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: 17-Jan-2013
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:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1               #  #             #  #               #     #         #  #                 
gi 118344390 158 AQIEIIPCKVCGDKSSGIHYGVITCEGCKGFFRRSQQNnyAYSCPRhgNCIIDRSNRNRCQHCRLQKCLRAGMSKDAVKF 237
gi 130490232   3 AQIEVIPCKICGDKSSGIHYGVITCEGCKGFFRRSQQNnaSYSCPRqrNCLIDRTNRNRCQHCRLQKCLALGMSRDAVKF 82
gi 45384158    3 AQIEVIPCKICGDKSSGIHYGVITCEGCKGFFRRSQQNnaSYSCPRqrNCLIDRTNRNRCQHCRLQKCLALGMSRDAVKF 82
gi 585482     97 AQIEIIPCKVCGDKSSGVHYGVITCEGCKGFFRRSQSTvvNYQCPRnkACVVDRVNRNRCQYCRLQKCLKLGMSRDAVKF 176
gi 124028632  14 AQIEVIPCKICGDKSSGIHYGVITCEGCKGFFRRSQQNnaSYSCPRqrNCLIDRTNRNRCQHCRLQKCLALGMSRDAVKF 93
gi 118404556  10 AQIEIIPCKICGDKSSGIHYGVITCEGCKGFFRRSQQSnaTYSCPRqkNCLIDRTSRNRCQHCRLQKCLAVGMSRDAVKF 89
gi 13274548  141 AQIEVIPCKVCGDKSSGVHYGVITCEGCKGFFRRSQSSivNYQCPRqkNCVVDRVNRNRCQYCRLKKCIELGMSRDAVKF 220
gi 47225409    1 AQIEVIPCKICGDKSSGVHYGVITCEGCKGFFRRSQLPtvSYSCSRqsNCQIDRASRNRCQHCRLQKCLAQGMSRDGESR 80
gi 189534292   4 AQIEVIPCKICGDKSSGVHYGVITCEGCKGFFRRSQSSsvQYSCSRqsNCPIDRASRNRCQSCRLKKCVAQGMSRDAVKF 83
gi 148706778  24 SQIEVIPCKICGDKSSGIHYGVITCEGCKGFFRRSQQCnvAYSCTRqqNCPIDRTSRNRCQHCRLQKCLALGICQVWPNV 103
                         90
                 ....*....|....*
Feature 1                       
gi 118344390 238 GRMSKKQRDRLYLEV 252
gi 130490232  83 GRMSKKQRDSLYAEV 97
gi 45384158   83 GRMSKKQRDSLYAEV 97
gi 585482    177 GRMSKKQREKVEDEV 191
gi 124028632  94 GRMSKKQRDSLYAEV 108
gi 118404556  90 GRMSKKQRDSLYAEV 104
gi 13274548  221 GRMSKKQREKVEDEV 235
gi 47225409   81 AAADPTFPWLLPGTS 95
gi 189534292  84 GRMSKRQRDSLFAEV 98
gi 148706778 104 QEAEGQSTCRSAETT 118

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