Conserved Protein Domain Family
NR_DBD_ROR

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cd06968: NR_DBD_ROR 
DNA-binding domain of Retinoid-related orphan receptors (RORs) is composed of two C4-type zinc fingers
DNA-binding domain of Retinoid-related orphan receptors (RORs) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which coordinates a single zinc atom. ROR interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. RORS are key regulators of many physiological processes during embryonic development. RORs bind as monomers to specific ROR response elements (ROREs) consisting of the consensus core motif AGGTCA preceded by a 5-bp A/T-rich sequence. There are three subtypes of retinoid-related orphan receptors (RORs), alpha, beta, and gamma, which differ only in N-terminal sequence and are distributed in distinct tissues. RORalpha plays a key role in the development of the cerebellum particularly in the regulation of the maturation and survival of Purkinje cells. RORbeta expression is largely restricted to several regions of the brain, the retina, and pineal gland. RORgamma is essential for lymph node organogenesis. Recently, it has been suggested that cholesterol or a cholesterol derivative are the natural ligands of RORalpha. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, retinoid-related orphan receptors have 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: 143526
View PSSM: cd06968
Aligned: 10 rows
Threshold Bit Score: 161.933
Threshold Setting Gi: 148706778
Created: 21-Nov-2008
Updated: 2-Oct-2020
Structure
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Aligned Rows:
 
zinc bindingputative DNA
Feature 1:zinc binding site [ion binding site]
Evidence:
  • Comment:Zinc finger, C4-type: The domain contains two groups of four Cys residues. Each group is involved in the coordination of a single zinc atom.

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1               #  #             #  #               #     #         #  #                 
NP_001072021 158 AQIEIIPCKVCGDKSSGIHYGVITCEGCKGFFRRSQQNnyAYSCPRhgNCIIDRSNRNRCQHCRLQKCLRAGMSKDAVKF 237 Ciona intestinalis
NP_001076325   3 AQIEVIPCKICGDKSSGIHYGVITCEGCKGFFRRSQQNnaSYSCPRqrNCLIDRTNRNRCQHCRLQKCLALGMSRDAVKF 82  zebrafish
NP_990424      3 AQIEVIPCKICGDKSSGIHYGVITCEGCKGFFRRSQQNnaSYSCPRqrNCLIDRTNRNRCQHCRLQKCLALGMSRDAVKF 82  chicken
Q08882        97 AQIEIIPCKVCGDKSSGVHYGVITCEGCKGFFRRSQSTvvNYQCPRnkACVVDRVNRNRCQYCRLQKCLKLGMSRDAVKF 176 tobacco hornworm
P45446        14 AQIEVIPCKICGDKSSGIHYGVITCEGCKGFFRRSQQNnaSYSCPRqrNCLIDRTNRNRCQHCRLQKCLALGMSRDAVKF 93  Norway rat
NP_001072663  10 AQIEIIPCKICGDKSSGIHYGVITCEGCKGFFRRSQQSnaTYSCPRqkNCLIDRTSRNRCQHCRLQKCLAVGMSRDAVKF 89  western clawed ...
AAK17973     141 AQIEVIPCKVCGDKSSGVHYGVITCEGCKGFFRRSQSSivNYQCPRqkNCVVDRVNRNRCQYCRLKKCIELGMSRDAVKF 220 nematode
CAG11892       1 AQIEVIPCKICGDKSSGVHYGVITCEGCKGFFRRSQLPtvSYSCSRqsNCQIDRASRNRCQHCRLQKCLAQGMSRDGESR 80  spotted green p...
XP_001344049   4 AQIEVIPCKICGDKSSGVHYGVITCEGCKGFFRRSQSSsvQYSCSRqsNCPIDRASRNRCQSCRLKKCVAQGMSRDAVKF 83  zebrafish
EDL38725      24 SQIEVIPCKICGDKSSGIHYGVITCEGCKGFFRRSQQCnvAYSCTRqqNCPIDRTSRNRCQHCRLQKCLALGICQVWPNV 103 house mouse
Feature 1                       
NP_001072021 238 GRMSKKQRDRLYLEV 252 Ciona intestinalis
NP_001076325  83 GRMSKKQRDSLYAEV 97  zebrafish
NP_990424     83 GRMSKKQRDSLYAEV 97  chicken
Q08882       177 GRMSKKQREKVEDEV 191 tobacco hornworm
P45446        94 GRMSKKQRDSLYAEV 108 Norway rat
NP_001072663  90 GRMSKKQRDSLYAEV 104 western clawed frog
AAK17973     221 GRMSKKQREKVEDEV 235 nematode
CAG11892      81 AAADPTFPWLLPGTS 95  spotted green pufferfish
XP_001344049  84 GRMSKRQRDSLFAEV 98  zebrafish
EDL38725     104 QEAEGQSTCRSAETT 118 house mouse

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