General information
PDB ID 2F8N
Title 2.9 ANGSTROM X-RAY STRUCTURE OF HYBRID MACROH2A NUCLEOSOMES
PDB header STRUCTURAL PROTEIN/DNA
Date 2005-12-02
Experimental method X-RAY DIFFRACTION
Resolution (A) 2.9
Kind dna
Organism HOMO SAPIENS, XENOPUS LAEVIS, MUS MUSCULUS
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PDB PDBe MMDB Jena OCA
CATH PDBsum HSSP PDBePISA UniProt
ProteopediA BIPA
Composition of PDB entry and biounits
File: Protein chains: DNA chains: RNA chains: No. of models: Action:
PDB entry:
pdb2f8n.pdb ABDEFHGK IJ 0
Biounits:
2f8n.pdb1.pdb ABDEFHGK IJ 1
Pfam domains
Name: Type: Domain: E-value: Significance: Clan: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
Histone Domain P84233_39-132 3.7e-46 1 CL0012 A 438 531 IJ  H-Bb H-Mj S-Bb S-Mn L-Bb L-Mn 
CENP-T_C Domain P62799_26-99 4.4e-08 1 CL0012 B 26 98 IJ  H-Bb S-Bb L-Bb 
Histone Domain Q9D2U9_34-102 1.4e-21 1 CL0012 D 1230 1298 IJ  H-Bb H-Mj S-Bb L-Bb 
Histone Domain P84233_39-132 3.7e-46 1 CL0012 E 638 731 IJ  H-Bb H-Mj S-Bb L-Bb L-Mn 
CENP-T_C Domain P62799_21-99 5.1e-08 1 CL0012 F 225 298 IJ  S-Bb L-Bb 
Histone Domain O75367_12-88 1.5e-13 1 CL0012 G 1012 1090 IJ  H-Bb S-Bb S-Mn L-Bb L-Mn 
Histone Domain P02281_33-102 3e-21 1 CL0012 H 1430 1498 IJ  H-Bb H-Mj S-Bb L-Bb 
Histone Domain Q8CGP6_15-91 4.3e-16 1 CL0012 K 14 90 IJ  H-Bb S-Bb L-Bb 
Histone_H2A_C Family O75367_89-117 3.4e-17 1 No_clan G 1091 1119   
Histone_H2A_C Family Q8CGP6_92-119 2.4e-17 1 No_clan K 91 118   
SCOP domains
Classification: Protein: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
Class: All alpha proteins
  Fold: Histone-fold
    Superfamily: Histone-fold
      Family: Nucleosome core histones
macro-H2A.1, histone domain G 1014 1119 IJ  H-Bb S-Bb S-Mn L-Bb 
Class: All alpha proteins
  Fold: Histone-fold
    Superfamily: Histone-fold
      Family: Nucleosome core histones
Histone H2B H 1430 1522 IJ  H-Bb H-Mj S-Bb L-Bb 
Class: All alpha proteins
  Fold: Histone-fold
    Superfamily: Histone-fold
      Family: Nucleosome core histones
Histone H3 A 438 535 IJ  H-Bb H-Mj S-Bb S-Mn L-Bb L-Mn 
Class: All alpha proteins
  Fold: Histone-fold
    Superfamily: Histone-fold
      Family: Nucleosome core histones
Histone H3 E 641 735 IJ  H-Bb H-Mj S-Bb L-Bb 
Class: All alpha proteins
  Fold: Histone-fold
    Superfamily: Histone-fold
      Family: Nucleosome core histones
Histone H4 B 24 102 IJ  H-Bb S-Bb L-Bb 
Class: All alpha proteins
  Fold: Histone-fold
    Superfamily: Histone-fold
      Family: Nucleosome core histones
Histone H4 F 224 302 IJ  H-Bb S-Bb L-Bb 
Class: All alpha proteins
  Fold: Histone-fold
    Superfamily: Histone-fold
      Family: Nucleosome core histones
Histone H2A K 14 118 IJ  H-Bb S-Bb L-Bb 
Class: All alpha proteins
  Fold: Histone-fold
    Superfamily: Histone-fold
      Family: Nucleosome core histones
Histone H2B D 1230 1322 IJ  H-Bb S-Bb L-Bb 
GO terms
Protein chains: GO type: GO description:
A/E=1-136 C nucleoplasm
A/E=1-136 C nucleosome
A/E=1-136 F DNA binding
A/E=1-136 F protein heterodimerization activity
B/F=1-103 C host cell nucleus
B/F=1-103 C nucleosome
B/F=1-103 C nucleus
B/F=1-103 F DNA binding
B/F=1-103 F protein heterodimerization activity
B/F=1-103 P DNA-templated transcription, initiation
D=1-126 C cytosol
D=1-126 C nucleoplasm
D=1-126 C nucleosome
D=1-126 C nucleus
D=1-126 F DNA binding
D=1-126 F protein heterodimerization activity
D=1-126 P nucleosome assembly
G=1-120 C Barr body
G=1-120 C condensed chromosome
G=1-120 C extracellular exosome
G=1-120 C nuclear chromatin
G=1-120 C nuclear chromosome
G=1-120 C nuclear chromosome, telomeric region
G=1-120 C nucleolus
G=1-120 C nucleoplasm
G=1-120 C nucleosome
G=1-120 C nucleus
G=1-120 C pericentric heterochromatin
G=1-120 C sex chromatin
G=1-120 F chromatin DNA binding
G=1-120 F DNA binding
G=1-120 F double-stranded methylated DNA binding
G=1-120 F enzyme binding
G=1-120 F nucleosomal DNA binding
G=1-120 F promoter-specific chromatin binding
G=1-120 F protein heterodimerization activity
G=1-120 F protein kinase binding
G=1-120 F protein serine/threonine kinase inhibitor activity
G=1-120 F rDNA binding
G=1-120 F RNA polymerase II core promoter sequence-specific DNA binding
G=1-120 F RNA polymerase II transcription regulatory region sequence-specific DNA binding
G=1-120 F transcription regulatory region sequence-specific DNA binding
G=1-120 P chromatin organization
G=1-120 P chromatin silencing
G=1-120 P dosage compensation
G=1-120 P establishment of protein localization to chromatin
G=1-120 P negative regulation of cell cycle G2/M phase transition
G=1-120 P negative regulation of gene expression, epigenetic
G=1-120 P negative regulation of histone H3-K27 methylation
G=1-120 P negative regulation of histone H3-K4 methylation
G=1-120 P negative regulation of histone phosphorylation
G=1-120 P negative regulation of protein localization to chromosome, telomeric region
G=1-120 P negative regulation of protein serine/threonine kinase activity
G=1-120 P negative regulation of response to oxidative stress
G=1-120 P negative regulation of transcription by RNA polymerase II
G=1-120 P negative regulation of transcription of nucleolar large rRNA by RNA polymerase I
G=1-120 P nucleosome assembly
G=1-120 P positive regulation of endodermal cell differentiation
G=1-120 P positive regulation of gene expression, epigenetic
G=1-120 P positive regulation of keratinocyte differentiation
G=1-120 P positive regulation of maintenance of mitotic sister chromatid cohesion
G=1-120 P positive regulation of response to oxidative stress
G=1-120 P regulation of gene expression, epigenetic
G=1-120 P regulation of lipid metabolic process
G=1-120 P regulation of response to oxidative stress
H=5-126 C nucleosome
H=5-126 C nucleus
H=5-126 F DNA binding
H=5-126 F protein heterodimerization activity
K=1-128 C nuclear chromatin
K=1-128 C nucleosome
K=1-128 F DNA binding
K=1-128 F protein heterodimerization activity
K=1-128 P chromatin organization
K=1-128 P chromatin silencing
Sequences
Download file with secondary structure created by Stride  
2f8n.pdb1.pdb:   [ download sequences in FASTA format ]
I (dna): 
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J (dna): 
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A (protein): 
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B (protein): 
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D (protein): 
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E (protein): 
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F (protein): 
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G (protein): 
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H (protein): 
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K (protein): 
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