SMTL ID : 5yhm.1

Crystal structure of dehydroquinate dehydratase with tris induced oligomerisation at 1.907 Angstrom resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.91 Å

Oligo State

hetero-11-1-mer

Ligands

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

SO4.1: 6 residues within 4Å: Chain A: L.11, N.74, A.76, H.100, L.101, S.102 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.74, A:N.74, A:L.101, A:S.102 Salt bridges: A:H.100 SO4.2: 5 residues within 4Å: Chain B: N.74, A.76, H.100, L.101, S.102 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:N.74, B:N.74, B:L.101, B:S.102 Salt bridges: B:H.100 SO4.3: 6 residues within 4Å: Chain C: L.11, N.74, A.76, H.100, L.101, S.102 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:N.74, C:N.74, C:L.101, C:S.102 Salt bridges: C:H.100 SO4.5: 6 residues within 4Å: Chain D: L.11, N.74, A.76, H.100, L.101, S.102 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:N.74, D:N.74, D:L.101, D:S.102 Water bridges: D:S.102 Salt bridges: D:H.100 SO4.6: 6 residues within 4Å: Chain E: L.11, N.74, A.76, H.100, L.101, S.102 5 PLIP interactions: 5 interactions with chain E Hydrogen bonds: E:N.74, E:L.101, E:S.102 Water bridges: E:A.76 Salt bridges: E:H.100 SO4.8: 6 residues within 4Å: Chain F: L.11, N.74, A.76, H.100, L.101, S.102 4 PLIP interactions: 4 interactions with chain F Hydrogen bonds: F:N.74, F:L.101, F:S.102 Salt bridges: F:H.100 SO4.9: 6 residues within 4Å: Chain G: L.11, N.74, A.76, H.100, L.101, S.102 5 PLIP interactions: 5 interactions with chain G Hydrogen bonds: G:N.74, G:N.74, G:L.101, G:S.102 Salt bridges: G:H.100 SO4.10: 6 residues within 4Å: Chain H: L.11, N.74, A.76, H.100, L.101, S.102 5 PLIP interactions: 5 interactions with chain H Hydrogen bonds: H:N.74, H:L.101, H:S.102, H:S.102 Salt bridges: H:H.100 SO4.12: 6 residues within 4Å: Chain I: L.11, N.74, A.76, H.100, L.101, S.102 5 PLIP interactions: 5 interactions with chain I Hydrogen bonds: I:N.74, I:L.101, I:S.102, I:S.102 Salt bridges: I:H.100 SO4.13: 5 residues within 4Å: Chain J: N.74, A.76, H.100, L.101, S.102 8 PLIP interactions: 8 interactions with chain J Hydrogen bonds: J:N.74, J:N.74, J:L.101, J:S.102, J:S.102 Water bridges: J:R.107, J:R.107 Salt bridges: J:H.100 SO4.14: 6 residues within 4Å: Chain K: L.13, N.76, A.78, H.102, L.103, S.104 7 PLIP interactions: 7 interactions with chain K Hydrogen bonds: K:N.76, K:N.76, K:L.103, K:S.104 Water bridges: K:S.104, K:S.104 Salt bridges: K:H.102 SO4.16: 5 residues within 4Å: Chain L: N.74, A.76, H.100, L.101, S.102 5 PLIP interactions: 5 interactions with chain L Hydrogen bonds: L:N.74, L:L.101, L:S.102 Water bridges: L:A.76 Salt bridges: L:H.100

4 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.4: 9 residues within 4Å: Chain A: E.53, T.81, S.82 Chain B: E.53, T.81, S.82 Chain C: E.53, T.81, S.82 5 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C, 3 interactions with chain B Hydrogen bonds: A:S.82, C:T.81, B:E.53, B:T.81, B:S.82 TRS.7: 9 residues within 4Å: Chain E: E.53, T.81, S.82 Chain F: E.53, T.81, S.82 Chain G: E.53, T.81, S.82 6 PLIP interactions: 1 interactions with chain E, 2 interactions with chain G, 3 interactions with chain F Hydrogen bonds: E:S.82, G:T.81, G:T.81, F:E.53, F:T.81, F:T.81 TRS.11: 9 residues within 4Å: Chain D: E.53, T.81, S.82 Chain H: E.53, T.81, S.82 Chain L: E.53, T.81, S.82 7 PLIP interactions: 1 interactions with chain L, 4 interactions with chain D, 2 interactions with chain H Hydrogen bonds: L:T.81, D:E.53, D:T.81, D:T.81, H:T.81, H:T.81 Water bridges: D:E.53 TRS.15: 9 residues within 4Å: Chain I: E.53, T.81, S.82 Chain J: E.53, T.81, S.82 Chain K: E.55, T.83, S.84 6 PLIP interactions: 1 interactions with chain K, 2 interactions with chain J, 3 interactions with chain I Hydrogen bonds: K:S.84, J:T.81, I:E.53, I:T.81, I:T.81 Water bridges: J:V.83

Links

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Citation

Iqbal, N. et al., Crystal structure of dehydroquinate dehydratase with tris induced oligomerisation at 1.907 Angstrom resolution. To Be Published

Release Date

2017-10-25

Peptides

3-dehydroquinate dehydratase: ABCDEFGHIJL
3-dehydroquinate dehydratase: K

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

L
L

K
K

3-dehydroquinate dehydratase

3-dehydroquinate dehydratase