SMTL ID : 2nm2.1

Crystal structure of dihydroneopterin aldolase from S. aureus in complex with (1S,2R)-neopterin at 1.50 Angstrom resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-octamer

Ligands

8 x NEU: L-NEOPTERIN(Non-covalent)

NEU.1: 14 residues within 4Å: Chain A: G.17, A.18, E.22, L.72, L.73, E.74, K.100, P.103, P.104, I.105 Chain B: T.51, V.52, H.53, Y.54 13 PLIP interactions: 7 interactions with chain B, 6 interactions with chain A Hydrogen bonds: B:V.52, B:V.52, B:Y.54, B:Y.54, B:G.55, A:A.18, A:L.73, A:K.100, A:K.100, A:P.104 pi-Stacking: B:Y.54, B:Y.54 Salt bridges: A:E.74 NEU.2: 15 residues within 4Å: Chain B: A.18, L.19, E.22, N.71, L.72, L.73, E.74, K.100, P.103, P.104, I.105, I.114 Chain E: H.53, Y.54, G.55 12 PLIP interactions: 6 interactions with chain B, 6 interactions with chain E Hydrogen bonds: B:A.18, B:L.19, B:L.73, B:K.100, B:K.100, E:H.53, E:Y.54 Salt bridges: B:E.74 Water bridges: E:V.52, E:H.53 pi-Stacking: E:Y.54, E:Y.54 NEU.3: 15 residues within 4Å: Chain C: G.17, A.18, E.22, N.71, L.72, L.73, E.74, K.100, P.104 Chain D: I.5, L.39, T.51, V.52, H.53, Y.54 12 PLIP interactions: 7 interactions with chain C, 5 interactions with chain D Hydrogen bonds: C:A.18, C:N.71, C:L.73, C:E.74, C:K.100, C:K.100, D:V.52, D:V.52, D:Y.54, D:Y.54 Salt bridges: C:E.74 Water bridges: D:H.53 NEU.4: 16 residues within 4Å: Chain D: G.17, A.18, L.19, E.22, N.71, L.72, L.73, E.74, K.100, P.104, I.114 Chain G: I.5, T.51, V.52, H.53, Y.54 9 PLIP interactions: 4 interactions with chain G, 5 interactions with chain D Hydrogen bonds: G:V.52, G:V.52, G:Y.54, D:A.18, D:L.73, D:K.100, D:K.100 pi-Stacking: G:Y.54 Salt bridges: D:E.74 NEU.5: 14 residues within 4Å: Chain E: G.17, A.18, E.22, L.72, L.73, E.74, K.100, P.103, P.104, I.105 Chain F: T.51, V.52, H.53, Y.54 13 PLIP interactions: 6 interactions with chain E, 7 interactions with chain F Hydrogen bonds: E:A.18, E:L.73, E:K.100, E:K.100, E:P.104, F:V.52, F:V.52, F:Y.54, F:Y.54, F:G.55 Salt bridges: E:E.74 pi-Stacking: F:Y.54, F:Y.54 NEU.6: 15 residues within 4Å: Chain A: H.53, Y.54, G.55 Chain F: A.18, L.19, E.22, N.71, L.72, L.73, E.74, K.100, P.103, P.104, I.105, I.114 12 PLIP interactions: 6 interactions with chain F, 6 interactions with chain A Hydrogen bonds: F:A.18, F:L.19, F:L.73, F:K.100, F:K.100, A:H.53, A:Y.54 Salt bridges: F:E.74 Water bridges: A:V.52, A:H.53 pi-Stacking: A:Y.54, A:Y.54 NEU.7: 15 residues within 4Å: Chain G: G.17, A.18, E.22, N.71, L.72, L.73, E.74, K.100, P.104 Chain H: I.5, L.39, T.51, V.52, H.53, Y.54 12 PLIP interactions: 7 interactions with chain G, 5 interactions with chain H Hydrogen bonds: G:A.18, G:N.71, G:L.73, G:E.74, G:K.100, G:K.100, H:V.52, H:V.52, H:Y.54, H:Y.54 Salt bridges: G:E.74 Water bridges: H:H.53 NEU.8: 16 residues within 4Å: Chain C: I.5, T.51, V.52, H.53, Y.54 Chain H: G.17, A.18, L.19, E.22, N.71, L.72, L.73, E.74, K.100, P.104, I.114 9 PLIP interactions: 5 interactions with chain H, 4 interactions with chain C Hydrogen bonds: H:A.18, H:L.73, H:K.100, H:K.100, C:V.52, C:V.52, C:Y.54 Salt bridges: H:E.74 pi-Stacking: C:Y.54

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Blaszczyk, J. et al., Structural basis for the aldolase and epimerase activities of Staphylococcus aureus dihydroneopterin aldolase. J.Mol.Biol. (2007)

Release Date

2007-09-04

Peptides

Dihydroneopterin aldolase: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
A

F
B

G
C

H
D

Dihydroneopterin aldolase

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