SMTL ID : 6p4f.1 (1 other biounit)

Crystal structure of the XPB-Bax1-forked DNA ternary complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.55 Å

Oligo State

hetero-1-1-mer

Ligands

15 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.1: 5 residues within 4Å: Chain A: D.156 Chain C: A.8, A.9 Chain D: G.18 Ligands: PO4.11 No protein-ligand interaction detected (PLIP) MG.2: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.3: 2 residues within 4Å: Chain A: S.246, L.247 No protein-ligand interaction detected (PLIP) MG.4: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.6: 5 residues within 4Å: Chain A: L.273, L.276, D.278, F.279, L.282 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.278 MG.12: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.13: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.14: 1 residues within 4Å: Chain B: E.140 No protein-ligand interaction detected (PLIP) MG.15: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.16: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.17: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.23: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.24: 2 residues within 4Å: Chain C: A.11 Chain D: C.11 No protein-ligand interaction detected (PLIP) MG.26: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

9 x CL: CHLORIDE ION(Non-functional Binders)

CL.7: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.8: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.9: 1 residues within 4Å: Chain A: D.134 Ligand excluded by PLIP CL.10: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.18: 1 residues within 4Å: Chain B: E.103 Ligand excluded by PLIP CL.19: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.20: 1 residues within 4Å: Chain B: G.278 Ligand excluded by PLIP CL.21: 1 residues within 4Å: Chain D: T.9 Ligand excluded by PLIP CL.22: 1 residues within 4Å: Chain B: L.18 Ligand excluded by PLIP

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.11: 7 residues within 4Å: Chain B: E.205 Chain C: C.7, A.8 Chain D: G.18, A.19, G.20 Ligands: MG.1 No protein-ligand interaction detected (PLIP) PO4.25: 5 residues within 4Å: Chain B: E.6 Chain C: C.10, A.11 Chain D: T.14, G.15 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.6

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

He, F. et al., Structural basis of the XPB helicase-Bax1 nuclease complex interacting with the repair bubble DNA. Nucleic Acids Res. (2020)

Release Date

2020-06-17

Peptides

DNA-dependent ATPase XPBII: A
Endonuclease Bax1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

DNA-dependent ATPase XPBII

Endonuclease Bax1

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