SMTL ID : 2f7f.1

Crystal structure of Enterococcus faecalis putative nicotinate phosphoribosyltransferase, NEW YORK STRUCTURAL GENOMICS CONSORTIUM

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 2 residues within 4Å: Chain A: T.69, E.70 Ligand excluded by PLIP SO4.2: 7 residues within 4Å: Chain A: R.164, S.292, N.293, D.294, L.295, G.316, T.317 Ligand excluded by PLIP SO4.3: 3 residues within 4Å: Chain A: H.225, R.226, D.227 Ligand excluded by PLIP SO4.4: 3 residues within 4Å: Chain A: R.226, D.227, N.257 Ligand excluded by PLIP SO4.5: 6 residues within 4Å: Chain A: R.276, T.285, E.286, A.287, K.288, D.311 Ligand excluded by PLIP SO4.6: 5 residues within 4Å: Chain A: E.57, W.173, I.194, F.195 Ligands: SO4.19 Ligand excluded by PLIP SO4.7: 3 residues within 4Å: Chain A: A.6, D.7 Ligands: SO4.18 Ligand excluded by PLIP SO4.8: 3 residues within 4Å: Chain A: R.426, E.429, L.430 Ligand excluded by PLIP SO4.13: 2 residues within 4Å: Chain B: T.69, E.70 Ligand excluded by PLIP SO4.14: 7 residues within 4Å: Chain B: R.164, S.292, N.293, D.294, L.295, G.316, T.317 Ligand excluded by PLIP SO4.15: 3 residues within 4Å: Chain B: H.225, R.226, D.227 Ligand excluded by PLIP SO4.16: 3 residues within 4Å: Chain B: R.226, D.227, N.257 Ligand excluded by PLIP SO4.17: 6 residues within 4Å: Chain B: R.276, T.285, E.286, A.287, K.288, D.311 Ligand excluded by PLIP SO4.18: 5 residues within 4Å: Chain B: E.57, W.173, I.194, F.195 Ligands: SO4.7 Ligand excluded by PLIP SO4.19: 3 residues within 4Å: Chain B: A.6, D.7 Ligands: SO4.6 Ligand excluded by PLIP SO4.20: 3 residues within 4Å: Chain B: R.426, E.429, L.430 Ligand excluded by PLIP

4 x NIO: NICOTINIC ACID(Non-covalent)

NIO.9: 8 residues within 4Å: Chain A: F.160, R.163, S.187, G.201, T.202, R.262 Chain B: D.15, Y.17 7 PLIP interactions: 5 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:F.160, A:F.160, B:Y.17 Hydrogen bonds: A:T.202 Water bridges: A:S.200, B:Y.17 Salt bridges: A:R.262 NIO.10: 8 residues within 4Å: Chain A: M.396, F.397, H.398, I.404, N.405, K.406, P.461, D.463 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.404, A:P.461, A:P.461 Salt bridges: A:H.398 NIO.21: 8 residues within 4Å: Chain A: D.15, Y.17 Chain B: F.160, R.163, S.187, G.201, T.202, R.262 7 PLIP interactions: 5 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:F.160, B:F.160, A:Y.17 Hydrogen bonds: B:T.202 Water bridges: B:S.200, A:Y.17 Salt bridges: B:R.262 NIO.22: 8 residues within 4Å: Chain B: M.396, F.397, H.398, I.404, N.405, K.406, P.461, D.463 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:I.404, B:P.461, B:P.461 Salt bridges: B:H.398

2 x DPO: DIPHOSPHATE(Non-covalent)

DPO.11: 9 residues within 4Å: Chain A: R.163, A.204, H.205, S.206, R.262, D.264 Chain B: Y.17, F.332, K.333 13 PLIP interactions: 8 interactions with chain A, 5 interactions with chain B Hydrogen bonds: A:H.205, A:S.206, A:S.206 Water bridges: A:Q.209, B:F.332, B:L.334, B:L.334 Salt bridges: A:R.163, A:H.205, A:H.205, A:R.262, B:K.333, B:K.333 DPO.23: 9 residues within 4Å: Chain A: Y.17, F.332, K.333 Chain B: R.163, A.204, H.205, S.206, R.262, D.264 13 PLIP interactions: 8 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:H.205, B:S.206, B:S.206 Water bridges: B:Q.209, A:F.332, A:L.334, A:L.334 Salt bridges: B:R.163, B:H.205, B:H.205, B:R.262, A:K.333, A:K.333

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.12: 8 residues within 4Å: Chain A: E.38, Y.40, N.111, E.112, P.113, T.358, T.359, K.363 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:E.38, A:T.359, A:T.359, A:T.359, A:K.363 Water bridges: A:N.111, A:T.359 GOL.24: 8 residues within 4Å: Chain B: E.38, Y.40, N.111, E.112, P.113, T.358, T.359, K.363 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:E.38, B:T.359, B:T.359, B:T.359, B:K.363 Water bridges: B:N.111, B:T.359

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Patskovsky, Y. et al., Crystal Structure of Enterococcus Faecalis Nicotinate Phosphoribosyltransferase. To be Published

Release Date

2005-12-13

Peptides

nicotinate phosphoribosyltransferase, putative: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

nicotinate phosphoribosyltransferase, putative

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