SMTL ID : 4l0o.1 (2 other biounits)

Structure determination of cystathionine gamma-synthase from Helicobacter pylori

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.76 Å

Oligo State

homo-octamer

Ligands

7 x PLP: PYRIDOXAL-5'-PHOSPHATE(Non-covalent)(Covalent)

PLP.1: 12 residues within 4Å: Chain A: S.73, G.74, L.75, Y.98, D.170, T.172, F.173, S.192, T.194, K.195, A.205 Chain D: R.46 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain D Hydrogen bonds: A:G.74, A:L.75, A:T.172, A:T.194, A:A.205 pi-Stacking: A:Y.98 Salt bridges: D:R.46 PLP.2: 13 residues within 4Å: Chain B: S.73, G.74, L.75, Y.98, D.170, T.172, F.173, S.192, T.194, K.195, A.205 Chain C: Y.44, R.46 7 PLIP interactions: 5 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:S.73, B:G.74, B:L.75, B:S.192, C:Y.44 pi-Stacking: B:Y.98 Salt bridges: C:R.46 PLP.3: 15 residues within 4Å: Chain B: Y.44, R.46 Chain C: S.73, G.74, L.75, Y.98, N.145, D.170, T.172, F.173, S.192, T.194, K.195, A.205, L.323 12 PLIP interactions: 10 interactions with chain C, 2 interactions with chain B Hydrogen bonds: C:G.74, C:L.75, C:Y.98, C:Y.98, C:N.145, C:T.172, C:S.192, C:T.194, C:A.205, B:Y.44 pi-Stacking: C:Y.98 Salt bridges: B:R.46 PLP.4: 12 residues within 4Å: Chain A: Y.44, R.46 Chain D: S.73, G.74, L.75, I.78, Y.98, D.170, S.192, T.194, K.195, A.205 5 PLIP interactions: 4 interactions with chain D, 1 interactions with chain A Hydrogen bonds: D:G.74, D:L.75, D:S.192 pi-Stacking: D:Y.98 Salt bridges: A:R.46 PLP.5: 11 residues within 4Å: Chain E: S.73, G.74, L.75, Y.98, D.170, T.172, S.192, T.194, K.195, V.204, A.205 9 PLIP interactions: 9 interactions with chain E Hydrophobic interactions: E:Y.98, E:K.195 Hydrogen bonds: E:G.74, E:L.75, E:T.194, E:T.194, E:K.195, E:K.195 pi-Stacking: E:Y.98 PLP.7: 13 residues within 4Å: Chain G: S.73, G.74, L.75, I.78, Y.98, D.170, T.172, F.173, S.192, T.194, K.195 Chain H: Y.44, R.46 8 PLIP interactions: 5 interactions with chain G, 3 interactions with chain H Hydrogen bonds: G:G.74, G:L.75, G:N.145, G:S.192, H:Y.44, H:Y.44 pi-Stacking: G:Y.98 Salt bridges: H:R.46 PLP.8: 13 residues within 4Å: Chain G: Y.44, R.46 Chain H: S.73, G.74, L.75, I.78, Y.98, D.170, T.172, S.192, T.194, K.195, A.205 9 PLIP interactions: 7 interactions with chain H, 2 interactions with chain G Hydrogen bonds: H:G.74, H:L.75, H:T.172, H:S.192, H:T.194, H:A.205, G:Y.44 pi-Stacking: H:Y.98 Salt bridges: G:R.46

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

PO4.6: 6 residues within 4Å: Chain F: S.73, G.74, L.75, S.192, T.194, A.205 7 PLIP interactions: 7 interactions with chain F Hydrogen bonds: F:G.74, F:L.75, F:S.192, F:T.194, F:T.194, F:T.194 Salt bridges: F:K.195

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tarique, K.F. et al., Structure determination of cystathionine gamma-synthase from Helicobacter pylori. To be Published

Release Date

2013-12-25

Peptides

Cystathionine gamma-synthase: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
A

C
C

D
E

E
G

F
K

G
M

H
O

Cystathionine gamma-synthase

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