SMTL ID : 6r8t.1

Crystal structure of aIF2gamma subunit I181T from archaeon Sulfolobus solfataricus complexed with GDPCP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

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

GCP.1: 20 residues within 4Å: Chain A: V.18, D.19, H.20, G.21, K.22, T.23, T.24, W.33, M.45, T.46, G.96, N.149, K.150, D.152, V.153, S.184, A.185, L.186 Ligands: MG.2, FMT.23 23 PLIP interactions: 23 interactions with chain A Hydrogen bonds: A:D.19, A:H.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:T.46, 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:H.97, A:H.97 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.2, H2O.3

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

FMT.3: 5 residues within 4Å: Chain A: Y.206, R.207, D.208, Q.211, I.243 Ligand excluded by PLIP FMT.4: 4 residues within 4Å: Chain A: L.312, G.313, S.364, T.365 Ligand excluded by PLIP FMT.5: 2 residues within 4Å: Chain A: Q.251, E.252 Ligand excluded by PLIP FMT.6: 6 residues within 4Å: Chain A: L.105, A.109, S.360, V.361, G.362, R.394 Ligand excluded by PLIP FMT.7: 4 residues within 4Å: Chain A: D.19, R.43, G.44 Ligands: FMT.23 Ligand excluded by PLIP FMT.8: 5 residues within 4Å: Chain A: I.32, Y.51, A.52, E.53, G.282 Ligand excluded by PLIP FMT.9: 3 residues within 4Å: Chain A: P.123, F.124, P.125 Ligand excluded by PLIP FMT.10: 4 residues within 4Å: Chain A: V.223, V.237, S.278, R.280 Ligand excluded by PLIP FMT.11: 4 residues within 4Å: Chain A: T.366, L.367, R.383, R.384 Ligand excluded by PLIP FMT.12: 4 residues within 4Å: Chain A: R.130, V.134, F.169, V.340 Ligand excluded by PLIP FMT.13: 2 residues within 4Å: Chain A: P.324, L.326 Ligand excluded by PLIP FMT.14: 4 residues within 4Å: Chain A: V.58, K.64, Y.68, L.86 Ligand excluded by PLIP FMT.15: 1 residues within 4Å: Chain A: W.33 Ligand excluded by PLIP FMT.16: 2 residues within 4Å: Chain A: F.230, N.231 Ligand excluded by PLIP FMT.17: 2 residues within 4Å: Chain A: D.250, K.275 Ligand excluded by PLIP FMT.18: 5 residues within 4Å: Chain A: Q.211, K.212, Q.244, W.389, S.390 Ligand excluded by PLIP FMT.19: 5 residues within 4Å: Chain A: K.347, V.348, D.349, R.399, I.401 Ligand excluded by PLIP FMT.20: 3 residues within 4Å: Chain A: M.358, T.365, R.384 Ligand excluded by PLIP FMT.21: 7 residues within 4Å: Chain A: K.234, G.235, G.236, V.237, S.277, G.298, T.299 Ligand excluded by PLIP FMT.22: 1 residues within 4Å: Chain A: Q.264 Ligand excluded by PLIP FMT.23: 4 residues within 4Å: Chain A: D.19, G.44 Ligands: GCP.1, FMT.7 Ligand excluded by PLIP FMT.24: 2 residues within 4Å: Chain A: K.343, E.344 Ligand excluded by PLIP FMT.25: 4 residues within 4Å: Chain A: A.342, I.401, R.404, R.406 Ligand excluded by PLIP

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

NA.26: 3 residues within 4Å: Chain A: Q.168, F.169, K.171 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.171 NA.27: 1 residues within 4Å: Chain A: M.111 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:M.111 NA.28: 2 residues within 4Å: Chain A: V.151, V.154 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.154

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nikonov, O. et al., Crystal structure of aIF2gamma subunit I181T from archaeon Sulfolobus solfataricus complexed with GDPCP. To Be Published

Release Date

2020-05-06

Peptides

Translation initiation factor 2 subunit gamma: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Translation initiation factor 2 subunit gamma