SMTL ID : 4qht.1

Crystal structure of AAA+/ sigma 54 activator domain of the flagellar regulatory protein FlrC from Vibrio cholerae in ATP analog bound state

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.56 Å

Oligo State

homo-heptamer

Ligands

7 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.1: 20 residues within 4Å: Chain A: H.16, M.17, V.18, P.46, S.47, G.48, S.49, G.50, K.51, E.52, V.53, N.158, W.185, L.198, H.201, R.205, V.234, R.235, D.238 Ligands: MG.2 20 PLIP interactions: 20 interactions with chain A Hydrogen bonds: A:V.18, A:V.18, A:G.48, A:S.49, A:G.50, A:K.51, A:K.51, A:K.51, A:E.52, A:E.52, A:V.53, A:N.158, A:N.158, A:R.205, A:R.205, A:R.235, A:R.235, A:D.238 Water bridges: A:N.73, A:N.158 ANP.5: 20 residues within 4Å: Chain B: H.16, M.17, V.18, P.46, S.47, G.48, S.49, G.50, K.51, E.52, V.53, E.117, N.158, W.185, L.198, H.201, R.205, V.234, R.235 Ligands: MG.6 20 PLIP interactions: 20 interactions with chain B Hydrogen bonds: B:V.18, B:G.48, B:S.49, B:G.50, B:G.50, B:K.51, B:K.51, B:K.51, B:E.52, B:V.53, B:N.158, B:N.158, B:R.205, B:R.205, B:R.235, B:R.235, B:D.238 Water bridges: B:E.52, B:N.73, B:N.158 ANP.8: 20 residues within 4Å: Chain C: H.16, M.17, V.18, P.46, S.47, G.48, S.49, G.50, K.51, E.52, V.53, E.117, N.158, W.185, L.198, H.201, R.205, V.234, R.235 Ligands: MG.9 23 PLIP interactions: 23 interactions with chain C Hydrogen bonds: C:V.18, C:V.18, C:G.48, C:S.49, C:G.50, C:G.50, C:K.51, C:K.51, C:K.51, C:E.52, C:V.53, C:E.117, C:N.158, C:N.158, C:R.205, C:R.205, C:R.235, C:R.235 Water bridges: C:N.73, C:N.73, C:R.191, C:D.238, C:D.238 ANP.11: 18 residues within 4Å: Chain D: M.17, V.18, P.46, S.47, G.48, S.49, G.50, K.51, E.52, V.53, N.158, L.198, H.201, R.205, V.234, R.235, D.238 Ligands: MG.12 18 PLIP interactions: 18 interactions with chain D Hydrogen bonds: D:V.18, D:V.18, D:G.48, D:S.49, D:G.50, D:K.51, D:K.51, D:K.51, D:E.52, D:V.53, D:N.158, D:N.158, D:R.205, D:R.205, D:R.235, D:R.235, D:D.238, D:D.238 ANP.15: 19 residues within 4Å: Chain E: H.16, M.17, V.18, P.46, S.47, G.48, S.49, G.50, K.51, E.52, V.53, N.158, L.198, H.201, R.205, V.234, R.235 Ligands: MG.16, EDO.21 21 PLIP interactions: 21 interactions with chain E Hydrogen bonds: E:V.18, E:V.18, E:G.48, E:S.49, E:G.50, E:K.51, E:K.51, E:K.51, E:E.52, E:V.53, E:N.158, E:N.158, E:R.205, E:R.205, E:R.235, E:R.235 Water bridges: E:N.73, E:N.73, E:R.191, E:D.238, E:D.238 ANP.19: 19 residues within 4Å: Chain F: H.16, M.17, V.18, P.46, S.47, G.48, S.49, G.50, K.51, E.52, V.53, N.158, W.185, L.198, H.201, R.205, V.234, R.235 Ligands: MG.20 19 PLIP interactions: 19 interactions with chain F Hydrogen bonds: F:V.18, F:V.18, F:G.48, F:S.49, F:G.50, F:G.50, F:K.51, F:K.51, F:K.51, F:E.52, F:V.53, F:N.158, F:N.158, F:R.205, F:R.205, F:R.235, F:R.235 Water bridges: F:D.116, F:N.158 ANP.23: 19 residues within 4Å: Chain G: H.16, M.17, V.18, P.46, S.47, G.48, S.49, G.50, K.51, E.52, V.53, N.158, W.185, L.198, H.201, R.205, V.234, R.235 Ligands: MG.24 19 PLIP interactions: 19 interactions with chain G Hydrogen bonds: G:V.18, G:V.18, G:G.48, G:S.49, G:G.50, G:G.50, G:K.51, G:K.51, G:K.51, G:E.52, G:V.53, G:E.117, G:N.158, G:R.205, G:R.205, G:R.235, G:R.235 Water bridges: G:S.47, G:N.73

7 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: N.73, D.116 Ligands: ANP.1 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.116, H2O.2, H2O.2 MG.6: 3 residues within 4Å: Chain B: D.116, E.117 Ligands: ANP.5 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.116, B:E.117, H2O.3 MG.9: 4 residues within 4Å: Chain C: N.73, D.116, E.117 Ligands: ANP.8 2 PLIP interactions: 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.116, H2O.7 MG.12: 2 residues within 4Å: Chain D: D.116 Ligands: ANP.11 2 PLIP interactions: 1 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:D.116, H2O.9 MG.16: 3 residues within 4Å: Chain E: N.73, D.116 Ligands: ANP.15 2 PLIP interactions: 1 interactions with chain E, 1 Ligand-Water interactions Metal complexes: E:D.116, H2O.10 MG.20: 2 residues within 4Å: Chain F: D.116 Ligands: ANP.19 3 PLIP interactions: 1 interactions with chain F, 2 Ligand-Water interactions Metal complexes: F:D.116, H2O.13, H2O.13 MG.24: 3 residues within 4Å: Chain G: N.73, D.116 Ligands: ANP.23 3 PLIP interactions: 2 interactions with chain G, 1 Ligand-Water interactions Metal complexes: G:D.116, G:D.116, H2O.15

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

EDO.3: 3 residues within 4Å: Chain A: R.171, E.172, D.173 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain G Hydrogen bonds: A:E.172, A:D.173, A:D.173 Water bridges: G:R.235 EDO.4: 2 residues within 4Å: Chain A: D.150, V.151 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.150, A:V.151 EDO.7: 5 residues within 4Å: Chain B: V.132, L.133, R.136, V.151, V.153 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.136, B:R.136 EDO.10: 3 residues within 4Å: Chain C: R.171, E.172, D.173 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:R.171, C:E.172, C:D.173, C:D.173 EDO.13: 4 residues within 4Å: Chain C: R.235 Chain D: R.171, E.172, D.173 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:E.172, D:D.173 EDO.14: 4 residues within 4Å: Chain D: N.40, L.133, R.136, V.151 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:N.40 Water bridges: D:V.153 EDO.17: 3 residues within 4Å: Chain E: F.170, R.171, E.172 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:E.172 EDO.18: 3 residues within 4Å: Chain E: L.133, R.136, V.151 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:R.136 Water bridges: E:N.40, E:N.40 EDO.21: 5 residues within 4Å: Chain E: R.235 Chain F: R.171, E.172, D.173 Ligands: ANP.15 6 PLIP interactions: 5 interactions with chain F, 1 interactions with chain E Hydrogen bonds: F:E.172, F:D.173, F:D.173, E:R.235 Water bridges: F:F.170, F:R.171 EDO.22: 4 residues within 4Å: Chain F: V.132, L.133, R.136, V.151 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:R.136 EDO.25: 2 residues within 4Å: Chain G: R.171, E.172 3 PLIP interactions: 3 interactions with chain G Hydrogen bonds: G:E.172 Water bridges: G:D.173, G:D.173 EDO.26: 4 residues within 4Å: Chain G: N.40, R.136, V.151, V.153 4 PLIP interactions: 4 interactions with chain G Hydrogen bonds: G:N.40, G:R.136, G:R.136 Water bridges: G:N.40

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dey, S. et al., Unique ATPase site architecture triggers cis-mediated synchronized ATP binding in heptameric AAA+-ATPase domain of flagellar regulatory protein FlrC. J.Biol.Chem. (2015)

Release Date

2014-07-16

Peptides

Flagellar regulatory protein C: ABCDEFG

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

Flagellar regulatory protein C

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