SCOP 1.75: Family b.34.13.2: Chromo domain

Lineage for Family b.34.13.2: Chromo domain

1. Root: SCOP 1.75

2. Class b: All beta proteins [48724] (174 folds)

3. Fold b.34: SH3-like barrel [50036] (21 superfamilies)
   barrel, partly opened; n*=4, S*=8; meander
   the last strand is interrupted by a turn of 3-10 helix

4. Superfamily b.34.13: Chromo domain-like [54160] (3 families)
   SH3-like barrel is capped by a C-terminal helix

5. Family b.34.13.2: Chromo domain [54165] (7 proteins)
   lacks the SH3-like barrel first strand that can be complemented by bound peptide ligand; in shadow chromo domain the corresponding site is altered by insertion; similarity to the IL8-like fold

Proteins:

1. ATP-dependent helicase CHD1 (Chromo domain protein 1) [141220] (2 species)

   1. Species Baker's yeast (Saccharomyces cerevisiae) [TaxId:4932] [141222] (2 PDB entries)
      Uniprot P32657 172-252! Uniprot P32657 249-347

   2. Species Human (Homo sapiens) [TaxId:9606] [141221] (5 PDB entries)
      Uniprot O14646 269-366! Uniprot O14646 270-355! Uniprot O14646 366-445! Uniprot O14646 367-443! Uniprot O14646 367-445

2. Chromobox protein homolog 8 [141214] (1 species)
   Polycomb 3 homolog, Pc3

   • Species Mouse (Mus musculus) [TaxId:10090] [141215] (1 PDB entry)
     Uniprot Q9QXV1 7-58

3. Chromodomain protein, Y-like isoform [141218] (1 species)

   • Species Human (Homo sapiens) [TaxId:9606] [141219] (1 PDB entry)
     Uniprot Q32NC5 1-66

4. CpSRP43 [141216] (1 species)
   Signal recognition particle 43 kDa protein, chloroplast precursor (CAO)

   • Species Thale cress (Arabidopsis thaliana) [TaxId:3702] [141217] (6 PDB entries)
     Uniprot O22265 265-319! Uniprot O22265 320-373! Uniprot O22265 84-128

5. Heterochromatin protein 1, HP1 [54166] (3 species)
   duplication: consists of two homologous domains, N-terminal chromo domain and C-terminal chromo shadow domain

   1. Species Fission yeast (Schizosaccharomyces pombe), SWI6 [TaxId:4896] [54169] (1 PDB entry)

   2. Species Fruit fly (Drosophila melanogaster) [TaxId:7227] [75343] (3 PDB entries)
      Uniprot P05205 23-74

   3. Species Mouse (Mus musculus), HP1 beta (MOD1, M31) [TaxId:10090] [54167] (5 PDB entries)

6. Histone methyltransferase clr4, chromo domain [64217] (1 species)

   • Species Fission yeast (Schizosaccharomyces pombe) [TaxId:4896] [64218] (1 PDB entry)

7. Polycomb protein, Pc [101688] (1 species)

   • Species Fruit fly (Drosophila melanogaster) [TaxId:7227] [101689] (2 PDB entries)

More info for Family b.34.13.2: Chromo domain

Timeline for Family b.34.13.2: Chromo domain:

• Family b.34.13.2: Chromo domain first appeared (with stable ids) in SCOP 1.55, called Family d.9.2.2: Chromo domain
  
• Family b.34.13.2: Chromo domain appears in SCOP 1.73
  
• Family b.34.13.2: Chromo domain appears in SCOPe 2.01
  
• Family b.34.13.2: Chromo domain appears in the current release, SCOPe 2.08