SMTL ID : 3qpz.1

Crystal structure of the N59A mutant of the 3-deoxy-d-manno-octulosonate 8-phosphate synthase (KDO8PS) from Neisseria meningitidis

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-tetramer

Ligands

8 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 6 residues within 4Å: Chain A: K.52, Q.110, K.135, H.199, F.234, E.236 Ligand excluded by PLIP CL.2: 4 residues within 4Å: Chain A: A.113, F.114, Q.138, R.165 Ligand excluded by PLIP CL.4: 4 residues within 4Å: Chain B: K.52, Q.110, K.135, F.234 Ligand excluded by PLIP CL.5: 4 residues within 4Å: Chain B: A.113, P.137, Q.138, R.165 Ligand excluded by PLIP CL.7: 6 residues within 4Å: Chain C: K.52, Q.110, K.135, H.199, F.234, E.236 Ligand excluded by PLIP CL.8: 4 residues within 4Å: Chain C: A.113, P.137, Q.138, R.165 Ligand excluded by PLIP CL.11: 5 residues within 4Å: Chain D: K.52, Q.110, K.135, H.199, F.234 Ligand excluded by PLIP CL.12: 5 residues within 4Å: Chain D: A.113, F.114, P.137, Q.138, R.165 Ligand excluded by PLIP

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.3: 6 residues within 4Å: Chain B: A.103, E.104, V.105, C.106, D.107, N.130 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:D.107, B:N.130 Water bridges: B:D.107 Salt bridges: B:K.82

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 8 residues within 4Å: Chain C: R.229, I.271, Q.274, I.276, L.277 Chain D: L.219, L.223, R.263 6 PLIP interactions: 1 interactions with chain D, 5 interactions with chain C Hydrogen bonds: D:R.263, C:R.229, C:Q.274, C:L.277, C:L.277 Water bridges: C:Q.274 GOL.10: 6 residues within 4Å: Chain D: K.82, A.103, E.104, V.105, D.107, N.130 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:K.82, D:K.82, D:A.103, D:D.107, D:D.107, D:N.130

1 x NA: SODIUM ION(Non-functional Binders)

NA.9: 3 residues within 4Å: Chain C: A.103, C.106, N.130 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:A.103, C:N.130

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Allison, T.M. et al., Targeting the role of a key conserved motif for substrate selection and catalysis by 3-deoxy-D-manno-octulosonate 8-phosphate synthase. Biochemistry (2011)

Release Date

2011-04-13

Peptides

2-dehydro-3-deoxyphosphooctonate aldolase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

2-dehydro-3-deoxyphosphooctonate aldolase