SMTL ID : 3hl8.1

Crystal structure of exonuclease I in complex with inhibitor BCBP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

monomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 1 residues within 4Å: Chain A: D.15 6 PLIP interactions: 1 interactions with chain A, 5 Ligand-Water interactions Metal complexes: A:D.15, H2O.1, H2O.1, H2O.1, H2O.1, H2O.1

1 x BBP: (5R)-3-tert-butyl-1-(6-chloro-1,3-benzothiazol-2-yl)-4,5-dihydro-1H-pyrazol-5-ol(Non-covalent)

BBP.2: 12 residues within 4Å: Chain A: P.228, W.245, L.264, A.312, N.313, R.316, P.317, R.327, C.330, L.331, L.334 Ligands: DMS.4 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:P.228, A:W.245, A:W.245, A:A.312, A:N.313, A:R.327, A:L.331 Hydrogen bonds: A:R.327, A:R.327

2 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.3: 9 residues within 4Å: Chain A: Y.145, L.161, P.162, A.238, W.239, R.240, G.241, R.322, L.323 No protein-ligand interaction detected (PLIP) DMS.4: 3 residues within 4Å: Chain A: R.327, L.331 Ligands: BBP.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.327, A:R.327

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 9 residues within 4Å: Chain A: Y.16, E.17, T.18, G.20, T.21, A.63, I.66, T.67, F.107 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.18, A:G.20, A:G.20 Water bridges: A:Y.16 EDO.6: 5 residues within 4Å: Chain A: R.148, R.203, L.204, Y.207, T.314 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.203 EDO.7: 8 residues within 4Å: Chain A: F.120, Y.121, D.122, P.123, F.372, R.377, M.380, K.381 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.381

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lu, D. et al., Small-molecule tools for dissecting the roles of SSB/protein interactions in genome maintenance. Proc.Natl.Acad.Sci.USA (2010)

Release Date

2010-01-19

Peptides

Exodeoxyribonuclease I: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Exodeoxyribonuclease I

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