SMTL ID : 5f56.1

Structure of RecJ complexed with DNA and SSB-ct

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

1 x DC- DT- DG- DA- DT- DG- DG- DC- DA: DNA (5'-D(*CP*TP*GP*AP*TP*GP*GP*CP*A)-3')(Non-covalent)

DC-DT-DG-DA-DT-DG-DG-DC-DA.1: 43 residues within 4Å: Chain A: D.79, D.81, Y.114, D.135, H.159, A.222, D.223, V.224, R.265, A.268, F.269, P.273, N.276, R.280, R.313, R.314, I.349, S.352, K.353, E.356, R.373, R.393, F.394, G.395, G.396, H.397, A.400, A.401, G.402, V.477, G.478, V.483, Q.485, K.492, M.494, Y.496, N.515, W.517, E.524, H.526 Ligands: SO4.4, MN.6, MN.7 Protein-ligand interaction information (PLIP) not available

1 x ALA- ASP- LEU- PRO- PHE: ALA-ASP-LEU-PRO-PHE(Non-covalent)

ALA-ASP-LEU-PRO-PHE.2: 11 residues within 4Å: Chain A: P.553, R.554, M.557, V.572, Y.575, L.576, Y.600, G.627, P.628, K.629, T.630 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:P.553, A:V.572, A:V.572, A:Y.575, A:Y.575, A:L.576, A:Y.600, A:Y.600 Hydrogen bonds: A:G.627, A:K.629, A:T.630, A:T.630, A:T.630 Salt bridges: A:K.629

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 3 residues within 4Å: Chain A: P.438, V.439, W.663 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.439 SO4.4: 6 residues within 4Å: Chain A: R.109, G.348, S.371, R.373, A.401 Ligands: DC-DT-DG-DA-DT-DG-DG-DC-DA.1 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:G.348, A:S.371, A:S.371 Water bridges: A:R.109, A:R.109, A:I.349, A:I.349 Salt bridges: A:R.109, A:R.373 SO4.5: 2 residues within 4Å: Chain A: S.606, R.609 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.609

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.6: 5 residues within 4Å: Chain A: D.79, D.81, D.135 Ligands: DC-DT-DG-DA-DT-DG-DG-DC-DA.1, MN.7 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.79, A:D.81, A:D.81, A:D.135 MN.7: 6 residues within 4Å: Chain A: D.83, D.135, H.159, D.223 Ligands: DC-DT-DG-DA-DT-DG-DG-DC-DA.1, MN.6 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.83, A:D.135, A:H.159, A:D.223

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cheng, K. et al., Structural basis for DNA 5 -end resection by RecJ. Elife (2016)

Release Date

2016-06-15

Peptides

Single-stranded-DNA-specific exonuclease: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Single-stranded-DNA-specific exonuclease

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