SMTL ID : 8r64.1

Cryo-EM structure of the FIGNL1 AAA hexamer bound to RAD51

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-6-1-mer

Ligands

6 x MG: MAGNESIUM ION

MG.1: 3 residues within 4Å: Chain A: T.181, D.233 Ligands: ATP.2 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:T.181 MG.3: 3 residues within 4Å: Chain B: T.181, D.233 Ligands: ATP.4 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:T.181 MG.5: 4 residues within 4Å: Chain C: T.181, D.233 Chain D: D.262 Ligands: ATP.6 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:T.181 MG.7: 4 residues within 4Å: Chain D: T.181, D.233 Chain E: D.262 Ligands: ATP.8 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain E Metal complexes: D:T.181, E:D.262 MG.9: 1 residues within 4Å: Ligands: ADP.10 No protein-ligand interaction detected (PLIP) MG.11: 4 residues within 4Å: Chain A: D.262 Chain F: T.181, D.233 Ligands: ATP.12 1 PLIP interactions: 1 interactions with chain F Metal complexes: F:T.181

5 x ATP: ADENOSINE-5'-TRIPHOSPHATE

ATP.2: 16 residues within 4Å: Chain A: A.137, P.176, G.177, T.178, G.179, K.180, T.181, L.182, N.279, G.338, A.339, T.342 Chain B: D.262, R.290, R.291 Ligands: MG.1 15 PLIP interactions: 12 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:A.137, A:A.137, A:G.177, A:T.178, A:G.179, A:K.180, A:T.181, A:L.182, A:N.279, A:N.279 Salt bridges: A:K.180, A:K.180, B:R.290, B:R.290, B:R.291 ATP.4: 17 residues within 4Å: Chain B: A.137, P.176, G.177, T.178, G.179, K.180, T.181, L.182, Q.234, N.279, I.309, G.338, A.339, T.342 Chain C: R.290, R.291 Ligands: MG.3 17 PLIP interactions: 4 interactions with chain C, 13 interactions with chain B Salt bridges: C:R.290, C:R.290, C:R.290, C:R.291, B:K.180, B:K.180 Hydrogen bonds: B:A.137, B:A.137, B:G.177, B:T.178, B:G.179, B:K.180, B:T.181, B:L.182, B:Q.234, B:N.279, B:N.279 ATP.6: 18 residues within 4Å: Chain C: D.135, A.137, P.176, G.177, T.178, G.179, K.180, T.181, L.182, Q.234, N.279, I.309, G.338, A.339, T.342 Chain D: R.290, R.291 Ligands: MG.5 16 PLIP interactions: 4 interactions with chain D, 12 interactions with chain C Salt bridges: D:R.290, D:R.290, D:R.290, D:R.291, C:K.180, C:K.180 Hydrogen bonds: C:A.137, C:G.177, C:T.178, C:T.178, C:G.179, C:K.180, C:T.181, C:L.182, C:Q.234, C:N.279 ATP.8: 17 residues within 4Å: Chain D: A.137, P.176, G.177, T.178, G.179, K.180, T.181, L.182, N.279, I.309, G.338, A.339, T.342 Chain E: D.262, R.290, R.291 Ligands: MG.7 16 PLIP interactions: 12 interactions with chain D, 4 interactions with chain E Hydrogen bonds: D:A.137, D:A.137, D:G.177, D:T.178, D:G.179, D:K.180, D:T.181, D:L.182, D:N.279, D:N.279 Salt bridges: D:K.180, D:K.180, E:R.290, E:R.290, E:R.290, E:R.291 ATP.12: 20 residues within 4Å: Chain A: D.262, R.290, R.291 Chain F: D.135, I.136, P.175, P.176, G.177, T.178, G.179, K.180, T.181, L.182, Q.234, N.279, I.309, G.338, A.339, T.342 Ligands: MG.11 17 PLIP interactions: 5 interactions with chain A, 12 interactions with chain F Hydrogen bonds: A:D.262, F:G.177, F:T.178, F:T.178, F:G.179, F:K.180, F:T.181, F:T.181, F:L.182, F:Q.234, F:N.279 Salt bridges: A:R.290, A:R.290, A:R.290, A:R.291, F:K.180, F:K.180

1 x ADP: ADENOSINE-5'-DIPHOSPHATE

ADP.10: 13 residues within 4Å: Chain E: I.136, A.137, P.176, G.177, T.178, G.179, K.180, T.181, L.182, I.309, G.338, T.342 Ligands: MG.9 9 PLIP interactions: 9 interactions with chain E Hydrogen bonds: E:A.137, E:G.177, E:T.178, E:G.179, E:K.180, E:T.181, E:T.181, E:T.181, E:L.182

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Carver, A. et al., Molecular basis of FIGNL1 in dissociating RAD51 from DNA and chromatin. Biorxiv (2024)

Release Date

2024-09-04

Peptides

Fidgetin-like protein 1: ABCDEF
DNA repair protein RAD51 homolog 1: G

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

C
D

D
E

E
F

F
A

G
G

Fidgetin-like protein 1

DNA repair protein RAD51 homolog 1

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