1XIU,1HG4,1R1K,2NXX,2Q60,1Z5X,1FM6


Conserved Protein Domain Family
NR_LBD_RXR_like

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cd06943: NR_LBD_RXR_like 
Click on image for an interactive view with Cn3D
The ligand binding domain of the retinoid X receptor and Ultraspiracle, members of nuclear receptor superfamily.
The ligand binding domain of the retinoid X receptor (RXR) and Ultraspiracle (USP): This family includes two evolutionary related nuclear receptors: retinoid X receptor (RXR) and Ultraspiracle (USP). RXR is a nuclear receptor in mammalian and USP is its counterpart in invertebrates. The native ligand of retinoid X receptor is 9-cis retinoic acid (RA). RXR functions as a DNA binding partner by forming heterodimers with other nuclear receptors including CAR, FXR, LXR, PPAR, PXR, RAR, TR, and VDR. RXRs can play different roles in these heterodimers. It acts either as a structural component of the heterodimer complex, required for DNA binding but not acting as a receptor or as both a structural and a functional component of the heterodimer, allowing 9-cis RA to signal through the corresponding heterodimer. In addition, RXR can also form homodimers, functioning as a receptor for 9-cis RA, independently of other nuclear receptors. Ultraspiracle (USP) plays similar roles as DNA binding partner of other nuclear rec eptors in invertebrates. USP has no known high-affinity ligand and is thought to be a silent component in the heterodimeric complex with partner receptors. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, RXR and USP have a central well conserved 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: 132741
View PSSM: cd06943
Aligned: 20 rows
Threshold Bit Score: 293.04
Threshold Setting Gi: 74961085
Created: 19-Nov-2008
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site includes 14 residues -Click on image for an interactive view with Cn3D
Feature 1:ligand binding site [chemical binding site]
Evidence:
  • Structure:1XIU_a; Biomphalaria glabrata retinoid X receptor binds to 9-cis retinoic acid, contacts at 4A
    View structure with Cn3D
  • Structure:1HG4_a; Drosophila melanogasterultraspiracle binds to phosphotipid acid, contacts at 4A
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                                     ## ##  #                           
1XIU_A         5 DMPVEQILEAELavdpkidt--------------yidaqkdpVTNICQAADKQLFTLVEWAKRIPHFTe--LPLEDQVIL 68  bloodfluke planorb
1HG4_A         8 DFSIERIIEAEQraetqcgdraltflr-vgpystvqpdykgaVSALCQVVNKQLFQMVEYARMMPHFAq--VPLDDQVIL 84  fruit fly
O45117       299 DITVERLMEADQmsearcgdksiqylrvaasntmippeyrapVSAICAMVNKQVFQHMDFCRRLPHFTk--LPLNDQMYL 376 Chironomus tentans
AAG24887     208 DVTIERIHEAEQlseqksgdnaipylr-vgsnsmippeykgaVSHLCQMVNKQIYQLIDFARRVPHFIn--LPRDDQVML 284 yellow fever mo...
1R1K_A         4 ELSIERLLEMESlvadpseefqflrv---gpdsnvppkfrapVSSLCQIGNKQIAALVVWARDIPHFSq--LEMEDQILL 78  tobacco budworm
AAX37291     182 DMPIERILEAERridckief---------------pvefensVSNFCQATNTQLFQIIDWAKHIPYFTs--LPVADQVVL 244 Xenos pecki
XP_002109459 104 EMPVEAIRDAEStlnmnsvp--------------yvemqsnpVLNICQAADKQLFNLVEWAKKIPHFCd--LCVDDQVIL 167 Trichoplax adha...
O97120       443 LLSAELSMDPKLavsergeaiyed-------ipgdddtglhpLTIICQSIEQQLPRIVNWARQLPVFSsvyLSFDDQFCL 515 Schistosoma man...
ABI24015     103 EMPIEQIRDAENeldr-----------------------lyqQNQGVNYVTEYLRALIEWTKMIPQFEt--LKTDDRVYL 157 Oikopleura dioica
O96562       212 MIPIESIIAAETlvdpgiqt--------------fasantdpIRHVCLAADKQLASLAEWAKRLPHFRd--LSIADQVVL 275 Tripedalia cyst...
Feature 1                #   #  #                                    ##              #           
1XIU_A        69 LRAGWNELLIAGFSHRSIma---------------------------kDGILLAtGLHVHRSSAHQAGVGTIFDRVLTEL 121 bloodfluke planorb
1HG4_A        85 LKAAWIELLIANVAWCSIvslddggagggggglghdgsferrspglqpQQLFLNqSFSYHRNSAIKAGVSAIFDRILSEL 164 fruit fly
O45117       377 LKQSLNELLILNIAYMSIqyvepdrrna----------dgslerrqisQQMCLSrNYTLGRNMAVQAGVVQIFDRILSEL 446 Chironomus tentans
AAG24887     285 LRCGWNEMLIAAVAWRSMeyieterssd-----------gsritvrqpQLMCLGpNFTLHRNSAQQAGVDTLFDRILCEL 353 yellow fever mo...
1R1K_A        79 IKGSWNELLLFAIAWRSMeflteerdgvd---------gtgnrttsppQLMCLMpGMTLHRNSALQAGVGQIFDRVLSEL 149 tobacco budworm
AAX37291     245 LKASWNELLITNFSYRSIda---------------------------rDAIVLAtGYAVNKNSAHQAGLEAIFDRVLTEV 297 Xenos pecki
XP_002109459 168 LRSGWNELLIAAFSFRSIav---------------------------eDGLLLStGHYIHRTSAHNAGIGAIFDRILTEL 220 Trichoplax adha...
O97120       516 IKAAWPELVLISSAYHSTvi---------------------------rDGLLLSiGRHLGREVAKSHGLGPLVDRILHEL 568 Schistosoma man...
ABI24015     158 VQSAWNEITIADIAHRSMef---------------------------eDKLLIGkNEILTRGQATSTNVDIIFGRVITEL 210 Oikopleura dioica
O96562       276 LQWSWPELLIGGFCHRSCav---------------------------kDGILLStGLHLTRDNLKKAGVGAIIDKIFSEV 328 Tripedalia cyst...
Feature 1                                                                                      # 
1XIU_A       122 VAKMRdMKMDKTELGCLRAVVLFNPDAKGLtaVQEVEQLREKVYASLEEYTksrYPEEPGRFAKLLLRLPALRSIGLKCL 201 bloodfluke planorb
1HG4_A       165 SVKMKrLNLDRRELSCLKAIILYNPDIRGIksRAEIEMCREKVYACLDEHCrleHPGDDGRFAQLLLRLPALRSISLKCQ 244 fruit fly
O45117       447 SVKMKrLDLDATELCLLKSIVVFNPDVRTLddRKSIDLLRSRIYASLDEYCrqkHPNEDGRFAQLLLRLPALRSISLKCL 526 Chironomus tentans
AAG24887     354 GIKMKrLDVTRAELGVLKAIILFNPDIRGLkcQKEIDGMREKIYACLDEHCkqqHPSEDGRFAQLLLRLPALRSISLKCL 433 yellow fever mo...
1R1K_A       150 SLKMRtLRVDQAEYVALKAIILLNPDVKGLknRQEVEVLREKMFLCLDEYCrrsRSSEEGRFAALLLRLPALRSISLKSF 229 tobacco budworm
AAX37291     298 VYKMReIRMDKTEIGCLKCITLFNSEIKGLksAQEVESLREKVFCVPDEHTrinYPNEQGRFAKLLLRLPPVRSIALKCT 377 Xenos pecki
XP_002109459 221 VNQMRyLKMDKTELGCLRAIILFNPDVRGLtsADRVEKYRELVYGALEAYVkkrFPDQLCRFAKLLLRLPALRAISLKTL 300 Trichoplax adha...
O97120       569 VARFRdLSLQRTELALLRAIILFNPDANGLssRHRVEAVREQLYSALHSYCttnQPQDTSRFTKLLLRLPPLRSIASKCL 648 Schistosoma man...
ABI24015     211 VYKMKeMKLDRTELGCLKAIILYNPDVKQLqdPILVEDLREKVYASLEAYSkqkYPEQPGRFAKLLLRLPALRSIGLKCL 290 Oikopleura dioica
O96562       329 IEKMQeIQMDRAEWGCLRAIMLFSPDAKGLtaIDQVENYRELYTSTLEDHVkrkHPEQPDRFTKVILRIPALKSIGLQAL 408 Tripedalia cyst...
Feature 1         ##    
1XIU_A       202 EHLFFFK 208 bloodfluke planorb
1HG4_A       245 DHLFLFR 251 fruit fly
O45117       527 DHLFYFQ 533 Chironomus tentans
AAG24887     434 DHLNFIR 440 yellow fever mosquito
1R1K_A       230 EHLFFFH 236 tobacco budworm
AAX37291     378 DYLFFCR 384 Xenos pecki
XP_002109459 301 EHLFFYK 307 Trichoplax adhaerens
O97120       649 EHLVFVK 655 Schistosoma mansoni
ABI24015     291 ESMFLFK 297 Oikopleura dioica
O96562       409 EHLYFFK 415 Tripedalia cystophora

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