General information
PDB ID 4KUD
Title CRYSTAL STRUCTURE OF N-TERMINAL ACETYLATED SIR3 BAH DOMAIN D205N MUTANT IN COMPLEX WITH YEAST NUCLEOSOME CORE PARTICLE
PDB header STRUCTURAL PROTEIN/TRANSCRIPTION/DNA
Date 2013-05-22
Experimental method X-RAY DIFFRACTION
Resolution (A) 3.2
Kind dna
Organism 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:
pdb4kud.pdb ABCDEFGHKL IJ 0
Biounits:
4kud.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 P61830_39-132 2.9e-41 1 CL0012 A 38 131 IJ  H-Bb H-Mj S-Bb L-Bb L-Mn 
CENP-T_C Domain P02309_19-99 7.4e-09 1 CL0012 B 19 98 IJ  H-Bb S-Bb L-Bb 
Histone Domain P04912_17-92 8.1e-16 1 CL0012 C 16 91 IJ  H-Bb S-Bb L-Bb 
Histone Domain P02293_37-105 4.9e-17 1 CL0012 D 37 104 IJ  H-Bb S-Bb L-Bb 
Histone Domain P61830_39-132 7e-42 1 CL0012 E 36 131 IJ  H-Bb H-Mj S-Bb L-Bb 
CENP-T_C Domain P02309_19-99 7.9e-09 1 CL0012 F 18 98 IJ  H-Bb H-Mj S-Bb L-Bb 
Histone Domain P04912_17-92 4.2e-16 1 CL0012 G 15 91 IJ  H-Bb S-Bb L-Bb 
Histone Domain P02293_37-105 3e-17 1 CL0012 H 36 104 IJ  H-Bb S-Bb L-Bb 
BAH Domain P06701_48-188 2e-24 1 No_clan K 48 188   
BAH Domain P06701_48-188 2e-24 1 No_clan L 48 188   
Histone_H2A_C Family P04912_93-122 8e-17 1 No_clan C 92 118   
Histone_H2A_C Family P04912_93-122 8.6e-18 1 No_clan G 92 119   
SCOP domains
No SCOP domains
GO terms
Protein chains: GO type: GO description:
A/E=1-136 C CENP-A containing nucleosome
A/E=1-136 C nuclear nucleosome
A/E=1-136 C nucleus
A/E=1-136 C replication fork protection complex
A/E=1-136 F DNA binding
A/E=1-136 F protein heterodimerization activity
A/E=1-136 P chromatin assembly or disassembly
A/E=1-136 P global genome nucleotide-excision repair
A/E=1-136 P rRNA transcription
A/E=1-136 P sexual sporulation resulting in formation of a cellular spore
B/F=1-103 C host cell nucleus
B/F=1-103 C nuclear nucleosome
B/F=1-103 C replication fork protection complex
B/F=1-103 F DNA binding
B/F=1-103 F protein heterodimerization activity
B/F=1-103 P chromatin assembly or disassembly
B/F=1-103 P histone H3-K79 methylation
B/F=1-103 P nucleosome assembly
B/F=1-103 P sexual sporulation resulting in formation of a cellular spore
B/F=1-103 P transfer RNA gene-mediated silencing
C/G=1-132 C nuclear chromatin
C/G=1-132 C nuclear nucleosome
C/G=1-132 C replication fork protection complex
C/G=1-132 F DNA binding
C/G=1-132 F protein heterodimerization activity
C/G=1-132 P chromatin assembly or disassembly
C/G=1-132 P chromatin organization
C/G=1-132 P chromatin silencing
C/G=1-132 P DNA repair
D/H=1-131 C nuclear nucleosome
D/H=1-131 C replication fork protection complex
D/H=1-131 F DNA binding
D/H=1-131 F protein heterodimerization activity
D/H=1-131 P chromatin assembly or disassembly
D/H=1-131 P negative regulation of transcription by RNA polymerase II
D/H=1-131 P nucleosome assembly
D/H=1-131 P postreplication repair
K/L=2-219 C chromatin silencing complex
K/L=2-219 C chromosome, telomeric region
K/L=2-219 C mitochondrion
K/L=2-219 C nuclear chromosome, telomeric region
K/L=2-219 C nuclear heterochromatin
K/L=2-219 C nucleolus
K/L=2-219 F chromatin binding
K/L=2-219 F double-stranded DNA binding
K/L=2-219 F identical protein binding
K/L=2-219 F nucleosomal histone binding
K/L=2-219 F nucleosome binding
K/L=2-219 F single-stranded DNA binding
K/L=2-219 P chromatin silencing at telomere
K/L=2-219 P double-strand break repair via nonhomologous end joining
K/L=2-219 P establishment of protein-containing complex localization to telomere
K/L=2-219 P heterochromatin assembly
K/L=2-219 P negative regulation of chromatin silencing involved in replicative cell aging
K/L=2-219 P nuclear-transcribed mRNA catabolic process, non-stop decay
K/L=2-219 P silent mating-type cassette heterochromatin assembly
K/L=2-219 P telomere tethering at nuclear periphery
Sequences
Download file with secondary structure created by Stride  
4kud.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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