SMTL ID : 4m2l.1

Gamma subunit of the translation initiation factor 2 from Sulfolobus solfataricus in nucleotide-free form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

monomer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: F.216, D.217, K.302, A.303 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.217, A:A.303 Water bridges: A:D.304 Salt bridges: A:K.302 SO4.2: 2 residues within 4Å: Chain A: R.325, E.409 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.409 Water bridges: A:R.325, A:N.386 Salt bridges: A:R.325 SO4.3: 4 residues within 4Å: Chain A: K.59, Y.63, K.79, L.81 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.59, A:K.79 SO4.4: 2 residues within 4Å: Chain A: N.50, R.83 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.50 Water bridges: A:R.83, A:R.83, A:R.83, A:E.279 Salt bridges: A:R.83

4 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.5: 4 residues within 4Å: Chain A: K.229, S.272, S.273, R.275 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:S.273, A:R.275 Water bridges: A:S.272, A:S.272, A:S.272, A:S.272 Salt bridges: A:K.229 PO4.6: 2 residues within 4Å: Chain A: S.156, R.159 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.156 Water bridges: A:S.156 Salt bridges: A:R.159 PO4.7: 4 residues within 4Å: Chain A: C.57, K.58, C.72 Ligands: EDO.11 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.58 PO4.8: 4 residues within 4Å: Chain A: Y.158, K.162, P.174, I.175 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.158, A:I.175 Salt bridges: A:K.162

27 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.9: 9 residues within 4Å: Chain A: V.53, C.54, E.55, S.56, C.69, S.74, E.77, P.78, K.79 Ligand excluded by PLIP EDO.10: 8 residues within 4Å: Chain A: P.252, G.308, I.310, V.356, S.359, V.381, A.382, W.384 Ligand excluded by PLIP EDO.11: 5 residues within 4Å: Chain A: S.56, C.57, C.72, G.73 Ligands: PO4.7 Ligand excluded by PLIP EDO.12: 2 residues within 4Å: Chain A: T.168, W.169 Ligand excluded by PLIP EDO.13: 7 residues within 4Å: Chain A: N.11, L.105, D.107, R.202, I.237, I.238, G.287 Ligand excluded by PLIP EDO.14: 3 residues within 4Å: Chain A: I.388, R.389 Ligands: EDO.33 Ligand excluded by PLIP EDO.15: 4 residues within 4Å: Chain A: Q.206, K.207, Q.239, W.384 Ligand excluded by PLIP EDO.16: 2 residues within 4Å: Chain A: R.125, R.333 Ligand excluded by PLIP EDO.17: 5 residues within 4Å: Chain A: S.68, C.69, K.70, S.71 Ligands: EDO.18 Ligand excluded by PLIP EDO.18: 3 residues within 4Å: Chain A: S.68, K.70 Ligands: EDO.17 Ligand excluded by PLIP EDO.19: 3 residues within 4Å: Chain A: E.350, T.351, R.394 Ligand excluded by PLIP EDO.20: 4 residues within 4Å: Chain A: T.41, R.275, G.277, A.291 Ligand excluded by PLIP EDO.21: 3 residues within 4Å: Chain A: P.177, I.184, N.185 Ligand excluded by PLIP EDO.22: 2 residues within 4Å: Chain A: Q.246, E.247 Ligand excluded by PLIP EDO.23: 6 residues within 4Å: Chain A: G.253, L.254, R.255, Y.264, N.305, R.379 Ligand excluded by PLIP EDO.24: 1 residues within 4Å: Chain A: K.79 Ligand excluded by PLIP EDO.25: 1 residues within 4Å: Chain A: N.386 Ligand excluded by PLIP EDO.26: 6 residues within 4Å: Chain A: L.100, S.355, V.356, G.357, V.391 Ligands: EDO.33 Ligand excluded by PLIP EDO.27: 2 residues within 4Å: Chain A: C.57, K.59 Ligand excluded by PLIP EDO.28: 3 residues within 4Å: Chain A: S.358, S.359, T.360 Ligand excluded by PLIP EDO.29: 5 residues within 4Å: Chain A: I.32, A.47, E.48, R.83, G.277 Ligand excluded by PLIP EDO.30: 7 residues within 4Å: Chain A: H.17, D.19, V.112, V.113, A.114, E.117, T.124 Ligand excluded by PLIP EDO.31: 3 residues within 4Å: Chain A: K.207, A.316, E.317 Ligand excluded by PLIP EDO.32: 3 residues within 4Å: Chain A: S.367, K.369, E.374 Ligand excluded by PLIP EDO.33: 6 residues within 4Å: Chain A: A.103, A.104, M.106, I.134 Ligands: EDO.14, EDO.26 Ligand excluded by PLIP EDO.34: 6 residues within 4Å: Chain A: H.20, N.144, K.145, S.179, A.180, L.181 Ligand excluded by PLIP EDO.35: 4 residues within 4Å: Chain A: Q.395, I.396, A.397, G.398 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nikonov, O. et al., Conformational transitions in the gamma subunit of the archaeal translation initiation factor 2. Acta Crystallogr.,Sect.D (2014)

Release Date

2014-03-12

Peptides

Translation initiation factor 2 subunit gamma: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Translation initiation factor 2 subunit gamma