SMTL ID : 2yeu.2 (2 other biounits)

STRUCTURAL AND FUNCTIONAL INSIGHTS OF DR2231 PROTEIN, THE MAZG-LIKE NUCLEOSIDE TRIPHOSPHATE PYROPHOSPHOHYDROLASE FROM DEINOCOCCUS RADIODURANS, COMPLEX WITH GD

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 2 residues within 4Å: Chain A: R.124, A.125 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.125 SO4.2: 6 residues within 4Å: Chain A: D.51, S.54, R.58 Chain B: D.51, S.54, R.58 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:D.51 Water bridges: B:A.55, B:R.58 Salt bridges: B:R.58, A:R.58 SO4.3: 2 residues within 4Å: Chain A: E.41, R.44 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.44 SO4.6: 2 residues within 4Å: Chain B: E.133, G.134 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.134 SO4.7: 1 residues within 4Å: Chain B: R.25 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.25

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 7 residues within 4Å: Chain A: E.53, D.88, Y.91, V.92 Chain B: V.111, N.115 Ligands: GD.5 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:E.53, A:E.53, B:N.115, B:N.115 GOL.8: 4 residues within 4Å: Chain A: Q.148 Chain B: S.75, A.76, G.77 7 PLIP interactions: 3 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:G.77, A:Q.148, A:Q.148, A:Q.148 Water bridges: B:A.76, B:A.76, A:E.145 GOL.9: 7 residues within 4Å: Chain A: V.111, N.115 Chain B: E.53, D.88, Y.91, V.92 Ligands: GD.14 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:E.53, B:D.88, A:N.115, A:N.115 GOL.10: 2 residues within 4Å: Chain B: R.124, K.128 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.124, B:R.124, B:K.128 GOL.11: 5 residues within 4Å: Chain B: K.118, K.128, Q.129, L.130, K.131 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.118, B:Q.129, B:K.131 GOL.12: 9 residues within 4Å: Chain A: P.37, P.38, P.39, P.40 Chain B: Q.68, E.72, A.73, L.74 Ligands: GOL.13 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:P.38, B:Q.68, B:E.72, B:L.74 GOL.13: 5 residues within 4Å: Chain B: Q.68, G.71, E.72, A.73 Ligands: GOL.12 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.68

2 x GD: GADOLINIUM ATOM(Non-covalent)

GD.5: 5 residues within 4Å: Chain A: E.53, E.56, E.85, D.88 Ligands: GOL.4 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.53, A:E.53, A:E.56, H2O.97, H2O.99 GD.14: 5 residues within 4Å: Chain B: E.53, E.56, E.85, D.88 Ligands: GOL.9 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.53, B:E.53, B:E.56, H2O.194, H2O.220

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Goncalves, A.M.D. et al., Structural and Functional Insights Into Dr2231 Protein, the Mazg-Like Nucleoside Triphosphate Pyrophosphohydrolase from Deinococcus Radiodurans. J.Biol.Chem. (2011)

Release Date

2011-07-06

Peptides

DR2231: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

DR2231

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