SMTL ID : 3tut.1

Crystal structure of RtcA.ATP binary complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.58 Å

Oligo State

monomer

Ligands

1 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.1: 18 residues within 4Å: Chain A: G.35, G.36, Q.37, R.40, R.59, R.62, Q.70, H.71, L.120, S.148, A.149, P.150, F.154, F.270, Y.303, D.306, Q.307, N.328 23 PLIP interactions: 23 interactions with chain A Hydrogen bonds: A:G.36, A:Q.37, A:Q.37, A:Q.70, A:S.148, A:D.306, A:Q.307, A:N.328 Water bridges: A:Q.37, A:R.59, A:R.59, A:P.147, A:F.270, A:Y.303, A:D.306 Salt bridges: A:R.40, A:R.40, A:R.59, A:R.62, A:R.62, A:H.71 pi-Stacking: A:F.154, A:Y.303

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

SO4.2: 4 residues within 4Å: Chain A: K.64, L.68, R.69, S.114 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:R.69, A:S.114, A:S.114 Water bridges: A:R.69, A:Q.70, A:Q.70 Salt bridges: A:K.64, A:R.69

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 2 residues within 4Å: Chain A: R.156, R.157 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.156, A:R.157 Water bridges: A:R.156, A:R.156

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

EDO.4: 4 residues within 4Å: Chain A: R.59, R.62, A.63, K.64 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.59, A:A.63, A:K.64

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chakravarty, A.K. et al., Structures of RNA 3'-phosphate cyclase bound to ATP reveal the mechanism of nucleotidyl transfer and metal-assisted catalysis. Proc.Natl.Acad.Sci.USA (2011)

Release Date

2011-12-28

Peptides

RNA 3'-terminal phosphate cyclase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

RNA 3'-terminal phosphate cyclase

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