SMTL ID : 3swe.2 (1 other biounit)

Haemophilus influenzae MurA in complex with UDP-N-acetylmuramic acid and covalent adduct of PEP with Cys117

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-tetramer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: T.278, E.279, N.280, S.281 Ligand excluded by PLIP SO4.2: 3 residues within 4Å: Chain A: R.269, V.277 Chain C: R.157 Ligand excluded by PLIP SO4.3: 3 residues within 4Å: Chain A: H.81, F.82, T.83 Ligand excluded by PLIP SO4.4: 3 residues within 4Å: Chain A: T.208, G.209, A.210 Ligand excluded by PLIP SO4.5: 2 residues within 4Å: Chain A: K.55, R.58 Ligand excluded by PLIP SO4.9: 4 residues within 4Å: Chain B: T.278, E.279, N.280, S.281 Ligand excluded by PLIP SO4.10: 3 residues within 4Å: Chain B: R.269, V.277 Chain D: R.157 Ligand excluded by PLIP SO4.11: 3 residues within 4Å: Chain B: H.81, F.82, T.83 Ligand excluded by PLIP SO4.12: 3 residues within 4Å: Chain B: T.208, G.209, A.210 Ligand excluded by PLIP SO4.13: 2 residues within 4Å: Chain B: K.55, R.58 Ligand excluded by PLIP SO4.17: 4 residues within 4Å: Chain C: T.278, E.279, N.280, S.281 Ligand excluded by PLIP SO4.18: 3 residues within 4Å: Chain A: R.157 Chain C: R.269, V.277 Ligand excluded by PLIP SO4.19: 3 residues within 4Å: Chain C: H.81, F.82, T.83 Ligand excluded by PLIP SO4.20: 3 residues within 4Å: Chain C: T.208, G.209, A.210 Ligand excluded by PLIP SO4.21: 2 residues within 4Å: Chain C: K.55, R.58 Ligand excluded by PLIP SO4.25: 4 residues within 4Å: Chain D: T.278, E.279, N.280, S.281 Ligand excluded by PLIP SO4.26: 3 residues within 4Å: Chain B: R.157 Chain D: R.269, V.277 Ligand excluded by PLIP SO4.27: 3 residues within 4Å: Chain D: H.81, F.82, T.83 Ligand excluded by PLIP SO4.28: 3 residues within 4Å: Chain D: T.208, G.209, A.210 Ligand excluded by PLIP SO4.29: 2 residues within 4Å: Chain D: K.55, R.58 Ligand excluded by PLIP

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 3 residues within 4Å: Chain A: Y.395, H.396, R.399 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.396, A:R.399 Water bridges: A:T.91, A:R.399 GOL.7: 5 residues within 4Å: Chain A: R.152, K.179, G.219, V.220, E.221 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.152, A:R.152, A:K.179, A:E.221 Water bridges: A:R.222 GOL.14: 3 residues within 4Å: Chain B: Y.395, H.396, R.399 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:H.396, B:R.399 Water bridges: B:T.91, B:R.399 GOL.15: 5 residues within 4Å: Chain B: R.152, K.179, G.219, V.220, E.221 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.152, B:R.152, B:K.179, B:E.221 Water bridges: B:R.222 GOL.22: 3 residues within 4Å: Chain C: Y.395, H.396, R.399 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:Y.395, C:R.399 Water bridges: C:T.91, C:R.399 GOL.23: 5 residues within 4Å: Chain C: R.152, K.179, G.219, V.220, E.221 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:R.152, C:R.152, C:K.179, C:E.221 Water bridges: C:R.222 GOL.30: 3 residues within 4Å: Chain D: Y.395, H.396, R.399 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:Y.395, D:R.399 Water bridges: D:T.91, D:R.399 GOL.31: 5 residues within 4Å: Chain D: R.152, K.179, G.219, V.220, E.221 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:R.152, D:R.152, D:K.179, D:E.221 Water bridges: D:R.222

4 x EPZ: (2R)-2-{[(2R,3R,4R,5S,6R)-3-(acetylamino)-2-{[(S)-{[(R)-{[(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methoxy}(hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]oxy}-5-hydroxy-6-(hydroxymethyl)tetrahydro-2H-pyran-4-yl]oxy}propanoic acid(Non-covalent)

EPZ.8: 21 residues within 4Å: Chain A: K.22, N.23, L.26, A.94, W.97, A.121, R.122, P.123, V.124, D.125, L.126, H.127, S.164, V.165, G.166, T.306, D.307, I.329, F.330, R.333, L.372 31 PLIP interactions: 31 interactions with chain A Hydrophobic interactions: A:L.26, A:A.94, A:W.97, A:L.372 Hydrogen bonds: A:N.23, A:D.125, A:L.126, A:H.127, A:V.165, A:G.166, A:D.307, A:R.333 Water bridges: A:K.22, A:K.22, A:A.121, A:R.122, A:R.122, A:R.122, A:R.122, A:R.122, A:R.122, A:E.190, A:E.190, A:R.234, A:R.234, A:T.306, A:T.306, A:T.306 Salt bridges: A:K.22, A:R.122, A:R.122 EPZ.16: 21 residues within 4Å: Chain B: K.22, N.23, L.26, A.94, W.97, A.121, R.122, P.123, V.124, D.125, L.126, H.127, S.164, V.165, G.166, T.306, D.307, I.329, F.330, R.333, L.372 31 PLIP interactions: 31 interactions with chain B Hydrophobic interactions: B:L.26, B:A.94, B:W.97, B:L.372 Hydrogen bonds: B:N.23, B:D.125, B:L.126, B:H.127, B:V.165, B:G.166, B:D.307, B:R.333 Water bridges: B:K.22, B:K.22, B:A.121, B:R.122, B:R.122, B:R.122, B:R.122, B:R.122, B:R.122, B:E.190, B:E.190, B:R.234, B:R.234, B:T.306, B:T.306, B:T.306 Salt bridges: B:K.22, B:R.122, B:R.122 EPZ.24: 21 residues within 4Å: Chain C: K.22, N.23, L.26, A.94, W.97, A.121, R.122, P.123, V.124, D.125, L.126, H.127, S.164, V.165, G.166, T.306, D.307, I.329, F.330, R.333, L.372 30 PLIP interactions: 30 interactions with chain C Hydrophobic interactions: C:L.26, C:A.94, C:W.97, C:L.372 Hydrogen bonds: C:N.23, C:D.125, C:L.126, C:H.127, C:V.165, C:G.166, C:D.307, C:R.333 Water bridges: C:K.22, C:K.22, C:A.121, C:R.122, C:R.122, C:R.122, C:R.122, C:R.122, C:E.190, C:E.190, C:R.234, C:R.234, C:T.306, C:T.306, C:T.306 Salt bridges: C:K.22, C:R.122, C:R.122 EPZ.32: 21 residues within 4Å: Chain D: K.22, N.23, L.26, A.94, W.97, A.121, R.122, P.123, V.124, D.125, L.126, H.127, S.164, V.165, G.166, T.306, D.307, I.329, F.330, R.333, L.372 30 PLIP interactions: 30 interactions with chain D Hydrophobic interactions: D:L.26, D:A.94, D:W.97, D:L.372 Hydrogen bonds: D:N.23, D:D.125, D:L.126, D:H.127, D:V.165, D:G.166, D:D.307, D:R.333 Water bridges: D:K.22, D:K.22, D:A.121, D:R.122, D:R.122, D:R.122, D:R.122, D:R.122, D:E.190, D:E.190, D:R.234, D:R.234, D:T.306, D:T.306, D:T.306 Salt bridges: D:K.22, D:R.122, D:R.122

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhu, J.Y. et al., Functional Consequence of Covalent Reaction of Phosphoenolpyruvate with UDP-N-acetylglucosamine 1-Carboxyvinyltransferase (MurA). J.Biol.Chem. (2012)

Release Date

2012-03-14

Peptides

UDP-N-acetylglucosamine 1-carboxyvinyltransferase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

UDP-N-acetylglucosamine 1-carboxyvinyltransferase

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