SMTL ID : 2yfd.1 (1 other biounit)

STRUCTURAL AND FUNCTIONAL INSIGHTS OF DR2231 PROTEIN, THE MAZG-LIKE NUCLEOSIDE TRIPHOSPHATE PYROPHOSPHOHYDROLASE FROM DEINOCOCCUS RADIODURANS, COMPLEXED WITH Mg and dUMP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.77 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: E.53, E.56, E.85, D.88 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.53, A:E.56, A:E.85, A:D.88, H2O.2 MG.3: 5 residues within 4Å: Chain B: E.53, E.56, E.85, D.88 Ligands: UMP.2 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.53, B:E.56, B:E.85, B:D.88, H2O.6

1 x UMP: 2'-DEOXYURIDINE 5'-MONOPHOSPHATE(Non-covalent)

UMP.2: 17 residues within 4Å: Chain A: V.111, N.115, K.118, G.127, K.128, Q.129, K.131 Chain B: L.20, F.23, L.45, R.46, L.49, E.53, D.88, Y.91, V.92 Ligands: MG.3 21 PLIP interactions: 11 interactions with chain A, 10 interactions with chain B Hydrophobic interactions: A:K.128, A:Q.129, B:Y.91, B:V.92 Hydrogen bonds: A:N.115, A:K.118, A:Q.129, B:D.88, B:D.88 Water bridges: A:K.131, A:K.131, A:K.131, B:R.46, B:R.46, B:R.46, B:R.46, B:E.52, B:E.53 Salt bridges: A:K.118, A:K.128, A:K.131

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

CL.4: 3 residues within 4Å: Chain B: A.30, L.42, Q.99 Ligand excluded by PLIP

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 6 residues within 4Å: Chain B: R.67, E.72, A.73, L.74, S.75, D.78 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.67, B:E.72, B:E.72, B:D.78

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.6: 6 residues within 4Å: Chain A: A.138, V.140, R.141 Chain B: A.80, P.81, H.84 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:V.140, A:R.141 Hydrophobic interactions: B:A.80 Salt bridges: B:H.84

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

MAZG-LIKE NUCLEOSIDE TRIPHOSPHATE PYROPHOSPHOHYDROLASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

MAZG-LIKE NUCLEOSIDE TRIPHOSPHATE PYROPHOSPHOHYDROLASE

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