SMTL ID : 6phe.1 (1 other biounit)

Crystal structure of Methylglyoxal synthase from Elizabethkingia anophelis NUHP1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-hexamer

Ligands

6 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 10 residues within 4Å: Chain A: K.30, T.52, G.53, T.54, T.55, S.72, G.73, P.74, S.107 Chain F: R.156 11 PLIP interactions: 10 interactions with chain A, 1 interactions with chain F Hydrogen bonds: A:T.52, A:T.52, A:T.52, A:T.54, A:T.54, A:T.54, A:T.55, A:G.73 Water bridges: A:S.107 Salt bridges: A:K.30, F:R.156 PO4.2: 10 residues within 4Å: Chain B: D.27, K.30, T.52, G.53, T.54, T.55, S.72, G.73, P.74 Chain C: R.156 11 PLIP interactions: 9 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:T.52, B:T.54, B:T.54, B:T.54, B:T.55, B:G.73 Water bridges: B:A.25, B:S.107, C:Y.153 Salt bridges: B:K.30, C:R.156 PO4.3: 10 residues within 4Å: Chain B: R.156 Chain C: D.27, K.30, T.52, G.53, T.54, T.55, S.72, G.73, P.74 11 PLIP interactions: 8 interactions with chain C, 3 interactions with chain B Hydrogen bonds: C:D.27, C:T.52, C:T.52, C:T.54, C:T.54, C:T.55, C:G.73 Salt bridges: C:K.30, B:R.156 Water bridges: B:Y.153, B:Y.153 PO4.5: 9 residues within 4Å: Chain D: K.30, T.52, G.53, T.54, T.55, S.72, G.73, P.74 Chain E: R.156 11 PLIP interactions: 9 interactions with chain D, 2 interactions with chain E Hydrogen bonds: D:T.52, D:T.52, D:T.52, D:T.54, D:T.54, D:T.55, D:T.55, D:G.73, E:Y.153 Salt bridges: D:K.30, E:R.156 PO4.6: 11 residues within 4Å: Chain D: R.156 Chain E: D.27, K.30, T.52, G.53, T.54, T.55, S.72, G.73, P.74, S.107 13 PLIP interactions: 2 interactions with chain D, 11 interactions with chain E Hydrogen bonds: D:Y.153, E:T.52, E:T.52, E:T.54, E:T.54, E:T.55, E:G.73 Salt bridges: D:R.156, E:K.30 Water bridges: E:A.25, E:A.25, E:T.52, E:S.107 PO4.8: 9 residues within 4Å: Chain A: R.156 Chain F: K.30, T.52, G.53, T.54, T.55, S.72, G.73, P.74 11 PLIP interactions: 10 interactions with chain F, 1 interactions with chain A Hydrogen bonds: F:T.52, F:T.52, F:T.52, F:T.54, F:T.54, F:T.54, F:T.55, F:T.55, F:G.73 Salt bridges: F:K.30, A:R.156

2 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.4: 4 residues within 4Å: Chain C: E.60, G.64, V.65, E.66 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:E.60 Hydrogen bonds: C:G.64 Water bridges: C:E.66 MPD.7: 4 residues within 4Å: Chain E: F.138, E.142, Y.143, Q.144 6 PLIP interactions: 6 interactions with chain E Hydrophobic interactions: E:F.138, E:F.138, E:Y.143 Hydrogen bonds: E:Q.144, E:Q.144 Water bridges: E:Q.144

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Abendroth, J. et al., Crystal structure of Methylglyoxal synthase from Elizabethkingia anophelis NUHP1. TO BE PUBLISHED

Release Date

2019-07-24

Peptides

Methylglyoxal synthase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

Methylglyoxal synthase

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