SMTL ID : 6eze.1 (1 other biounit)

The open conformation of E.coli Elongation Factor Tu in complex with GDPNP.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.47 Å

Oligo State

monomer

Ligands

1 x GNP: PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER(Non-covalent)

GNP.1: 19 residues within 4Å: Chain A: H.20, V.21, D.22, H.23, G.24, K.25, T.26, T.27, F.47, C.82, P.83, N.136, K.137, D.139, M.140, S.174, A.175, L.176 Ligands: MG.2 24 PLIP interactions: 24 interactions with chain A Hydrogen bonds: A:D.22, A:D.22, A:D.22, A:H.23, A:G.24, A:K.25, A:K.25, A:T.26, A:T.27, A:T.27, A:N.136, A:K.137, A:K.137, A:S.174, A:A.175, A:L.176 Water bridges: A:K.25, A:T.26, A:T.26, A:T.26, A:T.27, A:D.51, A:P.83 Salt bridges: A:D.139

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: T.26, C.82 Ligands: GNP.1 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:T.26, H2O.1, H2O.1, H2O.1

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 2 residues within 4Å: Chain A: R.289, R.378 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.289, A:R.289, A:R.378, A:R.378 Water bridges: A:T.335, A:T.336 GOL.4: 5 residues within 4Å: Chain A: R.155, D.166, D.167, T.168, P.169 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.155 Water bridges: A:R.155, A:D.166, A:T.168, A:I.170 GOL.5: 2 residues within 4Å: Chain A: E.184, W.185 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.184

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

SO4.6: 4 residues within 4Å: Chain A: L.121, E.308, N.356, I.357 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.356, A:K.358 SO4.7: 4 residues within 4Å: Chain A: M.261, F.262, R.263, K.264 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:M.261, A:R.263 Salt bridges: A:K.264

3 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.8: 7 residues within 4Å: Chain A: L.212, R.234, I.299, R.334, M.369, D.370, L.373 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.234, A:R.334, A:D.370, A:D.370 PEG.9: 4 residues within 4Å: Chain A: P.112, M.113, P.114, R.117 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.112, A:R.117 PEG.10: 5 residues within 4Å: Chain A: V.21, G.84, H.85, A.86, Q.115 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.85, A:A.86, A:Q.115

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Johansen, J.S. et al., E. coli elongation factor Tu bound to a GTP analogue displays an open conformation equivalent to the GDP-bound form. Nucleic Acids Res. (2018)

Release Date

2018-08-22

Peptides

Elongation factor Tu 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Elongation factor Tu 2

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