SMTL ID : 4nbs.1

The structure of aIF2gamma subunit H20F from archaeon Sulfolobus solfataricus complexed with GDPCP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.31 Å

Oligo State

monomer

Ligands

1 x GCP: PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER(Non-covalent)

GCP.1: 18 residues within 4Å: Chain A: V.18, D.19, F.20, G.21, K.22, T.23, T.24, M.45, T.46, G.96, N.149, K.150, D.152, V.153, S.184, A.185, L.186 Ligands: MG.2 25 PLIP interactions: 25 interactions with chain A Hydrogen bonds: A:D.19, A:F.20, A:G.21, A:K.22, A:K.22, A:T.23, A:T.23, A:T.24, A:T.24, A:T.46, A:G.96, A:N.149, A:K.150, A:K.150, A:S.184, A:A.185, A:L.186 Water bridges: A:T.23, A:T.23, A:T.46, A:T.46, A:H.97, A:D.152, A:H.187 Salt bridges: A:D.152

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: T.23, T.46 Ligands: GCP.1 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:T.23, A:T.46, H2O.1, H2O.8

15 x FMT: FORMIC ACID(Non-functional Binders)

FMT.3: 4 residues within 4Å: Chain A: K.212, Q.244, W.389, S.390 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.212, A:Q.244 FMT.4: 2 residues within 4Å: Chain A: F.221, V.223 No protein-ligand interaction detected (PLIP) FMT.5: 5 residues within 4Å: Chain A: R.219, F.221, G.239, V.295, A.296 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.219 FMT.6: 5 residues within 4Å: Chain A: L.312, G.313, S.364, T.365, R.384 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.365, A:R.384 Water bridges: A:T.365, A:T.365, A:T.365 FMT.7: 5 residues within 4Å: Chain A: T.365, T.366, L.367, R.383, R.384 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.367, A:R.384 FMT.8: 3 residues within 4Å: Chain A: R.43, M.45, V.99 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.43, A:R.43 FMT.9: 5 residues within 4Å: Chain A: V.223, K.234, V.237, R.280, A.296 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.234 FMT.10: 1 residues within 4Å: Chain A: T.365 No protein-ligand interaction detected (PLIP) FMT.11: 3 residues within 4Å: Chain A: R.352, K.354, E.355 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.352, A:R.352 Water bridges: A:T.356 FMT.12: 5 residues within 4Å: Chain A: K.347, V.348, D.349, R.399, I.401 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.349, A:D.349, A:R.399 FMT.13: 3 residues within 4Å: Chain A: R.130, V.134, V.340 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.130 FMT.14: 7 residues within 4Å: Chain A: W.33, S.35, E.40, L.41, G.44, M.45, T.46 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.35 Water bridges: A:T.46 FMT.15: 2 residues within 4Å: Chain A: D.250, K.275 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.275 FMT.16: 2 residues within 4Å: Chain A: E.344, M.345 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:M.345 FMT.17: 4 residues within 4Å: Chain A: V.99, L.100, A.102, T.103 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.103, A:T.103

2 x NA: SODIUM ION(Non-functional Binders)

NA.18: 2 residues within 4Å: Chain A: W.327, N.328 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.328, A:N.328 NA.19: 3 residues within 4Å: Chain A: T.30, T.54, T.70 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.54, A:T.70, A:T.70 Water bridges: A:N.55

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kravchenko, O.V. et al., The structure of aIF2gamma subunit H20F from archaeon Sulfolobus solfataricus complexed with GDPCP. To be Published

Release Date

2014-10-29

Peptides

Translation initiation factor 2 subunit gamma: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Translation initiation factor 2 subunit gamma