1LV2,1M7W,1PZL


Conserved Protein Domain Family
NR_LBD_HNF4_like

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cd06931: NR_LBD_HNF4_like 
Click on image for an interactive view with Cn3D
The ligand binding domain of heptocyte nuclear factor 4, which is explosively expanded in nematodes
The ligand binding domain of hepatocyte nuclear factor 4 (HNF4) like proteins: HNF4 is a member of the nuclear receptor superfamily. HNF4 plays a key role in establishing and maintenance of hepatocyte differentiation in the liver. It is also expressed in gut, kidney, and pancreatic beta cells. HNF4 was originally classified as an orphan receptor, but later it is found that HNF4 binds with very high affinity to a variety of fatty acids. However, unlike other nuclear receptors, the ligands do not act as a molecular switch for HNF4. They seem to constantly bind to the receptor, which is constitutively active as a transcription activator. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, HNF4 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD). The LBD domain is also responsible for recruiting co-activator proteins. More than 280 nuclear receptors are found in C. ele gans, most of which are originated from an explosive burst of duplications of HNF4.
Statistics
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PSSM-Id: 132729
View PSSM: cd06931
Aligned: 14 rows
Threshold Bit Score: 342.047
Threshold Setting Gi: 74929623
Created: 19-Nov-2008
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site includes 12 residues -Click on image for an interactive view with Cn3D
Feature 1:ligand binding site [chemical binding site]
Evidence:
  • Structure:1LV2_a; human Hepatocyte Nuclear Factor 4 binds to palmitic acid, contacts at 4A
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                            #     #   #                                 
1LV2_A         4 SINTLAQAEVRSRQisvsspgsst---dinvkkiasIGDVCESMKQQLLVLVEWAKYIPAFCELPLDDQVALLRAHAGEH 80  human
P49866       198 SVISLVKAENESRQskagaamepninedlsnkqfasINDVCESMKQQLLTLVEWAKQIPAFNELQLDDQVALLRAHAGEH 277 fruit fly
P79926       141 SINVLTQAEAMVHQyspvspvhss---dismkkvasISDVCESMKQQLLLLVEWAKYIPAFCELPLDDQVALLRAHAGAH 217 African clawed ...
XP_780389    121 SIPQLVNAEHMSRQvipnpvnlpd--gsiagkkiatMNDVCESMKQHLLVLVEWAKYIPSFCDLPLDDQVALLRAHAGEH 198 purple urchin
CAJ53825      93 SVSTLLNAEILSRQisspvgqcd-----lthkviatADDVCESIKQQLLVLVEWAKYIPCFCELPLDDQVALLRAHAGEH 167 Mediterranean m...
XP_002115810  97 TCSTLLAAELLSQPqsspprecs-----ldvirmasVNDICESMRQQLLLLVEWAKYIPSFCELLLDDQVTLLRAHACEH 171 Trichoplax adha...
XP_001638550  91 TTQSLLSAEILSRPassppgtktll-ksiclekeanYSDICESMRQQLLILVEWAKHLPCFCELPLDDQVALLRAHASEH 169 starlet sea ane...
Q5ILG9       152 SISVLTQAEAMAQQylplspvhsa---diamkkvatINDVCESMKQQLLVLVEWAKYIPAFCELPLDDQVALLRAHAGEH 228 chicken
Q4H3D4       151 SVTTLLNADTMSKQpsagsagdvtdtvsienkkiasVNDVCDSIRQQLLVLVEWAKYIPAFSELPLDDQVALLRAHAGEN 230 Ciona intestinalis
Q6P0E0       153 TIDVLMQAEAYTHQslsqnlmrd-----vgskkiagVGDVCESMKQQLLLLVEWAKRIPEFCELSVDDRVALLRAHSAEH 227 zebrafish
Feature 1        #   #  #         ##                      #                                      
1LV2_A        81 LLLGATKRSmmYKDILLLGNNYVIHRnsce------veisRVANRVLDELVRPFqeIQIDDNEYACLKAIVFFDPDAKGL 154 human
P49866       278 LLLGLSRRSmhLKDVLLLSNNCVITRhcpdplvspnldisRIGARIIDELVTVMkdVGIDDTEFACIKALVFFDPNAKGL 357 fruit fly
P79926       218 LLLGVAKRSlpYKDFLLLGNDFIMPMhcpe------leiaRVPCRILDELVKPLreIQIDDNEYVCLKAIIFFDPDCKGL 291 African clawed ...
XP_780389    199 LVLGAARRSlpYKDILVLGPDVILPRhsqdq-----mdihRVASRVLDELIAPMrdVSLDDHEFACLKAIVFFDPDAKGL 273 purple urchin
CAJ53825     168 LVLGVARRSmaVKDVLLLGNDGIIPRnatd------memgTIAARVLDELVAAFrdIQIDDTEFACIKAIVFFDPEAKGL 241 Mediterranean m...
XP_002115810 172 LMLGVARRSmrLKNILLLGNDLILPRhlpee-----peiaRIACRIMDELCLPMltHNIDDTEYACLKAIVFFNPDAKGL 246 Trichoplax adha...
XP_001638550 170 LVLGVSRRSlnLKDILLLGNDLVIPRqagd------tevrKIATRILDEIVLPMrqLNIDDVEYSCLKAIVFFNPDAKGL 243 starlet sea ane...
Q5ILG9       229 LLLGVAKRSipYTDFLLLGNDFIIPMhcpe------leiaRVATRILDELVKPLrdIQIDDNEYACLKAIIFFDPDCKGL 302 chicken
Q4H3D4       231 LLMGAAKRSlpYKDVLLLGNDFIIPRhcpe------veitRVAVRVLDELVRPLadLSLDANEFACLKAIVFFDPDARGL 304 Ciona intestinalis
Q6P0E0       228 LILGVARRSlpYSDIILLGNDFIIPVggse------qemsKVAVRILEELVRPLkeLNITDTEFVCLKTIVFFAPDCPGL 301 zebrafish
Feature 1                                                           ##  #               
1LV2_A       155 SDPVKIKNMRFQVQIGLEDYINdrqydsRGRFGELLLLLPTLQSITWqMIEQIQFVKLFGmVKIDNLLQEM 225 human
P49866       358 NEPHRIKSLRHQILNNLEDYISdrqyesRGRFGEILLILPVLQSITWqMIEQIQFAKIFGvAHIDSLLQEM 428 fruit fly
P79926       292 SDQTKVKNMRFQVQVNLEDYINdrqfdsRGRFSDILLLLPPLQSITWqMIEQVQFAKLFGvARIDSLLQEL 362 African clawed frog
XP_780389    274 SEPNRIKMLRYQVQIHLEDYINdrqydsRGRFGEILLMLPPLQSITWqMIEQIQFARLMGvAKVDNLLQEM 344 purple urchin
CAJ53825     242 TDPQKIKSFRYQVQVNLEDYINdrqydsRGRFGEILLLLPALQSITWqMIEQIQFAKLFGmAKIDNLLQEM 312 Mediterranean mussel
XP_002115810 247 NEPMKIKRLRFQIQLALEDYINdrqydsRGRFGEMLLLLPNLHSIAMqSVEHLQFARLFGtAKVDSLLQEM 317 Trichoplax adhaerens
XP_001638550 244 GDSQKIKALRFEIQTTLEDYISdhqyecRGKFGEILLLLPTLQAIALqMVEQIQFARLFGvAKVDSLLQEM 314 starlet sea anemone
Q5ILG9       303 SEPGKVKNMRFQVQVNLEDYINdrqidsRGRFSDILLLLPPLQSITWqMIEQVQFVKLFGvARIDSLLQEM 373 chicken
Q4H3D4       305 NNPTKIKQMRSQVMCNLEDYINdrqydsRGRFGEILLLLPTLQSITWqMIEQIQFVRIFGvARVDNLLQEM 375 Ciona intestinalis
Q6P0E0       302 QCAQAVRRLRFQAQVLLDEATSe----qRGRFGELLLLLTTLQSVAWqMLEQLQLMRLLGrASVDSLLMEM 368 zebrafish

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