SMTL ID : 3s86.1

Crystal Structure of TM0159 with bound IMP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

homo-tetramer

Ligands

4 x IMP: INOSINIC ACID(Non-covalent)

IMP.1: 19 residues within 4Å: Chain A: K.27, E.52, K.64, D.79, D.80, S.81, G.82, S.96, A.97, Y.105, F.125, F.160, G.161, Y.162, D.163, K.182, H.187, R.188 Ligands: SO4.2 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:E.52, A:E.52, A:D.79, A:S.81, A:S.96, A:Y.105, A:Y.162, A:D.163, A:K.182, A:R.188, A:R.188 Salt bridges: A:K.27, A:K.64 pi-Stacking: A:F.160 IMP.3: 18 residues within 4Å: Chain B: K.27, E.52, K.64, D.80, S.81, G.82, S.96, A.97, Y.105, F.125, F.160, G.161, Y.162, D.163, K.182, H.187, R.188 Ligands: SO4.4 18 PLIP interactions: 18 interactions with chain B Hydrogen bonds: B:E.52, B:D.80, B:S.81, B:S.81, B:S.96, B:S.96, B:Y.105, B:Y.105, B:Y.162, B:D.163, B:K.182, B:R.188, B:R.188 Water bridges: B:A.97 Salt bridges: B:K.27, B:K.64 pi-Stacking: B:F.125, B:F.160 IMP.5: 19 residues within 4Å: Chain C: K.27, E.52, K.64, D.79, D.80, S.81, G.82, S.96, A.97, Y.105, F.125, F.160, G.161, Y.162, D.163, K.182, H.187, R.188 Ligands: SO4.6 13 PLIP interactions: 13 interactions with chain C Hydrogen bonds: C:E.52, C:D.79, C:S.81, C:S.96, C:Y.105, C:Y.162, C:D.163, C:K.182, C:R.188, C:R.188 Salt bridges: C:K.27, C:K.64 pi-Stacking: C:F.160 IMP.7: 18 residues within 4Å: Chain D: K.27, E.52, K.64, D.80, S.81, G.82, S.96, A.97, Y.105, F.125, F.160, G.161, Y.162, D.163, K.182, H.187, R.188 Ligands: SO4.8 17 PLIP interactions: 17 interactions with chain D Hydrogen bonds: D:D.79, D:D.80, D:D.80, D:S.81, D:S.81, D:S.96, D:S.96, D:Y.105, D:Y.105, D:Y.162, D:D.163, D:K.182, D:R.188, D:R.188 Salt bridges: D:K.27, D:K.64 pi-Stacking: D:F.160

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

SO4.2: 8 residues within 4Å: Chain A: T.22, T.23, N.24, K.27, E.52, K.64, D.79 Ligands: IMP.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.22, A:T.23, A:N.24 Salt bridges: A:K.27, A:K.64 SO4.4: 8 residues within 4Å: Chain B: T.22, T.23, N.24, K.27, E.52, K.64, D.79 Ligands: IMP.3 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.23, B:D.79 Water bridges: B:N.24 Salt bridges: B:K.27, B:K.64 SO4.6: 8 residues within 4Å: Chain C: T.22, T.23, N.24, K.27, E.52, K.64, D.79 Ligands: IMP.5 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:T.22, C:T.23, C:D.79 Salt bridges: C:K.27, C:K.64 SO4.8: 8 residues within 4Å: Chain D: T.22, T.23, N.24, K.27, E.52, K.64, D.79 Ligands: IMP.7 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:T.23 Water bridges: D:N.24 Salt bridges: D:K.27, D:K.64

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Awwad, K. et al., Structural and functional characterization of a noncanonical nucleoside triphosphate pyrophosphatase from Thermotoga maritima. Acta Crystallogr.,Sect.D (2013)

Release Date

2012-06-06

Peptides

Nucleoside-triphosphatase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Nucleoside-triphosphatase

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