SMTL ID : 5ypq.1

Crystal structure of sulfated dehydroquinate dehydratase from Acinetobacter baumannii at 2.65 A resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

homo-12-mer

Ligands

12 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 6 residues within 4Å: Chain A: L.13, N.76, A.78, H.102, L.103, S.104 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.76, A:L.103, A:S.104 Salt bridges: A:H.102 SO4.2: 6 residues within 4Å: Chain B: L.13, N.76, A.78, H.102, L.103, S.104 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:N.76, B:N.76, B:L.103, B:S.104 Water bridges: B:R.109 Salt bridges: B:H.102 SO4.4: 6 residues within 4Å: Chain C: L.13, N.76, A.78, H.102, L.103, S.104 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:N.76, C:L.103, C:S.104, C:S.104 Salt bridges: C:H.102 SO4.5: 6 residues within 4Å: Chain D: L.13, N.76, A.78, H.102, L.103, S.104 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:N.76, D:L.103, D:S.104, D:S.104 Salt bridges: D:H.102 SO4.6: 6 residues within 4Å: Chain E: L.13, N.76, A.78, H.102, L.103, S.104 5 PLIP interactions: 5 interactions with chain E Hydrogen bonds: E:N.76, E:L.103, E:S.104 Water bridges: E:A.78 Salt bridges: E:H.102 SO4.7: 5 residues within 4Å: Chain F: N.76, A.78, H.102, L.103, S.104 4 PLIP interactions: 4 interactions with chain F Hydrogen bonds: F:N.76, F:L.103, F:S.104 Salt bridges: F:H.102 SO4.9: 5 residues within 4Å: Chain G: L.13, N.76, H.102, L.103, S.104 5 PLIP interactions: 5 interactions with chain G Hydrogen bonds: G:N.76, G:L.103, G:S.104 Water bridges: G:R.109 Salt bridges: G:H.102 SO4.10: 6 residues within 4Å: Chain H: L.13, N.76, A.78, H.102, L.103, S.104 5 PLIP interactions: 5 interactions with chain H Hydrogen bonds: H:N.76, H:L.103, H:S.104, H:S.104 Salt bridges: H:H.102 SO4.12: 6 residues within 4Å: Chain I: L.13, N.76, A.78, H.102, L.103, S.104 5 PLIP interactions: 5 interactions with chain I Hydrogen bonds: I:N.76, I:L.103, I:S.104, I:S.104 Salt bridges: I:H.102 SO4.13: 6 residues within 4Å: Chain J: L.13, N.76, A.78, H.102, L.103, S.104 4 PLIP interactions: 4 interactions with chain J Hydrogen bonds: J:N.76, J:L.103, J:S.104 Salt bridges: J:H.102 SO4.14: 6 residues within 4Å: Chain K: L.13, N.76, A.78, H.102, L.103, S.104 8 PLIP interactions: 8 interactions with chain K Hydrogen bonds: K:N.76, K:N.76, K:L.103, K:S.104 Water bridges: K:S.104, K:R.109, K:R.109 Salt bridges: K:H.102 SO4.16: 5 residues within 4Å: Chain L: N.76, A.78, H.102, L.103, S.104 7 PLIP interactions: 7 interactions with chain L Hydrogen bonds: L:N.76, L:L.103, L:S.104 Water bridges: L:R.109, L:R.109, L:R.109 Salt bridges: L:H.102

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 8 residues within 4Å: Chain A: E.55, T.83, S.84 Chain B: E.55, T.83, S.84 Chain C: E.55, T.83 6 PLIP interactions: 3 interactions with chain C, 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: C:E.55, B:T.83, B:T.83, A:S.84 Water bridges: C:T.83, C:T.83 GOL.8: 9 residues within 4Å: Chain E: E.55, T.83, S.84 Chain F: E.55, T.83, S.84 Chain G: E.55, T.83, S.84 7 PLIP interactions: 2 interactions with chain G, 3 interactions with chain F, 2 interactions with chain E Hydrogen bonds: G:E.55, G:T.83, F:T.83, F:T.83, E:E.55 Water bridges: F:V.85, E:V.85 GOL.11: 9 residues within 4Å: Chain D: E.55, T.83, S.84 Chain H: E.55, T.83, S.84 Chain L: E.55, T.83, S.84 5 PLIP interactions: 2 interactions with chain D, 1 interactions with chain L, 2 interactions with chain H Hydrogen bonds: D:E.55, D:T.83, L:T.83, H:T.83, H:T.83 GOL.15: 8 residues within 4Å: Chain I: E.55, T.83 Chain J: E.55, T.83, S.84 Chain K: E.55, T.83, S.84 5 PLIP interactions: 3 interactions with chain I, 1 interactions with chain J, 1 interactions with chain K Hydrogen bonds: I:T.83, I:T.83, J:E.55, K:E.55 Water bridges: I:V.85

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Iqbal, N. et al., Crystal structure of sulfated dehydroquinate dehydratase from Acinetobacter baumannii at 2.65 A resolution. To Be Published

Release Date

2017-11-22

Peptides

3-dehydroquinate dehydratase: ABCDEFGHIJKL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

I
I

J
J

K
K

L
L

3-dehydroquinate dehydratase

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