SMTL ID : 1vk6.1 (1 other biounit)

Crystal structure of NADH pyrophosphatase (1790429) from Escherichia coli k12 at 2.20 A resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.110, C.113, C.128, C.131 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.110, A:C.113, A:C.128, A:C.131 ZN.5: 4 residues within 4Å: Chain B: C.110, C.113, C.128, C.131 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.110, B:C.113, B:C.128, B:C.131

6 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.2: 8 residues within 4Å: Chain A: I.58, R.96, Q.99, L.100, W.124, P.137, Q.210 Chain B: V.175 8 PLIP interactions: 7 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:I.58, A:Q.99, A:L.100, A:W.124, A:W.124, B:V.175 Hydrogen bonds: A:Q.210, A:Q.210 MPD.3: 7 residues within 4Å: Chain A: D.14, R.54, A.55, L.56, L.68, Q.70, Y.104 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:R.54, A:L.56, A:L.68, A:Q.70, A:Y.104 Water bridges: A:Q.70 MPD.4: 7 residues within 4Å: Chain A: C.142, G.171, F.172, W.206, P.209, S.211, M.213 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.172, A:W.206, A:P.209 Water bridges: A:W.206 MPD.6: 8 residues within 4Å: Chain A: V.175 Chain B: I.58, R.96, Q.99, L.100, W.124, P.137, Q.210 8 PLIP interactions: 1 interactions with chain A, 7 interactions with chain B Hydrophobic interactions: A:V.175, B:I.58, B:Q.99, B:L.100, B:W.124, B:W.124 Hydrogen bonds: B:Q.210, B:Q.210 MPD.7: 7 residues within 4Å: Chain B: D.14, R.54, A.55, L.56, L.68, Q.70, Y.104 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:R.54, B:L.56, B:L.68, B:Q.70, B:Y.104 Water bridges: B:Q.70 MPD.8: 7 residues within 4Å: Chain B: C.142, G.171, F.172, W.206, P.209, S.211, M.213 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:F.172, B:W.206, B:P.209 Water bridges: B:W.206

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joint Center for Structural Genomics (JCSG), Crystal structure of NADH pyrophosphatase (1790429) from Escherichia coli k12 at 2.20 A resolution. To be published

Release Date

2004-05-11

Peptides

NADH pyrophosphatase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

NADH pyrophosphatase

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