRDMLLSGn- 533 fruit fly
Q95WF7       282 LTDPQYIESLQEKTQCALEEYTRNQYPNQp--tRFGKLLLRLPSLRSINSSIVEQLFFVRLVgktpidTLLRDMLLSGt- 358 Acropora millepora
XP_001634340 287 LSEPAQVENLQDRTQSALEDYIRTQYPNQt--tRFGKLLLRLPALRLLRPVSVENLFFSRLSmgntvdSLLNDMLLSGlg 364 starlet sea ane...
AAU11312     233 LGNPSLIENLQEKAQSALEDYLRQQNATQsyhnRFGKLLLRLPALSLIRPATIEALFFPRHHgsqnidSLVGSMLLYGlg 312 Hydra vulgaris
Feature 1                      
3CJW_A       235 -----sFNWPYMAI 243 human
XP_001898597 517 nv-ikpFVWPCQLR 529 agent of lymphatic filariasis
ABA41639     327 -----sFSWPYMTM 335 purple urchin
CAH59197     344 -----sFNWPYMPL 352 Cupiennius salei
Q6GL59       380 -----sFNWPYSSG 388 western clawed frog
CAM16573     401 -----sFNWPYMSI 409 zebrafish
NP_989752    401 -----sFNWPYMSI 409 chicken
NP_001071673 406 -----sYGWPYHMT 414 Ciona intestinalis
AAM76194     534 -----sFSWPYLPS 542 fruit fly
Q95WF7       359 -----pTSWPYLPC 367 Acropora millepora
XP_001634340 365 -----gGVVPWLPG 373 starlet sea anemone
AAU11312     313 snnntsFVNNGIPA 326 Hydra vulgaris

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