SMTL ID : 3bxz.1

Crystal structure of the isolated DEAD motor domains from Escherichia coli SecA

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.111, D.211, E.212 Ligands: ADP.3 No protein-ligand interaction detected (PLIP) MG.4: 4 residues within 4Å: Chain B: T.111, D.211, E.212 Ligands: ADP.6 No protein-ligand interaction detected (PLIP)

2 x SPD: SPERMIDINE(Non-covalent)

SPD.2: 2 residues within 4Å: Chain A: E.322, E.325 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:E.325 Hydrogen bonds: A:E.325, A:E.325 SPD.5: 3 residues within 4Å: Chain B: E.325, S.328, N.329 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.328, B:S.328

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

ADP.3: 15 residues within 4Å: Chain A: M.83, R.84, H.85, F.86, Q.89, R.105, T.106, G.107, E.108, G.109, K.110, T.111, L.112, D.374 Ligands: MG.1 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:R.84, A:F.86, A:Q.89, A:R.105, A:G.107, A:E.108, A:G.109, A:K.110, A:T.111, A:T.111, A:D.374 Water bridges: A:T.111, A:T.111, A:L.112, A:R.140 Salt bridges: A:K.110 ADP.6: 15 residues within 4Å: Chain B: M.83, R.84, H.85, F.86, Q.89, R.105, T.106, G.107, E.108, G.109, K.110, T.111, L.112, D.374 Ligands: MG.4 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:R.84, B:F.86, B:Q.89, B:R.105, B:G.107, B:E.108, B:G.109, B:K.110, B:T.111, B:T.111, B:D.374, B:D.374 Salt bridges: B:K.110

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nithianantham, S. et al., Analysis of the isolated SecA DEAD motor suggests a mechanism for chemical-mechanical coupling. J.Mol.Biol. (2008)

Release Date

2008-09-30

Peptides

Preprotein translocase subunit secA: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Preprotein translocase subunit secA