SMTL ID : 6g26.1

The crystal structure of the Burkholderia pseudomallei HicAB complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.49 Å

Oligo State

hetero-4-4-mer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: Q.88, E.117, T.118, G.121, R.125 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.88, A:T.118, A:T.118 Salt bridges: A:R.125 SO4.2: 5 residues within 4Å: Chain A: T.118, R.119, S.120 Ligands: EDO.7, EDO.9 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.119, A:S.120, A:S.120 SO4.10: 5 residues within 4Å: Chain B: Q.88, E.117, T.118, G.121, R.125 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Q.88, B:T.118 Water bridges: B:S.87 Salt bridges: B:R.125 SO4.15: 6 residues within 4Å: Chain C: Q.88, H.116, E.117, T.118, G.121, R.125 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:Q.88, C:T.118, C:G.121 Salt bridges: C:R.125 SO4.18: 6 residues within 4Å: Chain D: Q.88, H.116, E.117, T.118, G.121, R.125 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:Q.88, D:H.116, D:T.118 Salt bridges: D:R.125

18 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 10 residues within 4Å: Chain A: H.27, S.28, W.29, N.39, E.42, A.43 Chain F: T.26, S.28, A.29, P.44 Ligand excluded by PLIP EDO.4: 6 residues within 4Å: Chain A: E.49, I.52, L.89, D.90, S.91 Chain D: R.102 Ligand excluded by PLIP EDO.5: 5 residues within 4Å: Chain A: M.1, F.60, N.132, K.135 Chain D: K.107 Ligand excluded by PLIP EDO.6: 10 residues within 4Å: Chain A: T.19, V.20, P.21, I.23, P.24, G.25, V.26, H.27 Chain F: S.57, S.61 Ligand excluded by PLIP EDO.7: 1 residues within 4Å: Ligands: SO4.2 Ligand excluded by PLIP EDO.8: 4 residues within 4Å: Chain A: R.41, D.85, Q.88, L.89 Ligand excluded by PLIP EDO.9: 5 residues within 4Å: Chain A: R.95, S.120 Chain D: N.97, S.99 Ligands: SO4.2 Ligand excluded by PLIP EDO.11: 3 residues within 4Å: Chain B: L.51, E.56, D.57 Ligand excluded by PLIP EDO.12: 8 residues within 4Å: Chain B: S.28, N.39, E.42, A.43 Chain E: T.26, G.27, S.28, A.29 Ligand excluded by PLIP EDO.13: 10 residues within 4Å: Chain B: T.19, V.20, P.21, I.23, P.24, G.25, V.26, H.27 Chain E: S.57, S.61 Ligand excluded by PLIP EDO.14: 4 residues within 4Å: Chain B: P.21, T.61, K.71, Y.74 Ligand excluded by PLIP EDO.16: 7 residues within 4Å: Chain C: S.28, N.39, E.42, A.43 Chain G: T.26, S.28, A.29 Ligand excluded by PLIP EDO.17: 3 residues within 4Å: Chain C: W.29, D.35, N.39 Ligand excluded by PLIP EDO.19: 6 residues within 4Å: Chain A: R.102 Chain D: E.49, I.52, E.53, L.89, S.91 Ligand excluded by PLIP EDO.20: 4 residues within 4Å: Chain D: D.22, T.61, S.63, K.71 Ligand excluded by PLIP EDO.21: 5 residues within 4Å: Chain A: E.94 Chain D: L.105, H.106, D.109, R.119 Ligand excluded by PLIP EDO.22: 2 residues within 4Å: Chain D: W.29, N.39 Ligand excluded by PLIP EDO.24: 4 residues within 4Å: Chain H: F.5, T.6, N.7, D.49 Ligand excluded by PLIP

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.23: 11 residues within 4Å: Chain A: R.102, F.103, H.106, K.107 Chain D: L.51, I.52, G.55, E.56, D.57, V.58, E.59 5 PLIP interactions: 3 interactions with chain D, 2 interactions with chain A Hydrogen bonds: D:I.52, D:V.58, D:E.59, A:K.107 Water bridges: A:R.102

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Winter, A.J. et al., The molecular basis of protein toxin HicA-dependent binding of the protein antitoxin HicB to DNA. J. Biol. Chem. (2018)

Release Date

2018-10-31

Peptides

HicB: ABCD
HicA: EFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

HicB

HicA

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