SMTL ID : 4lby.1

Identifying ligand binding hot spots in proteins using brominated fragments

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.69 Å

Oligo State

monomer

Ligands

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

GNP.1: 21 residues within 4Å: Chain A: V.19, D.20, H.21, G.22, K.23, T.24, T.25, Y.46, I.60, T.61, C.81, G.83, H.84, N.135, K.136, D.138, M.139, S.173, A.174, L.175 Ligands: MG.2 23 PLIP interactions: 23 interactions with chain A Hydrogen bonds: A:D.20, A:H.21, A:G.22, A:K.23, A:K.23, A:T.24, A:T.25, A:T.25, A:T.61, A:G.83, A:H.84, A:N.135, A:K.136, A:K.136, A:S.173, A:A.174, A:L.175 Water bridges: A:T.24, A:D.50, A:T.61, A:T.61, A:T.61 Salt bridges: A:D.138

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: T.24, T.61, D.80 Ligands: GNP.1 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:T.24, A:T.61, H2O.3, H2O.3

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

NH4.3: 5 residues within 4Å: Chain A: I.49, D.50, E.55, T.61, N.63 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.50, A:E.55 Water bridges: A:A.52

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

SO4.4: 4 residues within 4Å: Chain A: P.111, M.112, P.113, R.116 2 PLIP interactions: 2 interactions with chain A Water bridges: A:P.111 Salt bridges: A:R.116 SO4.5: 2 residues within 4Å: Chain A: R.58, H.84 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.58, A:H.84 SO4.6: 1 residues within 4Å: Chain A: R.290 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.290 SO4.7: 4 residues within 4Å: Chain A: R.329, H.330, T.331, R.392 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:H.330, A:T.331, A:T.331 Salt bridges: A:R.329, A:H.330, A:R.392 SO4.8: 1 residues within 4Å: Chain A: R.56 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.56 Salt bridges: A:R.56 SO4.9: 2 residues within 4Å: Chain A: Q.180, R.183 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.180, A:N.184 Salt bridges: A:R.183

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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