SMTL ID : 3ktb.1 (1 other biounit)

Crystal Structure of Arsenical Resistance Operon Trans-acting Repressor from Bacteroides vulgatus ATCC 8482

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-16-mer

Ligands

12 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 5 residues within 4Å: Chain A: A.13, M.14, C.15 Chain C: A.13, R.52 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.13 GOL.4: 4 residues within 4Å: Chain C: S.88, Q.89 Chain I: S.1, G.102 5 PLIP interactions: 2 interactions with chain C, 3 interactions with chain I Hydrogen bonds: C:S.88, C:S.88, I:S.1 Water bridges: I:G.102, I:N.104 GOL.6: 6 residues within 4Å: Chain B: A.13, C.15 Chain D: A.13, M.14, R.52 Ligands: ACY.2 No protein-ligand interaction detected (PLIP) GOL.7: 5 residues within 4Å: Chain E: A.13, M.14, C.15 Chain G: A.13, R.52 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:A.13 GOL.10: 4 residues within 4Å: Chain G: S.88, Q.89 Chain M: S.1, G.102 5 PLIP interactions: 3 interactions with chain M, 2 interactions with chain G Hydrogen bonds: M:S.1, G:S.88, G:S.88 Water bridges: M:G.102, M:N.104 GOL.12: 6 residues within 4Å: Chain F: A.13, C.15 Chain H: A.13, M.14, R.52 Ligands: ACY.8 No protein-ligand interaction detected (PLIP) GOL.13: 5 residues within 4Å: Chain I: A.13, M.14, C.15 Chain K: A.13, R.52 1 PLIP interactions: 1 interactions with chain I Hydrogen bonds: I:A.13 GOL.16: 4 residues within 4Å: Chain E: S.1, G.102 Chain K: S.88, Q.89 5 PLIP interactions: 3 interactions with chain E, 2 interactions with chain K Hydrogen bonds: E:S.1, K:S.88, K:S.88 Water bridges: E:G.102, E:N.104 GOL.18: 6 residues within 4Å: Chain J: A.13, C.15 Chain L: A.13, M.14, R.52 Ligands: ACY.14 No protein-ligand interaction detected (PLIP) GOL.19: 5 residues within 4Å: Chain M: A.13, M.14, C.15 Chain O: A.13, R.52 1 PLIP interactions: 1 interactions with chain M Hydrogen bonds: M:A.13 GOL.22: 4 residues within 4Å: Chain A: S.1, G.102 Chain O: S.88, Q.89 4 PLIP interactions: 2 interactions with chain O, 2 interactions with chain A Hydrogen bonds: O:S.88, O:S.88, A:S.1 Water bridges: A:N.104 GOL.24: 6 residues within 4Å: Chain N: A.13, C.15 Chain P: A.13, M.14, R.52 Ligands: ACY.20 No protein-ligand interaction detected (PLIP)

8 x ACY: ACETIC ACID(Non-functional Binders)

ACY.2: 6 residues within 4Å: Chain B: C.15, G.19, C.21, L.29 Chain D: R.52 Ligands: GOL.6 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain D Hydrophobic interactions: B:L.29 Hydrogen bonds: B:C.15, B:G.19 Salt bridges: D:R.52 ACY.3: 3 residues within 4Å: Chain C: M.14, C.15, G.19 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:C.15 Water bridges: C:C.21 ACY.8: 6 residues within 4Å: Chain F: C.15, G.19, C.21, L.29 Chain H: R.52 Ligands: GOL.12 4 PLIP interactions: 3 interactions with chain F, 1 interactions with chain H Hydrophobic interactions: F:L.29 Hydrogen bonds: F:C.15, F:G.19 Salt bridges: H:R.52 ACY.9: 3 residues within 4Å: Chain G: M.14, C.15, G.19 2 PLIP interactions: 2 interactions with chain G Hydrogen bonds: G:C.15 Water bridges: G:C.21 ACY.14: 6 residues within 4Å: Chain J: C.15, G.19, C.21, L.29 Chain L: R.52 Ligands: GOL.18 4 PLIP interactions: 3 interactions with chain J, 1 interactions with chain L Hydrophobic interactions: J:L.29 Hydrogen bonds: J:C.15, J:G.19 Salt bridges: L:R.52 ACY.15: 3 residues within 4Å: Chain K: M.14, C.15, G.19 2 PLIP interactions: 2 interactions with chain K Hydrogen bonds: K:C.15 Water bridges: K:C.21 ACY.20: 6 residues within 4Å: Chain N: C.15, G.19, C.21, L.29 Chain P: R.52 Ligands: GOL.24 4 PLIP interactions: 1 interactions with chain P, 3 interactions with chain N Salt bridges: P:R.52 Hydrophobic interactions: N:L.29 Hydrogen bonds: N:C.15, N:G.19 ACY.21: 3 residues within 4Å: Chain O: M.14, C.15, G.19 2 PLIP interactions: 2 interactions with chain O Hydrogen bonds: O:C.15 Water bridges: O:C.21

4 x CA: CALCIUM ION(Non-covalent)

CA.5: 2 residues within 4Å: Chain D: D.74, Q.89 2 PLIP interactions: 1 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:D.74, H2O.452 CA.11: 2 residues within 4Å: Chain H: D.74, Q.89 2 PLIP interactions: 1 interactions with chain H, 1 Ligand-Water interactions Metal complexes: H:D.74, H2O.939 CA.17: 2 residues within 4Å: Chain L: D.74, Q.89 2 PLIP interactions: 1 interactions with chain L, 1 Ligand-Water interactions Metal complexes: L:D.74, H2O.1426 CA.23: 2 residues within 4Å: Chain P: D.74, Q.89 2 PLIP interactions: 1 interactions with chain P, 1 Ligand-Water interactions Metal complexes: P:D.74, H2O.1913

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, Y. et al., Crystal Structure of Arsenical Resistance Operon Trans-acting Repressor from Bacteroides vulgatus ATCC 8482. To be Published

Release Date

2009-12-08

Peptides

Arsenical resistance operon trans-acting repressor: ABCDEFGHIJKLMNOP

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
A

F
B

G
C

H
D

I
A

J
B

K
C

L
D

M
A

N
B

O
C

P
D

Arsenical resistance operon trans-acting repressor

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