› 6ltj

Electron Microscopy
3.7Å resolution

Structure of nucleosome-bound human BAF complex

Released:
DOI: 10.2210/pdb6ltj/pdb
PDB entry 6ltj coloured by chain, front view.
PDB entry 6ltj coloured by chain, side view.
PDB entry 6ltj coloured by chain, top view.
Source organisms:
Primary publication:
Structure of nucleosome-bound human BAF complex.
He S, Wu Z, Tian Y, Yu Z, Yu J, Wang X, Li J, Liu B, Xu Y
Science 367 875-881 (2020)
PMID: 32001526
Related structures: EMD-0974

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero icosamer (preferred)
PDBe Complex ID:
PDB-CPX-120225 (preferred)
Entry contents:
13 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (15 distinct):
Histone H3.3 Chains: A, E
Molecule details ›
Chains: A, E
Length: 136 amino acids
Theoretical weight: 15.36 KDa
Source organism: Xenopus laevis
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q6PI79 (Residues: 1-136; Coverage: 100%)
Sequence domains: Core histone H2A/H2B/H3/H4
Histone H4 Chains: B, F
Molecule details ›
Chains: B, F
Length: 103 amino acids
Theoretical weight: 11.39 KDa
Source organism: Xenopus laevis
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P62799 (Residues: 1-103; Coverage: 100%)
Sequence domains: Centromere kinetochore component CENP-T histone fold
Histone H2A type 1 Chains: C, G
Molecule details ›
Chains: C, G
Length: 130 amino acids
Theoretical weight: 13.99 KDa
Source organism: Xenopus laevis
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P06897 (Residues: 1-130; Coverage: 100%)
Sequence domains:
Histone H2B 1.1 Chains: D, H
Molecule details ›
Chains: D, H
Length: 126 amino acids
Theoretical weight: 13.87 KDa
Source organism: Xenopus laevis
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P02281 (Residues: 1-126; Coverage: 100%)
Sequence domains: Core histone H2A/H2B/H3/H4
Transcription activator BRG1 Chain: I
Molecule details ›
Chain: I
Length: 1647 amino acids
Theoretical weight: 184.92 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: P51532 (Residues: 1-1647; Coverage: 100%)
Gene names: BAF190A, BRG1, SMARCA4, SNF2B, SNF2L4
Sequence domains:
Actin-like protein 6A Chain: J
Molecule details ›
Chain: J
Length: 407 amino acids
Theoretical weight: 45.24 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: O96019 (Residues: 12-417; Coverage: 95%)
Gene names: ACTL6A, BAF53, BAF53A, INO80K
Sequence domains: Actin
Actin, cytoplasmic 1 Chain: K
Molecule details ›
Chain: K
Length: 375 amino acids
Theoretical weight: 41.78 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: P60709 (Residues: 1-375; Coverage: 100%)
Gene name: ACTB
Sequence domains: Actin
AT-rich interactive domain-containing protein 1A Chain: L
Molecule details ›
Chain: L
Length: 1295 amino acids
Theoretical weight: 142.32 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: O14497 (Residues: 991-2285; Coverage: 57%)
Gene names: ARID1A, BAF250, BAF250A, C1orf4, OSA1, SMARCF1
Sequence domains:
SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1 Chain: M
Molecule details ›
Chain: M
Length: 336 amino acids
Theoretical weight: 38.02 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q12824 (Residues: 1-113, 172-385; Coverage: 85%)
Gene names: BAF47, INI1, SMARCB1, SNF5L1
Sequence domains:
SWI/SNF complex subunit SMARCC2 Chains: N, O
Molecule details ›
Chains: N, O
Length: 1214 amino acids
Theoretical weight: 133.05 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q8TAQ2 (Residues: 1-1214; Coverage: 100%)
Gene names: BAF170, SMARCC2
Sequence domains:
SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 1 Chain: P
Molecule details ›
Chain: P
Length: 515 amino acids
Theoretical weight: 58.31 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q96GM5 (Residues: 1-515; Coverage: 100%)
Gene names: BAF60A, SMARCD1
Sequence domains: SWIB/MDM2 domain
SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1 Chain: Q
Molecule details ›
Chain: Q
Length: 411 amino acids
Theoretical weight: 46.71 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q969G3 (Residues: 1-411; Coverage: 100%)
Gene names: BAF57, SMARCE1
Sequence domains: HMG (high mobility group) box
Zinc finger protein ubi-d4 Chain: R
Molecule details ›
Chain: R
Length: 292 amino acids
Theoretical weight: 32.78 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q92785 (Residues: 1-100, 209-391; Coverage: 72%)
Gene names: BAF45D, DPF2, REQ, UBID4
Sequence domains:
DNA (119-MER) Chain: X
Molecule details ›
Chain: X
Length: 119 nucleotides
Theoretical weight: 36.52 KDa
DNA (119-MER) Chain: Y
Molecule details ›
Chain: Y
Length: 119 nucleotides
Theoretical weight: 36.93 KDa

Ligands and Environments

1 bound ligand:
Ligand ZN 1 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.7Å
Relevant EMDB volumes: EMD-0974
Expression systems:
  • Escherichia coli BL21
  • Homo sapiens

Quick links

Citations

31 review citations

Emerging Properties and Functions of Actin and Actin Filaments Inside the Nucleus.
Ulferts et al. (2021)
30 more

20 mentions without citation

Proteolysis targeting chimeras (PROTACs) come of age: entering the third decade of targeted protein degradation.
Bond et al. (2021)
19 more