SMTL ID : 1m74.1

Crystal structure of Mg-ADP-bound SecA from Bacillus subtilis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: T.107, D.207, E.208 Ligands: ADP.7 No protein-ligand interaction detected (PLIP) MG.8: 4 residues within 4Å: Chain B: T.107, D.207, E.208 Ligands: ADP.14 No protein-ligand interaction detected (PLIP)

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

SO4.2: 5 residues within 4Å: Chain A: T.58, T.120, K.122, H.202, E.365 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.120 Salt bridges: A:K.122, A:H.202 SO4.3: 4 residues within 4Å: Chain A: N.130, E.131, Y.132, H.464 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.131, A:Y.132 Salt bridges: A:H.464 SO4.4: 6 residues within 4Å: Chain A: Q.595, L.596, Y.599, R.735, Q.736, H.739 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.595, A:R.735, A:Q.736 Salt bridges: A:H.739 SO4.5: 5 residues within 4Å: Chain A: Y.408, R.409, T.410, G.413, T.567 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.409, A:T.410, A:T.410, A:T.567 SO4.6: 6 residues within 4Å: Chain A: D.215, E.216, R.218, T.219, Q.798, P.799 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.218, A:T.219, A:Q.798, A:E.801 Salt bridges: A:R.218 SO4.9: 5 residues within 4Å: Chain B: T.58, T.120, K.122, H.202, E.365 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:K.122, B:H.202 SO4.10: 4 residues within 4Å: Chain B: N.130, E.131, Y.132, H.464 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.131, B:Y.132 Salt bridges: B:H.464 SO4.11: 6 residues within 4Å: Chain B: Q.595, L.596, Y.599, R.735, Q.736, H.739 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Q.595, B:R.735, B:Q.736 Salt bridges: B:H.739 SO4.12: 5 residues within 4Å: Chain B: Y.408, R.409, T.410, G.413, T.567 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.409, B:T.410, B:T.410, B:T.567 SO4.13: 6 residues within 4Å: Chain B: D.215, E.216, R.218, T.219, Q.798, P.799 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.218, B:T.219, B:Q.798, B:E.801 Salt bridges: B:R.218

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.7: 17 residues within 4Å: Chain A: M.79, F.80, P.81, F.82, Q.85, T.102, G.103, E.104, G.105, K.106, T.107, L.108, G.490, D.492, K.494, R.528 Ligands: MG.1 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:F.80, A:Q.85, A:K.101, A:G.103, A:E.104, A:G.105, A:K.106, A:T.107, A:T.107, A:T.107, A:D.492, A:K.494, A:R.528 Water bridges: A:R.136, A:R.136, A:R.136, A:R.136 Salt bridges: A:K.106 pi-Cation interactions: A:K.494 ADP.14: 17 residues within 4Å: Chain B: M.79, F.80, P.81, F.82, Q.85, T.102, G.103, E.104, G.105, K.106, T.107, L.108, G.490, D.492, K.494, R.528 Ligands: MG.8 17 PLIP interactions: 17 interactions with chain B Hydrogen bonds: B:F.80, B:Q.85, B:K.101, B:G.103, B:E.104, B:G.105, B:K.106, B:T.107, B:T.107, B:D.492, B:K.494 Water bridges: B:R.136, B:R.136, B:R.136, B:R.136 Salt bridges: B:K.106 pi-Cation interactions: B:K.494

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hunt, J.F. et al., Nucleotide Control of Interdomain Interactions in the Conformational Reaction Cycle of SecA. Science (2002)

Release Date

2002-09-20

Peptides

Preprotein translocase secA: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Preprotein translocase secA

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