SMTL ID : 8yly.1

Structural basis of Elongation factor Tu in regulating photoinhibition in Synechococcus sp. PCC 7942.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.49 Å

Oligo State

monomer

Ligands

6 x GOL: GLYCEROL

GOL.1: 3 residues within 4Å: Chain A: Q.339, E.393, G.394 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.393, A:E.393, A:G.394 Water bridges: A:G.395 GOL.5: 4 residues within 4Å: Chain A: I.230, T.231, V.236, E.269 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.231 GOL.6: 7 residues within 4Å: Chain A: R.328, T.330, P.331, F.332, F.333, Y.336, E.393 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.328, A:P.331 GOL.7: 4 residues within 4Å: Chain A: F.5, E.6, R.7, T.8 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.7, A:T.8, A:T.8 Water bridges: A:T.8 GOL.10: 1 residues within 4Å: Chain A: R.7 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.7 GOL.11: 3 residues within 4Å: Chain A: M.98, V.125, R.388 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:M.98, A:R.388, A:R.388

4 x BME: BETA-MERCAPTOETHANOL

BME.2: 6 residues within 4Å: Chain A: K.56, A.57, R.58, I.60, T.93, A.95 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.58 BME.4: 6 residues within 4Å: Chain A: P.111, M.112, P.113, R.116, E.152, L.156 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.116, A:E.152, A:E.152 BME.8: 3 residues within 4Å: Chain A: H.19, M.112, P.113 No protein-ligand interaction detected (PLIP) BME.9: 3 residues within 4Å: Chain A: Y.341, A.390, R.392 2 PLIP interactions: 2 interactions with chain A Water bridges: A:Y.341, A:A.390

1 x GDP: GUANOSINE-5'-DIPHOSPHATE

GDP.3: 17 residues within 4Å: Chain A: H.19, V.20, D.21, H.22, G.23, K.24, T.25, T.26, Y.46, N.135, K.136, D.138, M.139, S.173, A.174, L.175 Ligands: MG.12 27 PLIP interactions: 27 interactions with chain A Hydrogen bonds: A:D.21, A:D.21, A:H.22, A:G.23, A:K.24, A:T.25, A:T.26, A:T.26, A:Y.46, A:N.135, A:K.136, A:K.136, A:S.173, A:A.174, A:L.175 Water bridges: A:K.24, A:K.24, A:T.25, A:T.25, A:T.26, A:Y.46, A:C.81, A:P.82, A:S.173, A:S.173 Salt bridges: A:K.24, A:D.138

1 x MG: MAGNESIUM ION

MG.12: 3 residues within 4Å: Chain A: T.25, D.80 Ligands: GDP.3 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:T.25, H2O.4, H2O.4, H2O.4, H2O.9

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, C. et al., Structural basis of Elongation factor Tu in regulating photoinhibition in Synechococcus sp. PCC 7942. To Be Published

Release Date

2025-03-19

Peptides

Elongation factor Tu: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Elongation factor Tu