General information
PDB ID 4LD9
Title CRYSTAL STRUCTURE OF THE N-TERMINALLY ACETYLATED BAH DOMAIN OF SIR3 BOUND TO THE NUCLEOSOME CORE PARTICLE
PDB header NUCLEAR PROTEIN/TRANSCRIPTION/DNA
Date 2013-06-24
Experimental method X-RAY DIFFRACTION
Resolution (A) 3.31
Kind dna
Organism XENOPUS LAEVIS, SACCHAROMYCES CEREVISIAE
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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:
pdb4ld9.pdb ABCDEFGHKL IJ 0
Biounits:
4ld9.pdb1.pdb ABCDEFGHKL 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_37-132 1.5e-46 1 CL0012 A 37 131 IJ   
CENP-T_C Domain P62799_18-99 5.8e-08 1 CL0012 B 21 98 IJ   
Histone Domain P06897_19-91 2.4e-15 1 CL0012 C 20 90 J   
Histone Domain P02281_41-102 2.4e-20 1 CL0012 D 38 102 I   
Histone Domain P84233_43-132 4.3e-43 1 CL0012 E 44 131 IJ   
CENP-T_C Domain P62799_18-99 4.8e-08 1 CL0012 F 24 98 IJ   
Histone Domain P06897_19-91 1.8e-15 1 CL0012 G 18 90 IJ   
Histone Domain P02281_33-102 4.4e-21 1 CL0012 H 35 102 IJ   
BAH Domain P06701_48-188 3e-23 1 No_clan K 48 188   
BAH Domain P06701_48-188 1.8e-24 1 No_clan L 48 188   
Histone_H2A_C Family P06897_92-120 2.5e-16 1 No_clan C 91 117   
Histone_H2A_C Family P06897_92-120 2.6e-16 1 No_clan G 91 117   
SCOP domains
No SCOP domains
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
C/G=1-130 C nucleosome
C/G=1-130 C nucleus
C/G=1-130 F DNA binding
C/G=1-130 F protein heterodimerization activity
D/H=1-126 C nucleosome
D/H=1-126 C nucleus
D/H=1-126 F DNA binding
D/H=1-126 F protein heterodimerization activity
K/L=2-229 C chromatin silencing complex
K/L=2-229 C chromosome, telomeric region
K/L=2-229 C mitochondrion
K/L=2-229 C nuclear chromosome, telomeric region
K/L=2-229 C nuclear heterochromatin
K/L=2-229 C nucleolus
K/L=2-229 F chromatin binding
K/L=2-229 F double-stranded DNA binding
K/L=2-229 F identical protein binding
K/L=2-229 F nucleosomal histone binding
K/L=2-229 F nucleosome binding
K/L=2-229 F single-stranded DNA binding
K/L=2-229 P chromatin silencing at telomere
K/L=2-229 P double-strand break repair via nonhomologous end joining
K/L=2-229 P establishment of protein-containing complex localization to telomere
K/L=2-229 P heterochromatin assembly
K/L=2-229 P negative regulation of chromatin silencing involved in replicative cell aging
K/L=2-229 P nuclear-transcribed mRNA catabolic process, non-stop decay
K/L=2-229 P silent mating-type cassette heterochromatin assembly
K/L=2-229 P telomere tethering at nuclear periphery
Sequences
Download file with secondary structure created by Stride  
4ld9.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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C (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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L (protein): 
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