SMTL ID : 1d2e.1

CRYSTAL STRUCTURE OF MITOCHONDRIAL EF-TU IN COMPLEX WITH GDP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.94 Å

Oligo State

homo-tetramer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: T.17, D.72 Ligands: GDP.2 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:T.17, H2O.15, H2O.15, H2O.15, H2O.15 MG.3: 4 residues within 4Å: Chain B: T.17, D.42, D.72 Ligands: GDP.4 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:T.17, H2O.26, H2O.26, H2O.26, H2O.26 MG.5: 3 residues within 4Å: Chain C: T.17, D.72 Ligands: GDP.6 5 PLIP interactions: 1 interactions with chain C, 4 Ligand-Water interactions Metal complexes: C:T.17, H2O.37, H2O.37, H2O.37, H2O.37 MG.7: 3 residues within 4Å: Chain D: T.17, P.74 Ligands: GDP.8 3 PLIP interactions: 1 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:T.17, H2O.47, H2O.47

4 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)

GDP.2: 16 residues within 4Å: Chain A: H.11, V.12, D.13, H.14, G.15, K.16, T.17, T.18, Y.38, N.127, K.128, D.130, S.165, A.166, L.167 Ligands: MG.1 21 PLIP interactions: 21 interactions with chain A Hydrogen bonds: A:D.13, A:H.14, A:G.15, A:K.16, A:T.17, A:T.17, A:T.18, A:T.18, A:Y.38, A:N.127, A:K.128, A:K.128, A:S.165, A:A.166, A:L.167 Water bridges: A:K.16, A:K.16, A:D.42, A:P.74 Salt bridges: A:K.16, A:D.130 GDP.4: 16 residues within 4Å: Chain B: V.12, D.13, H.14, G.15, K.16, T.17, T.18, Y.38, N.127, K.128, D.130, A.131, S.165, A.166, L.167 Ligands: MG.3 26 PLIP interactions: 26 interactions with chain B Hydrogen bonds: B:D.13, B:H.14, B:G.15, B:K.16, B:T.17, B:T.18, B:T.18, B:Y.38, B:N.127, B:K.128, B:K.128, B:S.165, B:A.166, B:L.167 Water bridges: B:K.16, B:K.16, B:T.17, B:T.17, B:T.18, B:Y.38, B:D.42, B:D.42, B:C.73, B:P.74 Salt bridges: B:K.16, B:D.130 GDP.6: 16 residues within 4Å: Chain C: H.11, V.12, D.13, H.14, G.15, K.16, T.17, T.18, Y.38, N.127, K.128, D.130, S.165, A.166, L.167 Ligands: MG.5 22 PLIP interactions: 22 interactions with chain C Hydrogen bonds: C:D.13, C:H.14, C:G.15, C:K.16, C:T.17, C:T.18, C:T.18, C:N.127, C:K.128, C:K.128, C:S.165, C:A.166, C:L.167 Water bridges: C:K.16, C:T.17, C:T.17, C:D.42, C:C.73, C:C.73, C:P.74 Salt bridges: C:K.16, C:D.130 GDP.8: 16 residues within 4Å: Chain D: H.11, V.12, D.13, H.14, G.15, K.16, T.17, T.18, Y.38, N.127, K.128, D.130, S.165, A.166, L.167 Ligands: MG.7 23 PLIP interactions: 23 interactions with chain D Hydrogen bonds: D:D.13, D:H.14, D:G.15, D:K.16, D:T.17, D:T.18, D:T.18, D:N.127, D:K.128, D:K.128, D:S.165, D:A.166, D:L.167 Water bridges: D:K.16, D:K.16, D:T.17, D:Y.38, D:Y.38, D:D.72, D:D.72, D:P.74 Salt bridges: D:K.16, D:D.130

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Andersen, G.R. et al., High resolution crystal structure of bovine mitochondrial EF-Tu in complex with GDP. J.Mol.Biol. (2000)

Release Date

1999-09-28

Peptides

ELONGATION FACTOR TU (EF-TU): ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

ELONGATION FACTOR TU (EF-TU)