SMTL ID : 5d09.1

Neisseria meningitidis 3 deoxy-D-arabino-heptulosonate 7-phosphate synthase Phe211Ala variant

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

homo-tetramer

Ligands

4 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 5 residues within 4Å: Chain A: C.63, H.270, E.304, D.324 Ligands: PEP.2 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:C.63, A:H.270, A:E.304, A:D.324, H2O.3 MN.4: 5 residues within 4Å: Chain B: C.63, R.94, H.270, E.304, D.324 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:C.63, B:H.270, B:E.304, B:D.324, H2O.7 MN.7: 5 residues within 4Å: Chain C: C.63, R.94, H.270, E.304, D.324 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:C.63, C:H.270, C:E.304, C:D.324, H2O.10 MN.10: 6 residues within 4Å: Chain D: C.63, R.94, K.99, H.270, E.304, D.324 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.63, D:H.270, D:E.304, D:D.324

1 x PEP: PHOSPHOENOLPYRUVATE(Non-functional Binders)

PEP.2: 12 residues within 4Å: Chain A: R.94, Y.96, P.100, G.165, A.166, R.167, K.188, R.236, H.270, M.302, E.304 Ligands: MN.1 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:Y.96, A:A.166 Water bridges: A:R.167 Salt bridges: A:R.94, A:R.167, A:K.188, A:K.188, A:R.236, A:H.270, A:H.270

1 x TMO: trimethylamine oxide(Non-covalent)

TMO.3: 2 residues within 4Å: Chain A: Y.26, E.27 3 PLIP interactions: 3 interactions with chain A Water bridges: A:E.27, A:E.27 Salt bridges: A:E.27

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

PEG.5: 3 residues within 4Å: Chain B: K.83, Q.84, Y.85 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.84 PEG.8: 2 residues within 4Å: Chain C: E.73, R.77 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:E.73, C:E.73, C:R.77 Water bridges: C:E.76, C:K.80

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

EDO.6: 6 residues within 4Å: Chain B: A.245, A.289, Q.290, Q.293, D.294, G.295 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.290, B:G.295 EDO.9: 3 residues within 4Å: Chain C: H.270, K.275, D.324 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Heyes, L.C. et al., Neisseria meningitidis 3 deoxy-D-arabino-heptulosonate 7-phosphate synthase Phe211Ala variant at 2.35 Angstroms resolution. To Be Published

Release Date

2016-08-10

Peptides

Phospho-2-dehydro-3-deoxyheptonate aldolase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Phospho-2-dehydro-3-deoxyheptonate aldolase