SMTL ID : 3cng.1 (1 other biounit)

Crystal structure of NUDIX hydrolase from Nitrosomonas europaea

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.6, C.9, C.28, C.31 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.6, A:C.9, A:C.28, A:C.31 ZN.8: 4 residues within 4Å: Chain B: C.6, C.9, C.28, C.31 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.6, B:C.9, B:C.28, B:C.31

2 x NA: SODIUM ION(Non-functional Binders)

NA.2: 3 residues within 4Å: Chain A: E.87, E.90, E.131 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.90 Water bridges: A:F.73, A:R.86, A:E.90 NA.9: 2 residues within 4Å: Chain B: F.73, E.87 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:F.73, B:E.87

5 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 5 residues within 4Å: Chain A: T.79, L.80, V.81 Chain B: S.106, L.173 Ligand excluded by PLIP CL.4: 5 residues within 4Å: Chain A: L.107, F.150, R.151, V.152 Ligands: GOL.7 Ligand excluded by PLIP CL.5: 3 residues within 4Å: Chain A: E.100, L.101 Chain B: F.171 Ligand excluded by PLIP CL.10: 3 residues within 4Å: Chain A: F.171 Chain B: E.100, L.101 Ligand excluded by PLIP CL.11: 5 residues within 4Å: Chain A: S.106, L.173 Chain B: T.79, L.80, V.81 Ligand excluded by PLIP

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.6: 4 residues within 4Å: Chain A: Y.36, N.38 Chain B: F.73, E.75 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:E.75, A:N.38

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 7 residues within 4Å: Chain A: I.42, L.107, I.110, Q.112, Y.114, F.150 Ligands: CL.4 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.112, A:Y.114 Water bridges: A:Q.112 GOL.12: 6 residues within 4Å: Chain B: I.42, L.107, I.110, Q.112, Y.114, F.150 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Q.112, B:Q.112, B:Y.114

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Osipiuk, J. et al., X-ray crystal structure of NUDIX hydrolase from Nitrosomonas europaea. To be Published

Release Date

2008-04-08

Peptides

NUDIX hydrolase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

NUDIX hydrolase

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