SMTL ID : 8ouz.1

Human RAD51B-RAD51C-RAD51D-XRCC2 (BCDX2) complex, 2.2 A resolution

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-mer

Ligands

1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 15 residues within 4Å: Chain B: A.126, P.127, G.128, V.129, G.130, K.131, T.132, Q.133, R.168, Q.285, R.322, I.341, K.342, P.343 Ligands: MG.2 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:G.128, B:V.129, B:G.130, B:K.131, B:T.132, B:T.132, B:Q.133, B:Q.285, B:R.322 Water bridges: B:T.132 Salt bridges: B:K.131

3 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain B: T.132, S.163 Ligands: ADP.1 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:T.132, H2O.1 MG.4: 4 residues within 4Å: Chain C: T.114, N.138, D.206 Ligands: ATP.3 2 PLIP interactions: 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:T.114, H2O.3 MG.6: 2 residues within 4Å: Chain D: T.55 Ligands: ATP.5 2 PLIP interactions: 1 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:T.55, H2O.6

2 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.3: 25 residues within 4Å: Chain B: H.307, Y.327, K.328, S.329, P.330, S.331, Q.332, K.333, E.334 Chain C: G.108, P.109, G.110, S.111, G.112, K.113, T.114, Q.115, N.138, R.145, Q.148, G.288, R.291, I.311, G.312 Ligands: MG.4 21 PLIP interactions: 15 interactions with chain C, 6 interactions with chain B Hydrogen bonds: C:G.110, C:S.111, C:S.111, C:G.112, C:K.113, C:T.114, C:Q.115, C:Q.115, C:N.138, C:G.288, C:R.291, B:S.329, B:S.331, B:K.333 Water bridges: C:K.113, C:H.250, B:K.328 Salt bridges: C:K.113, C:K.113, B:H.307, B:K.328 ATP.5: 22 residues within 4Å: Chain C: F.270, K.297, S.298, S.299, R.300, Q.301, P.302, T.303 Chain D: E.50, G.51, T.52, G.53, K.54, T.55, E.56, H.86, R.91, F.253, I.272, G.273, E.274 Ligands: MG.6 13 PLIP interactions: 12 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:G.51, D:T.52, D:T.52, D:G.53, D:K.54, D:T.55, D:E.56, D:E.274 Water bridges: D:D.84, D:Q.196 Salt bridges: D:K.54, D:K.54, C:K.297

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Greenhough, L.A. et al., Structure and function of the RAD51B-RAD51C-RAD51D-XRCC2 tumour suppressor. Nature (2023)

Release Date

2023-06-21

Peptides

DNA repair protein RAD51 homolog 2: A
DNA repair protein RAD51 homolog 3: B
DNA repair protein RAD51 homolog 4: C
DNA repair protein XRCC2: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

DNA repair protein RAD51 homolog 2

DNA repair protein RAD51 homolog 3

DNA repair protein RAD51 homolog 4

DNA repair protein XRCC2

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