SMTL ID : 1nf2.4 (3 other biounits)

X-ray crystal structure of TM0651 from Thermotoga maritima

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-hexamer

Ligands

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

SO4.1: 8 residues within 4Å: Chain A: D.8, D.10, S.41, G.42, K.191, N.215, N.217 Ligands: MG.3 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.42, A:N.217 Water bridges: A:L.9, A:D.10, A:N.215 Salt bridges: A:K.191 SO4.2: 6 residues within 4Å: Chain A: K.23, R.26, K.30, E.259 Chain E: S.21, E.22 10 PLIP interactions: 2 interactions with chain E, 8 interactions with chain A Hydrogen bonds: E:E.22, A:N.27 Water bridges: E:K.23, A:K.23, A:K.30, A:K.30, A:K.30 Salt bridges: A:K.23, A:R.26, A:K.30 SO4.4: 8 residues within 4Å: Chain B: D.8, D.10, S.41, G.42, K.191, N.215, N.217 Ligands: MG.6 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:G.42, B:N.217 Water bridges: B:L.9, B:D.10, B:N.215 Salt bridges: B:K.191 SO4.5: 6 residues within 4Å: Chain B: K.23, R.26, K.30, E.259 Chain C: S.21, E.22 11 PLIP interactions: 9 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:N.27, B:E.259, C:E.22 Water bridges: B:K.23, B:K.30, B:K.30, B:K.30, C:K.23 Salt bridges: B:K.23, B:R.26, B:K.30 SO4.7: 8 residues within 4Å: Chain C: D.8, D.10, S.41, G.42, K.191, N.215, N.217 Ligands: MG.9 8 PLIP interactions: 8 interactions with chain C Hydrogen bonds: C:G.42 Water bridges: C:L.9, C:D.10, C:D.10, C:D.10, C:N.215, C:N.215 Salt bridges: C:K.191 SO4.8: 5 residues within 4Å: Chain C: R.25, R.26 Chain F: S.21, E.22, K.23 5 PLIP interactions: 3 interactions with chain C, 2 interactions with chain F Water bridges: C:R.26 Salt bridges: C:R.25, C:R.26 Hydrogen bonds: F:E.22, F:K.23 SO4.10: 8 residues within 4Å: Chain D: D.8, D.10, S.41, G.42, K.191, N.215, N.217 Ligands: MG.12 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:G.42 Water bridges: D:L.9, D:R.43, D:R.43, D:N.215 Salt bridges: D:K.191 SO4.11: 5 residues within 4Å: Chain A: E.22, K.23, R.26 Chain D: K.23 Chain E: R.26 9 PLIP interactions: 2 interactions with chain E, 6 interactions with chain A, 1 interactions with chain D Water bridges: E:R.26, A:E.22, A:R.26, A:R.26, A:R.26 Salt bridges: E:R.26, A:R.26, D:K.23 Hydrogen bonds: A:K.23 SO4.13: 8 residues within 4Å: Chain E: D.8, D.10, S.41, G.42, K.191, N.215, N.217 Ligands: MG.15 8 PLIP interactions: 8 interactions with chain E Hydrogen bonds: E:G.42 Water bridges: E:D.10, E:D.10, E:D.10, E:D.10, E:N.215, E:N.215 Salt bridges: E:K.191 SO4.14: 5 residues within 4Å: Chain D: S.21, E.22, K.23 Chain E: R.25, R.26 5 PLIP interactions: 2 interactions with chain D, 3 interactions with chain E Hydrogen bonds: D:E.22, D:K.23 Water bridges: E:R.26 Salt bridges: E:R.25, E:R.26 SO4.16: 8 residues within 4Å: Chain F: D.8, D.10, S.41, G.42, K.191, N.215, N.217 Ligands: MG.18 7 PLIP interactions: 7 interactions with chain F Hydrogen bonds: F:D.10, F:G.42 Water bridges: F:L.9, F:R.43, F:R.43, F:N.215 Salt bridges: F:K.191 SO4.17: 5 residues within 4Å: Chain B: E.22, K.23, R.26 Chain C: R.26 Chain F: K.23 9 PLIP interactions: 6 interactions with chain B, 1 interactions with chain F, 2 interactions with chain C Hydrogen bonds: B:K.23 Water bridges: B:E.22, B:R.26, B:R.26, B:R.26, C:R.26 Salt bridges: B:R.26, F:K.23, C:R.26

6 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 5 residues within 4Å: Chain A: D.8, D.10, D.214, N.215 Ligands: SO4.1 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.8, A:D.10, A:D.214, H2O.42 MG.6: 5 residues within 4Å: Chain B: D.8, D.10, D.214, N.215 Ligands: SO4.4 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.8, B:D.10, B:D.214, H2O.211 MG.9: 6 residues within 4Å: Chain C: D.8, D.10, D.214, N.215, D.218 Ligands: SO4.7 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.8, C:D.10, C:D.214, H2O.387 MG.12: 5 residues within 4Å: Chain D: D.8, D.10, D.214, N.215 Ligands: SO4.10 4 PLIP interactions: 3 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:D.8, D:D.10, D:D.214, H2O.557 MG.15: 6 residues within 4Å: Chain E: D.8, D.10, D.214, N.215, D.218 Ligands: SO4.13 4 PLIP interactions: 3 interactions with chain E, 1 Ligand-Water interactions Metal complexes: E:D.8, E:D.10, E:D.214, H2O.712 MG.18: 5 residues within 4Å: Chain F: D.8, D.10, D.214, N.215 Ligands: SO4.16 4 PLIP interactions: 3 interactions with chain F, 1 Ligand-Water interactions Metal complexes: F:D.8, F:D.10, F:D.214, H2O.882

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shin, D.H. et al., Crystal structure of a phosphatase with a unique substrate binding domain from Thermotoga maritima. Protein Sci. (2003)

Release Date

2003-09-16

Peptides

phosphatase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
C

C
A

D
B

E
A

F
B

phosphatase

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