SMTL ID : 8tg6.1

tRNA 2'-phosphotransferase (Tpt1) from Aeropyrum pernix in complex with sulfate anions

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: R.34, H.35, G.96, R.135, R.136 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:G.96 Water bridges: A:R.34, A:R.34 Salt bridges: A:R.34, A:H.35, A:R.135, A:R.136 SO4.2: 6 residues within 4Å: Chain A: R.34, K.81, R.83, Y.95, R.136, R.154 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:Y.95 Water bridges: A:K.81, A:K.81, A:R.83, A:R.136, A:R.136 Salt bridges: A:R.34, A:K.81, A:R.83, A:R.136, A:R.154 SO4.3: 4 residues within 4Å: Chain A: H.36, P.37, G.38, R.39 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.38, A:R.39 Salt bridges: A:R.39 SO4.4: 1 residues within 4Å: Chain A: R.43 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.43 SO4.5: 1 residues within 4Å: Chain A: R.178 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.178, A:R.178 Salt bridges: A:R.178 SO4.6: 1 residues within 4Å: Chain A: V.73 No protein-ligand interaction detected (PLIP) SO4.7: 4 residues within 4Å: Chain A: S.143, S.144, L.145, E.146 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.144, A:L.145, A:E.146 SO4.8: 2 residues within 4Å: Chain A: R.43, T.45 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.43

4 x CL: CHLORIDE ION(Non-functional Binders)

CL.9: 4 residues within 4Å: Chain A: H.116, R.136, K.138, H.140 Ligand excluded by PLIP CL.10: 4 residues within 4Å: Chain A: R.92, N.102, V.103, E.104 Ligand excluded by PLIP CL.11: 2 residues within 4Å: Chain A: R.46, N.102 Ligand excluded by PLIP CL.12: 3 residues within 4Å: Chain A: Y.95, G.96, H.97 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jacewicz, A. et al., Structural basis for Tpt1-catalyzed 2'-PO 4 transfer from RNA and NADP(H) to NAD. Proc.Natl.Acad.Sci.USA (2023)

Release Date

2023-11-08

Peptides

Probable RNA 2'-phosphotransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Probable RNA 2'-phosphotransferase

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