SMTL ID : 4zqg.1

Crystal structure of the Moraxella catarrhalis DOX-P Reductoisomerase in complex with NADH, fosmidomycin and magnesium

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-dimer

Ligands

2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.1: 23 residues within 4Å: Chain A: G.13, A.14, T.15, G.16, S.17, I.18, G.40, F.41, R.43, A.104, I.105, V.106, A.109, A.127, N.128, K.129, E.130, D.154, M.218, G.219, I.222, M.280 Ligands: FOM.3 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:I.18, A:I.222 Hydrogen bonds: A:G.13, A:T.15, A:T.15, A:T.15, A:G.16, A:S.17, A:S.17, A:S.17, A:I.18, A:F.41, A:I.105, A:V.106, A:N.128, A:K.129, A:E.130, A:G.219 Water bridges: A:G.13, A:G.19, A:R.43 pi-Stacking: A:F.41 NAD.6: 23 residues within 4Å: Chain B: G.13, A.14, T.15, G.16, S.17, I.18, G.40, F.41, R.43, A.104, I.105, V.106, A.109, A.127, N.128, K.129, E.130, D.154, M.218, G.219, I.222, M.280 Ligands: FOM.8 21 PLIP interactions: 21 interactions with chain B Hydrophobic interactions: B:I.18, B:I.222 Hydrogen bonds: B:G.13, B:T.15, B:T.15, B:G.16, B:S.17, B:S.17, B:S.17, B:I.18, B:F.41, B:I.105, B:V.106, B:N.128, B:K.129, B:E.130, B:G.219 Water bridges: B:G.13, B:G.19, B:R.43 pi-Stacking: B:F.41

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: K.129, D.154, E.156, E.235 Ligands: FOM.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.154, A:E.156, A:E.156, A:E.235 MG.7: 5 residues within 4Å: Chain B: K.129, D.154, E.156, E.235 Ligands: FOM.8 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.154, B:E.156, B:E.156, B:E.235

2 x FOM: 3-[FORMYL(HYDROXY)AMINO]PROPYLPHOSPHONIC ACID(Non-covalent)

FOM.3: 20 residues within 4Å: Chain A: K.129, D.154, S.155, E.156, A.189, S.190, G.191, G.192, H.213, W.216, M.218, I.222, S.226, N.231, K.232, E.235, M.280 Ligands: NAD.1, MG.2, GOL.4 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:K.129, A:S.155, A:S.190, A:S.190, A:G.191, A:G.192, A:N.231, A:K.232, A:K.232 FOM.8: 20 residues within 4Å: Chain B: K.129, D.154, S.155, E.156, A.189, S.190, G.191, G.192, H.213, W.216, M.218, I.222, S.226, N.231, K.232, E.235, M.280 Ligands: NAD.6, MG.7, GOL.9 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:K.129, B:S.155, B:S.190, B:S.190, B:G.191, B:G.192, B:S.226, B:N.231, B:K.232, B:E.235

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 11 residues within 4Å: Chain A: S.155, E.156, T.188, A.189, S.190, W.216, H.255, S.258, V.260, H.261 Ligands: FOM.3 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.155, A:E.156, A:S.190, A:W.216, A:H.255, A:S.258 GOL.9: 10 residues within 4Å: Chain B: E.156, T.188, A.189, S.190, W.216, H.255, S.258, V.260, H.261 Ligands: FOM.8 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.188, B:H.255, B:S.258, B:H.261

2 x NHE: 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID(Non-covalent)

NHE.5: 11 residues within 4Å: Chain A: D.137, I.237, C.240, H.241, D.244, L.245, K.246, A.329, G.332, T.333, C.336 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:L.245, A:K.246, A:A.329, A:A.329, A:T.333 Water bridges: A:T.333 Salt bridges: A:H.241 NHE.10: 10 residues within 4Å: Chain B: I.237, C.240, H.241, D.244, L.245, K.246, A.329, G.332, T.333, C.336 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:K.246 Hydrogen bonds: B:C.240, B:K.246, B:G.332 Water bridges: B:T.333 Salt bridges: B:H.241

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Birkinshaw, R.W. et al., Crystal structures of the Moraxella catarrhalis DOX-P Reductoisomerase. To Be Published

Release Date

2016-06-29

Peptides

1-deoxy-D-xylulose 5-phosphate reductoisomerase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

1-deoxy-D-xylulose 5-phosphate reductoisomerase