SMTL ID : 5y0t.2 (1 other biounit)

Crystal structure of Thermotoga maritima TmcAL bound with alpha-thio ATP(Form II)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 x TAT: ADENOSINE-5'-RP-ALPHA-THIO-TRIPHOSPHATE(Non-covalent)

TAT.1: 18 residues within 4Å: Chain A: V.7, V.8, E.9, Y.10, H.14, G.16, H.17, Y.19, H.20, F.101, G.102, N.168, I.191, K.192, R.193, V.194, S.209, A.210 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:E.9, A:Y.10, A:G.102, A:N.168, A:N.168, A:R.193, A:V.194, A:A.210 Water bridges: A:L.21, A:N.168, A:R.193, A:R.193, A:S.209, A:T.211 Salt bridges: A:H.14, A:H.17, A:R.193, A:R.193 pi-Cation interactions: A:R.193 TAT.4: 20 residues within 4Å: Chain B: V.7, V.8, E.9, Y.10, H.14, G.16, H.17, Y.19, H.20, R.44, F.101, G.102, N.168, I.191, K.192, R.193, V.194, S.209, A.210 Ligands: 1PE.6 19 PLIP interactions: 19 interactions with chain B Hydrogen bonds: B:E.9, B:Y.10, B:R.44, B:R.44, B:G.102, B:N.168, B:R.193, B:V.194, B:V.194, B:A.210 Water bridges: B:L.21, B:S.209, B:T.211 Salt bridges: B:H.14, B:H.17, B:R.44, B:R.193, B:R.193 pi-Cation interactions: B:R.193

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

EDO.2: 7 residues within 4Å: Chain A: F.319, E.320, V.321, N.322, F.325, L.390, K.393 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.322, A:K.393, A:K.393 Water bridges: A:N.322 EDO.3: 5 residues within 4Å: Chain A: G.80, G.81, F.84, K.181, N.330 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.80, A:K.181 EDO.5: 6 residues within 4Å: Chain B: F.319, E.320, V.321, N.322, F.325, K.393 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.322, B:K.393

1 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.6: 10 residues within 4Å: Chain B: E.9, Q.43, R.44, F.82, S.167, N.168, L.171, R.193, V.194 Ligands: TAT.4 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:E.9, B:R.44, B:R.44, B:E.104, B:N.168, B:R.193, B:V.194

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Taniguchi, T. et al., Acetate-dependent tRNA acetylation required for decoding fidelity in protein synthesis. Nat. Chem. Biol. (2018)

Release Date

2018-07-18

Peptides

Thermotoga maritima TmcAL: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Thermotoga maritima TmcAL

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