SMTL ID : 4gij.1

Crystal Structure of Pseudouridine Monophosphate Glycosidase Complexed with Sulfate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.94 Å

Oligo State

homo-trimer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: K.116, S.170, K.290, T.293 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:A.171, A:T.293 Water bridges: A:K.116, A:S.170, A:K.189 Salt bridges: A:K.116 SO4.3: 5 residues within 4Å: Chain B: K.116, T.135, S.170, K.290, T.293 11 PLIP interactions: 10 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:T.293 Water bridges: B:K.116, B:K.116, B:S.118, B:S.118, B:S.118, B:G.158, B:A.171, B:D.172, A:E.202 Salt bridges: B:K.116 SO4.5: 3 residues within 4Å: Chain C: H.160, S.170, A.171 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:S.170, C:A.171

3 x MN: MANGANESE (II) ION(Non-covalent)

MN.2: 2 residues within 4Å: Chain A: D.168, G.289 6 PLIP interactions: 1 interactions with chain A, 5 Ligand-Water interactions Metal complexes: A:D.168, H2O.1, H2O.2, H2O.3, H2O.12, H2O.12 MN.4: 1 residues within 4Å: Chain B: D.168 6 PLIP interactions: 1 interactions with chain B, 5 Ligand-Water interactions Metal complexes: B:D.168, H2O.1, H2O.1, H2O.7, H2O.7, H2O.7 MN.6: 1 residues within 4Å: Chain C: D.168 6 PLIP interactions: 1 interactions with chain C, 5 Ligand-Water interactions Metal complexes: C:D.168, H2O.8, H2O.9, H2O.12, H2O.13, H2O.14

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huang, S. et al., Pseudouridine monophosphate glycosidase: a new glycosidase mechanism. Biochemistry (2012)

Release Date

2012-10-31

Peptides

Pseudouridine-5'-phosphate glycosidase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Pseudouridine-5'-phosphate glycosidase

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