SMTL ID : 3swg.1

AQUIFEX AEOLICUS MurA in complex with UDP-N-acetylmuramic acid and covalent adduct of PEP with Cys124

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.81 Å

Oligo State

monomer

Ligands

3 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.1: 4 residues within 4Å: Chain A: D.132, L.135, K.139, V.145 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.139 Water bridges: A:K.139 PG4.2: 5 residues within 4Å: Chain A: K.326, T.352, R.354, Y.359, E.361 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.326 PG4.3: 6 residues within 4Å: Chain A: G.23, K.24, E.255, L.257, E.283, R.288 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.288, A:R.288 Water bridges: A:E.255

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.4: 4 residues within 4Å: Chain A: K.165, F.166, D.167, N.192 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.165 Water bridges: A:D.167

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.5: 5 residues within 4Å: Chain A: P.47, T.49, G.230, F.231, T.232 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.232 PEG.6: 6 residues within 4Å: Chain A: V.322, A.323, K.324, G.362, V.363, E.364 No protein-ligand interaction detected (PLIP)

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

EDO.7: 3 residues within 4Å: Chain A: I.90, Y.151, Y.153 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.153, A:Y.153 EDO.8: 5 residues within 4Å: Chain A: E.72, L.73, F.81, I.82, N.83 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.82 Water bridges: A:I.82 EDO.9: 6 residues within 4Å: Chain A: G.111, R.112, F.113, G.114, L.156, K.159 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.112, A:L.156 EDO.10: 3 residues within 4Å: Chain A: E.146, R.148, Y.153 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.146 EDO.11: 2 residues within 4Å: Chain A: R.60, R.67 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.60, A:R.60, A:R.67, A:R.67 Water bridges: A:F.75, A:F.75 EDO.12: 2 residues within 4Å: Chain A: E.255, F.290 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.255 EDO.13: 3 residues within 4Å: Chain A: N.284, G.285, N.286 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.284, A:G.285, A:N.286 EDO.14: 2 residues within 4Å: Chain A: K.214, Y.221 No protein-ligand interaction detected (PLIP) EDO.15: 3 residues within 4Å: Chain A: H.163, K.165, E.191 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.163 Water bridges: A:K.165 EDO.16: 2 residues within 4Å: Chain A: E.187, K.223 3 PLIP interactions: 3 interactions with chain A Water bridges: A:P.185, A:E.187, A:K.223 EDO.17: 4 residues within 4Å: Chain A: L.43, E.45, R.112, E.226 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.226

1 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.18: 21 residues within 4Å: Chain A: K.31, N.32, A.101, I.126, R.129, P.130, I.131, D.132, Q.133, H.134, L.168, V.169, T.170, V.171, T.172, T.310, D.311, I.333, F.334, R.337, L.376 38 PLIP interactions: 38 interactions with chain A Hydrophobic interactions: A:A.101, A:I.126, A:T.172, A:L.376 Hydrogen bonds: A:N.32, A:R.129, A:D.132, A:Q.133, A:H.134, A:T.170, A:V.171, A:T.172, A:T.172, A:D.311, A:R.337 Water bridges: A:K.31, A:R.129, A:R.129, A:R.129, A:R.129, A:R.129, A:T.172, A:T.172, A:E.196, A:R.239, A:R.239, A:T.310, A:T.310, A:T.310, A:I.333, A:E.335, A:R.377, A:R.377, A:R.403, A:R.403 Salt bridges: A:K.31, A:R.129, A:R.129

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: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

UDP-N-acetylglucosamine 1-carboxyvinyltransferase

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