SMTL ID : 1wb1.3 (3 other biounits)

CRYSTAL STRUCTURE OF TRANSLATION ELONGATION FACTOR SELB FROM METHANOCOCCUS MARIPALUDIS IN COMPLEX WITH GDP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

monomer

Ligands

6 x DXC: (3ALPHA,5BETA,12ALPHA)-3,12-DIHYDROXYCHOLAN-24-OIC ACID(Non-covalent)

DXC.1: 4 residues within 4Å: Chain A: R.12, P.13, H.14, M.15 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:R.12 Hydrogen bonds: A:M.15 DXC.8: 12 residues within 4Å: Chain A: T.60, I.61, D.62, I.63, F.65, S.66, V.216, S.245, Q.247, S.252, G.263, M.264 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:I.63, A:F.65, A:F.65, A:Q.247 Hydrogen bonds: A:D.62, A:I.63, A:G.64, A:F.65, A:S.245, A:S.245 DXC.9: 9 residues within 4Å: Chain A: E.108, P.110, K.111, T.112, G.115, R.145, I.302, K.304, L.382 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:T.112, A:I.302, A:L.382 Hydrogen bonds: A:E.108 Salt bridges: A:K.111, A:R.145 DXC.10: 7 residues within 4Å: Chain A: S.135, D.136, A.138, T.140, S.169, T.172, F.174 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:D.136, A:F.174 DXC.11: 2 residues within 4Å: Chain A: I.143, E.147 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:I.143 DXC.12: 7 residues within 4Å: Chain A: D.301, F.303, K.304, Y.305, E.345, I.347, S.348 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.347, A:I.347 Hydrogen bonds: A:K.304

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

GDP.2: 13 residues within 4Å: Chain A: I.28, D.29, H.30, G.31, K.32, T.33, T.34, K.134, D.136, S.169, A.170, K.171 Ligands: MG.3 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:D.29, A:D.29, A:G.31, A:K.32, A:T.33, A:T.34, A:T.34, A:K.134, A:K.171, A:K.171, A:K.171 Salt bridges: A:K.32, A:D.136

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 4 residues within 4Å: Chain A: I.28, K.32, T.33 Ligands: GDP.2 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:T.33

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

SO4.4: 4 residues within 4Å: Chain A: H.83, D.85, R.88, R.276 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:H.83, A:R.88, A:R.276 SO4.5: 5 residues within 4Å: Chain A: D.122, H.123, H.158, S.300, D.301 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.301, A:D.301 Salt bridges: A:H.123 SO4.6: 4 residues within 4Å: Chain A: S.156, T.157, H.158, K.161 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.157 Salt bridges: A:H.158, A:K.161 SO4.7: 3 residues within 4Å: Chain A: Q.425, K.432, R.479 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.425 Salt bridges: A:K.432, A:R.479

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Leibundgut, M. et al., Selenocysteine tRNA-Specific Elongation Factor Selb is a Structural Chimaera of Elongation and Initiation Factors. Embo J. (2005)

Release Date

2005-01-04

Peptides

TRANSLATION ELONGATION FACTOR SELB: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

TRANSLATION ELONGATION FACTOR SELB

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