SMTL ID : 5h7e.1

Crystal Structure of native drCPDase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 7 residues within 4Å: Chain A: F.9, H.42, T.44, Y.47, S.159, Y.168 Ligands: SO4.3 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.42, A:T.44, A:S.159, A:S.159 GOL.2: 3 residues within 4Å: Chain A: P.72, T.150, P.152 No protein-ligand interaction detected (PLIP)

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

SO4.3: 6 residues within 4Å: Chain A: H.42, T.44, H.127, T.129, R.132 Ligands: GOL.1 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:T.44, A:T.129 Water bridges: A:H.42, A:T.44, A:T.44, A:H.127, A:R.132, A:R.132 Salt bridges: A:H.127, A:R.132 SO4.4: 3 residues within 4Å: Chain A: R.13, P.15, A.16 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.16 Water bridges: A:R.13 Salt bridges: A:R.13 SO4.5: 6 residues within 4Å: Chain A: T.64, Q.68, T.173, F.174, R.175, R.177 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.68, A:T.173, A:R.175 Salt bridges: A:R.177 SO4.6: 3 residues within 4Å: Chain A: E.97, E.99, G.100 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.100 Water bridges: A:L.101, A:L.101, A:T.102 SO4.7: 5 residues within 4Å: Chain A: S.88, P.89, K.133, P.136, A.137 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.137 Salt bridges: A:K.133

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Han, W. et al., Crystal structure of the RNA 2',3'-cyclic phosphodiesterase from Deinococcus radiodurans. Acta Crystallogr F Struct Biol Commun (2017)

Release Date

2017-09-27

Peptides

RNA 2',3'-cyclic phosphodiesterase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

RNA 2',3'-cyclic phosphodiesterase

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