SMTL ID : 8ouy.1

Human RAD51B-RAD51C-RAD51D-XRCC2 (BCDX2) complex, 3.4 A resolution

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-mer

Ligands

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

ADP.1: 13 residues within 4Å: Chain B: P.127, G.128, V.129, G.130, K.131, T.132, Q.133, R.168, R.322, I.341, K.342, P.343 Ligands: MG.2 10 PLIP interactions: 10 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.133, B:R.322 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 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:T.132 MG.4: 4 residues within 4Å: Chain C: T.114, N.138, G.140 Ligands: ATP.3 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:T.114 MG.5: 2 residues within 4Å: Chain D: T.55 Ligands: ATP.6 No protein-ligand interaction detected (PLIP)

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

ATP.3: 24 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, R.145, Q.148, G.288, R.291, I.311, G.312 Ligands: MG.4 18 PLIP interactions: 15 interactions with chain C, 3 interactions with chain B Hydrogen bonds: C:G.110, C:S.111, C:G.112, C:K.113, C:T.114, C:T.114, C:T.114, C:Q.115, C:Q.115, C:R.145, C:Q.148, C:G.288, C:R.291 Salt bridges: C:K.113, C:K.113, B:H.307, B:K.328, B:K.328 ATP.6: 23 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, K.243, F.253, I.272, G.273, E.274 Ligands: MG.5 12 PLIP interactions: 9 interactions with chain D, 3 interactions with chain C Hydrogen bonds: D:G.51, D:T.52, D:G.53, D:K.54, D:T.55, D:E.56, D:E.274, C:Q.301, C:T.303 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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