SMTL ID : 5t9j.2 (1 other biounit)

Crystal Structure of human GEN1 in complex with Holliday junction DNA in the upper interface

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

homo-dimer

Ligands

15 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 4 residues within 4Å: Chain A: R.115, H.119, E.122 Ligands: GOL.4 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.119 GOL.2: 3 residues within 4Å: Chain A: I.126, P.127, W.128 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.128 GOL.3: 0 residues within 4Å: (No contacts) 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.146 GOL.4: 4 residues within 4Å: Chain A: M.74, R.115, Q.130 Ligands: GOL.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.115, A:Q.130 GOL.5: 5 residues within 4Å: Chain A: T.64, K.69, Y.348, H.381, Y.382 No protein-ligand interaction detected (PLIP) GOL.6: 3 residues within 4Å: Chain A: G.146, H.147, D.149 No protein-ligand interaction detected (PLIP) GOL.7: 3 residues within 4Å: Chain A: K.374 Chain C: G.3, C.4 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.374 GOL.9: 5 residues within 4Å: Chain B: R.115, L.118, H.119, E.122, W.128 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:H.119 GOL.10: 4 residues within 4Å: Chain B: P.127, W.128, K.344, R.347 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:W.128, B:W.128, B:K.344 GOL.11: 4 residues within 4Å: Chain B: R.347, Y.348, Y.382, E.386 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.347 GOL.12: 4 residues within 4Å: Chain B: T.26, G.146, H.147, D.149 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.26, B:G.146, B:H.147 GOL.13: 2 residues within 4Å: Chain B: R.401, V.403 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.401, B:R.401 GOL.15: 3 residues within 4Å: Chain A: Y.62, M.172 Chain C: G.3 No protein-ligand interaction detected (PLIP) GOL.16: 4 residues within 4Å: Chain C: G.10, T.11 Chain E: A.10 Chain F: G.9 No protein-ligand interaction detected (PLIP) GOL.17: 4 residues within 4Å: Chain C: C.9, G.10 Chain E: A.10, G.11 No protein-ligand interaction detected (PLIP)

2 x MG: MAGNESIUM ION(Non-covalent)

MG.8: 4 residues within 4Å: Chain A: N.30, E.75, E.134, A.135 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.134, A:E.134 MG.14: 3 residues within 4Å: Chain B: E.75, E.134, A.135 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:E.75, B:E.134, B:E.134

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, S.H. et al., Human Holliday junction resolvase GEN1 uses a chromodomain for efficient DNA recognition and cleavage. Elife (2015)

Release Date

2016-09-21

Peptides

Flap endonuclease GEN homolog 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Flap endonuclease GEN homolog 1

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