SMTL ID : 1q3g.3 (3 other biounits)

MurA (Asp305Ala) liganded with tetrahedral reaction intermediate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

homo-tetramer

Ligands

4 x UDA: 3'-1-CARBOXY-1-PHOSPHONOOXY-ETHOXY-URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE(Non-covalent)

UDA.1: 24 residues within 4Å: Chain A: K.22, N.23, L.26, W.95, R.120, P.121, V.122, D.123, L.124, H.125, K.160, S.162, V.163, G.164, E.188, T.304, A.305, I.327, F.328, R.331, L.370, R.371, R.397 Ligands: EDO.2 24 PLIP interactions: 24 interactions with chain A Hydrophobic interactions: A:L.26, A:W.95 Hydrogen bonds: A:N.23, A:D.123, A:L.124, A:H.125, A:K.160, A:S.162, A:V.163, A:G.164, A:E.188, A:R.331 Water bridges: A:R.91, A:R.120, A:R.120, A:R.120, A:E.329 Salt bridges: A:K.22, A:K.22, A:R.120, A:R.120, A:R.331, A:R.371, A:R.397 UDA.3: 25 residues within 4Å: Chain B: K.22, N.23, L.26, W.95, R.120, P.121, V.122, D.123, L.124, H.125, K.160, V.161, S.162, V.163, G.164, E.188, T.304, A.305, I.327, F.328, R.331, L.370, R.371, R.397 Ligands: EDO.4 20 PLIP interactions: 20 interactions with chain B Hydrophobic interactions: B:L.26, B:W.95 Hydrogen bonds: B:N.23, B:D.123, B:L.124, B:H.125, B:K.160, B:S.162, B:V.163, B:G.164, B:E.188, B:E.188, B:R.331 Salt bridges: B:K.22, B:K.22, B:R.120, B:R.120, B:R.331, B:R.371, B:R.397 UDA.5: 22 residues within 4Å: Chain C: K.22, N.23, W.95, R.120, P.121, V.122, D.123, L.124, H.125, K.160, S.162, V.163, G.164, E.188, T.304, A.305, I.327, F.328, R.331, L.370, R.371 Ligands: EDO.6 29 PLIP interactions: 29 interactions with chain C Hydrophobic interactions: C:W.95 Hydrogen bonds: C:N.23, C:R.120, C:D.123, C:L.124, C:H.125, C:S.162, C:V.163, C:G.164, C:E.188, C:E.188, C:R.331 Water bridges: C:R.91, C:R.120, C:R.120, C:R.232, C:H.299, C:T.304, C:T.304, C:I.327, C:E.329, C:E.329, C:E.329 Salt bridges: C:K.22, C:K.22, C:R.120, C:R.120, C:R.331, C:R.371 UDA.7: 23 residues within 4Å: Chain D: K.22, N.23, W.95, R.120, P.121, V.122, D.123, L.124, H.125, K.160, S.162, V.163, G.164, E.188, T.304, A.305, I.327, F.328, R.331, L.370, R.371, R.397 Ligands: EDO.8 26 PLIP interactions: 26 interactions with chain D Hydrophobic interactions: D:W.95 Hydrogen bonds: D:N.23, D:D.123, D:L.124, D:H.125, D:S.162, D:V.163, D:G.164, D:E.188, D:R.331 Water bridges: D:D.49, D:R.91, D:R.120, D:R.120, D:R.120, D:T.304, D:T.304, D:E.329, D:R.397 Salt bridges: D:K.22, D:K.22, D:R.120, D:R.120, D:R.331, D:R.371, D:R.397

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

EDO.2: 5 residues within 4Å: Chain A: R.91, W.95, R.120, G.164 Ligands: UDA.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.91, A:W.95, A:R.120 EDO.4: 6 residues within 4Å: Chain B: R.91, W.95, R.120, H.125, G.164 Ligands: UDA.3 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.91, B:W.95, B:R.120 Water bridges: B:G.164 EDO.6: 7 residues within 4Å: Chain C: R.91, A.92, W.95, R.120, H.125, G.164 Ligands: UDA.5 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:R.91, C:R.120, C:H.125 EDO.8: 6 residues within 4Å: Chain D: R.91, W.95, R.120, H.125, G.164 Ligands: UDA.7 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:R.91, D:W.95, D:R.120 Water bridges: D:R.120

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Eschenburg, S. et al., A New View of the Mechanisms of UDP-N-Acetylglucosamine Enolpyruvyl Transferase (MurA) and 5-Enolpyruvylshikimate-3-phosphate Synthase (AroA) Derived from X-ray Structures of Their Tetrahedral Reaction Intermediate States. J.Biol.Chem. (2003)

Release Date

2003-12-16

Peptides

UDP-N-acetylglucosamine 1-carboxyvinyltransferase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
I

B
J

C
K

D
L

UDP-N-acetylglucosamine 1-carboxyvinyltransferase

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