SMTL ID : 3eer.1

High resolution structure of putative organic hydroperoxide resistance protein from Vibrio cholerae O1 biovar eltor str. N16961

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

homo-dimer

Ligands

14 x ACT: ACETATE ION(Non-functional Binders)

ACT.1: 7 residues within 4Å: Chain A: P.41, K.42, E.43, G.48 Chain B: Y.13, L.33 Ligands: ZN.8 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:P.41, B:L.33 Hydrogen bonds: A:K.42 Water bridges: B:Y.13 ACT.2: 10 residues within 4Å: Chain A: C.64, N.67, A.68, H.71, C.127, P.128 Chain B: R.23, F.99 Ligands: ACT.7, ZN.11 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:H.71, B:F.99 Salt bridges: B:R.23 ACT.3: 7 residues within 4Å: Chain A: N.67, L.70, H.71, R.74 Chain B: Y.40 Ligands: ACT.7, ZN.9 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:L.70 Hydrogen bonds: A:N.67, B:Y.40 Water bridges: A:R.74, A:R.74 Salt bridges: A:H.71, A:R.74 ACT.4: 5 residues within 4Å: Chain A: A.106, H.108, S.142, G.145 Ligands: ZN.12 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.145 Salt bridges: A:H.108 ACT.5: 1 residues within 4Å: Chain A: D.113 No protein-ligand interaction detected (PLIP) ACT.6: 1 residues within 4Å: Chain A: E.30 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.16 Water bridges: A:S.16 ACT.7: 8 residues within 4Å: Chain A: N.67, H.71 Chain B: R.23, Y.40, F.99 Ligands: ACT.2, ACT.3, ZN.9 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:F.99 Hydrogen bonds: B:Y.40 Salt bridges: B:R.23, A:H.71 ACT.15: 7 residues within 4Å: Chain A: Y.13, L.33 Chain B: P.41, K.42, E.43, G.48 Ligands: ZN.22 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:P.41, A:L.33 Hydrogen bonds: B:K.42 Water bridges: A:D.31, A:D.31 ACT.16: 10 residues within 4Å: Chain A: R.23, F.99 Chain B: C.64, N.67, A.68, H.71, C.127, P.128 Ligands: ACT.21, ZN.25 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:F.99, B:H.71 Salt bridges: A:R.23 ACT.17: 7 residues within 4Å: Chain A: Y.40 Chain B: N.67, L.70, H.71, R.74 Ligands: ACT.21, ZN.23 8 PLIP interactions: 6 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:L.70 Hydrogen bonds: B:N.67 Water bridges: B:R.74, B:R.74, A:Y.40, A:Y.40 Salt bridges: B:H.71, B:R.74 ACT.18: 5 residues within 4Å: Chain B: A.106, H.108, S.142, G.145 Ligands: ZN.26 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.145 Salt bridges: B:H.108 ACT.19: 1 residues within 4Å: Chain B: D.113 No protein-ligand interaction detected (PLIP) ACT.20: 1 residues within 4Å: Chain B: E.30 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.16 Water bridges: B:S.16 ACT.21: 8 residues within 4Å: Chain A: R.23, Y.40, F.99 Chain B: N.67, H.71 Ligands: ACT.16, ACT.17, ZN.23 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:F.99 Salt bridges: A:R.23, B:H.71

12 x ZN: ZINC ION(Non-covalent)

ZN.8: 2 residues within 4Å: Chain A: E.43 Ligands: ACT.1 5 PLIP interactions: 2 interactions with chain A, 1 Ligand-Ligand interactions, 2 Ligand-Water interactions Metal complexes: A:E.43, A:E.43, ACT.1, H2O.151, H2O.154 ZN.9: 5 residues within 4Å: Chain A: H.71, R.74 Chain B: Y.40 Ligands: ACT.3, ACT.7 4 PLIP interactions: 1 interactions with chain A, 2 Ligand-Ligand interactions, 1 Ligand-Water interactions Metal complexes: A:H.71, ACT.3, ACT.7, H2O.152 ZN.10: 2 residues within 4Å: Chain A: E.82 Ligands: IMD.14 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:E.82 ZN.11: 6 residues within 4Å: Chain A: C.64, F.65, A.68, C.127, P.128 Ligands: ACT.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:C.64, A:C.64, A:C.127, ACT.2 ZN.12: 2 residues within 4Å: Chain A: H.108 Ligands: ACT.4 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:H.108, ACT.4 ZN.13: 1 residues within 4Å: Chain A: L.148 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:L.148, H2O.103, H2O.182 ZN.22: 2 residues within 4Å: Chain B: E.43 Ligands: ACT.15 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.43, B:E.43, H2O.333, H2O.336 ZN.23: 5 residues within 4Å: Chain A: Y.40 Chain B: H.71, R.74 Ligands: ACT.17, ACT.21 4 PLIP interactions: 1 interactions with chain B, 2 Ligand-Ligand interactions, 1 Ligand-Water interactions Metal complexes: B:H.71, ACT.17, ACT.21, H2O.334 ZN.24: 2 residues within 4Å: Chain B: E.82 Ligands: IMD.28 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:E.82 ZN.25: 6 residues within 4Å: Chain B: C.64, F.65, A.68, C.127, P.128 Ligands: ACT.16 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Ligand interactions Metal complexes: B:C.64, B:C.64, B:C.127, ACT.16 ZN.26: 2 residues within 4Å: Chain B: H.108 Ligands: ACT.18 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Ligand interactions Metal complexes: B:H.108, ACT.18 ZN.27: 1 residues within 4Å: Chain B: L.148 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:L.148, H2O.285, H2O.364

2 x IMD: IMIDAZOLE(Non-covalent)

IMD.14: 6 residues within 4Å: Chain A: E.82, P.84, H.108, I.109, A.110 Ligands: ZN.10 No protein-ligand interaction detected (PLIP) IMD.28: 6 residues within 4Å: Chain B: E.82, P.84, H.108, I.109, A.110 Ligands: ZN.24 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nocek, B. et al., High resolution crystal structure of the organic hydroperoxide resistance protein from Vibrio cholerae O1 biovar eltor str. N16961. To be Published

Release Date

2008-10-21

Peptides

Organic hydroperoxide resistance protein, putative: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Organic hydroperoxide resistance protein, putative

Related Entries With Identical Sequence