NCBI Conserved Domain Database
PubMed Nucleotide Protein Structure CDD Taxonomy Help?
CD: cd00024.2, CHROMO, Query added PSSM-Id: 14766 Source: Smart
Description: Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus. Experimental evidence implicates the chromo domain in the binding activity of these proteins to methylated histone tails and maybe RNA. May occur as single instance, in a tandem arrangement or followd by a related "chromo shadow" domain.
Taxa:  root References: 6 Pubmed Links Related: smart00298
Status: curated CD Created: 1-Nov-2000 Updated: 21-Oct-2002
Aligned: 122 rows PSSM: 55 columns Representative: Consensus
Proteins: [Click here for CDART summary of Proteins containing cd00024]
 with   using   (To display structure, download Cn3D)
 as  color at  feature 
  
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
Feature 1          #                    # #  #   #   #   ##             
consensus      1 EEYEVEKILDHRKKKdgGEYEYLVKWKGYSYSEDTWEPEENLEDcKELIDEFKKK 55
query          9 hVFAVEGIEKKRLRK--GRMEYLVKWRGWSPKYNTWEPEENILD-PRLLVAFQNR 60
1AP0          12 EEYVVEKVLDRRVvk--gkVEYLLKWKGFsdeDNTWEPEENLdcp-dlIAEFLQS 63
1GUW_A        12 EEYVVEKVLDRRVvk--gkVEYLLKWKGFsdeDNTWEPEENLdcp-dlIAEFLQS 63
gi 1519343    47 DQYEVEKILDSRFnpktkqKEYLVKWENWpieDSTWEPYEHLsnvkeiVQAFEKK 101
gi 6650019  1164 NEFEVEKILDKKG------QRYLVKWKGYdesENTWEPRINLancyqlLRQFQKW 1212
gi 7109239    15 QEYEVEKIIKTKYddqlrtNLYLVKWKGYadhLNTWEPEWNLenskeiLNDFKKK 69
gi 12585200    9 HVFAVESIEKKRIrk--grVEYLVKWRGWspkYNTWEPEENIldp-rlLIAFQNR 60
gi 129718     24 LVYAAEKIIQKRVkk--gvVEYRVKWKGWnqrYNTWEPEVNIldr-rlIDIYEQT 75
gi 7488929    53 GFFEIEHIRRKRVkk--geVQYLVKWRGWpesANTWEPVEHLeavpdvVDAFEQR 105

Feature 1: histone binding site
Evidence: Structure: 1GUW binds the Lysine 9-Methyl Histone H3 N-terminal Peptide
 
  with Cn3D 4.1
Structure: determinants of specificity for methylated Lys
 
  with Cn3D 4.1
Comment: induced-fit mechanism: the flexible N-terminal tail moves closer in the peptide-bound state
Citation: PMID 11882902

Citing CDD: Marchler-Bauer A, Anderson JB, DeWeese-Scott C, Fedorova ND, Geer LY, He S, Hurwitz DI, Jackson JD, Jacobs AR, Lanczycki CJ, Liebert CA, Liu C, Madej T, Marchler GH, Mazumder R, Nikolskaya AN, Panchenko AR, Rao BS, Shoemaker BA, Simonyan V, Song JS, Thiessen PA, Vasudevan S, Wang Y, Yamashita RA, Yin JJ, Bryant SH (2003), "CDD: a curated Entrez database of conserved domain alignments", Nucleic Acids Res. 31: 383-387

 


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