SMTL ID : 4h9g.1

Probing EF-Tu with a very small brominated fragment library identifies the CCA pocket

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.93 Å

Oligo State

monomer

Ligands

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

GNP.1: 19 residues within 4Å: Chain A: V.20, D.21, H.22, G.23, K.24, T.25, T.26, Y.47, I.61, T.62, G.84, N.136, K.137, D.139, M.140, S.174, A.175, L.176 Ligands: MG.2 26 PLIP interactions: 26 interactions with chain A Hydrogen bonds: A:D.21, A:H.22, A:G.23, A:K.24, A:K.24, A:T.25, A:T.26, A:T.26, A:T.62, A:G.84, A:H.85, A:N.136, A:K.137, A:K.137, A:S.174, A:A.175, A:L.176 Water bridges: A:D.21, A:T.25, A:T.25, A:T.26, A:Y.47, A:Y.47, A:T.62, A:T.62 Salt bridges: A:D.139

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: T.25, T.62 Ligands: GNP.1 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:T.25, A:T.62, H2O.1, H2O.2

1 x NH4: AMMONIUM ION(Non-functional Binders)

NH4.3: 5 residues within 4Å: Chain A: I.50, D.51, E.56, T.62, N.64 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.51, A:E.56 Water bridges: A:A.53

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

SO4.4: 3 residues within 4Å: Chain A: M.113, P.114, R.117 3 PLIP interactions: 3 interactions with chain A Water bridges: A:P.112, A:R.117 Salt bridges: A:R.117 SO4.5: 4 residues within 4Å: Chain A: K.45, H.67, H.273, R.274 5 PLIP interactions: 5 interactions with chain A Water bridges: A:E.43, A:K.45, A:E.69 Salt bridges: A:K.45, A:H.273 SO4.6: 2 residues within 4Å: Chain A: R.59, H.85 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.59, A:H.85 SO4.7: 2 residues within 4Å: Chain A: Y.130, P.211 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.130, A:Y.130 Water bridges: A:V.214 SO4.8: 1 residues within 4Å: Chain A: R.291 3 PLIP interactions: 3 interactions with chain A Water bridges: A:G.292, A:G.292 Salt bridges: A:R.291 SO4.9: 3 residues within 4Å: Chain A: R.330, H.331, T.332 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:H.331, A:T.332, A:T.332 Salt bridges: A:R.330, A:H.331 SO4.10: 2 residues within 4Å: Chain A: G.48, R.57 2 PLIP interactions: 2 interactions with chain A Water bridges: A:D.49 Salt bridges: A:R.57 SO4.11: 3 residues within 4Å: Chain A: Q.181, R.184, N.185 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.181, A:N.185 Water bridges: A:R.184 Salt bridges: A:R.184

1 x 14J: 5-bromofuran-2-carboxylic acid(Non-covalent)

14J.12: 8 residues within 4Å: Chain A: F.229, I.231, R.234, V.237, G.269, E.271, G.287, L.289 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.231, A:V.237

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Grftehauge, M.K. et al., Identifying ligand-binding hot spots in proteins using brominated fragments. Acta Crystallogr.,Sect.F (2013)

Release Date

2013-09-11

Peptides

Elongation factor Tu-A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Elongation factor Tu-A

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