SMTL ID : 2iw3.1

ELONGATION FACTOR 3 IN COMPLEX WITH ADP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 14 residues within 4Å: Chain A: I.47, E.48, H.49, D.50, S.88, P.394, T.397, I.398, H.401, E.402, N.708, E.927, N.930, H.956 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:I.47, A:H.49, A:D.50, A:T.397, A:E.402, A:E.402, A:E.927, A:N.930 Water bridges: A:K.403, A:N.708, A:N.708 Salt bridges: A:H.49, A:H.49, A:H.401, A:H.401, A:H.956 pi-Stacking: A:H.49 ADP.7: 14 residues within 4Å: Chain B: I.47, E.48, H.49, D.50, S.88, P.394, T.397, I.398, H.401, E.402, N.708, E.927, N.930, H.956 21 PLIP interactions: 21 interactions with chain B Hydrogen bonds: B:I.47, B:E.48, B:H.49, B:D.50, B:T.397, B:E.402, B:E.402, B:E.927, B:E.927, B:N.930 Water bridges: B:I.47, B:S.88, B:K.403, B:N.708, B:N.708, B:T.955 Salt bridges: B:H.49, B:H.49, B:H.401, B:H.401, B:H.956

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

SO4.2: 3 residues within 4Å: Chain A: S.550, W.553, N.583 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.550, A:N.583 Water bridges: A:G.551, A:G.552, A:W.553 SO4.3: 4 residues within 4Å: Chain A: K.453, Q.455, K.622, R.624 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.453, A:Q.455 Salt bridges: A:K.622, A:R.624 SO4.4: 4 residues within 4Å: Chain A: V.588, N.589, N.592 Chain B: R.877 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:N.589, A:N.592 Salt bridges: B:R.877 SO4.5: 5 residues within 4Å: Chain A: E.734, N.735, R.808, K.810, Y.815 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.735, A:N.735, A:R.808, A:Y.815 Water bridges: A:C.736 SO4.6: 6 residues within 4Å: Chain A: N.470, G.471, C.472, G.473, K.474, S.475 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.471, A:C.472, A:G.473, A:K.474, A:S.475 Salt bridges: A:K.474 SO4.8: 5 residues within 4Å: Chain B: T.265, T.305, I.306, A.307, D.308 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:A.307, B:D.308 Water bridges: B:T.265, B:T.265 SO4.9: 6 residues within 4Å: Chain B: E.734, N.735, R.808, K.810, Y.815, E.865 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:N.735, B:N.735, B:Y.815 Water bridges: B:R.808, B:R.808, B:K.810 Salt bridges: B:R.808 SO4.10: 3 residues within 4Å: Chain B: S.550, W.553, N.583 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.550, B:N.583 SO4.11: 4 residues within 4Å: Chain B: K.453, Q.455, K.622, R.624 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:Q.455, B:Q.455 Water bridges: B:K.622, B:R.624 Salt bridges: B:K.622, B:R.624 SO4.12: 4 residues within 4Å: Chain A: R.877 Chain B: V.588, N.589, N.592 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:N.589, B:N.592 Water bridges: A:R.877, A:R.877 Salt bridges: A:R.877 SO4.13: 3 residues within 4Å: Chain B: P.98, H.137, N.140 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.140 Water bridges: B:A.141 Salt bridges: B:H.137 SO4.14: 6 residues within 4Å: Chain B: P.469, G.471, C.472, G.473, K.474, S.475 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:G.471, B:C.472, B:G.473, B:K.474, B:S.475 Water bridges: B:G.473 Salt bridges: B:K.474 SO4.15: 2 residues within 4Å: Chain B: S.550, G.551 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.551

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Andersen, C.B.F. et al., Structure of Eef3 and the Mechanism of Transfer RNA Release from the E-Site. Nature (2006)

Release Date

2006-08-17

Peptides

ELONGATION FACTOR 3A: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

ELONGATION FACTOR 3A

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