SMTL ID : 7eev.1

Structure of UTP cyclohydrolase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

homo-dimer

Ligands

2 x DUT: DEOXYURIDINE-5'-TRIPHOSPHATE(Covalent)

DUT.1: 23 residues within 4Å: Chain A: R.249, H.251, D.252, E.253, C.254, C.267, Y.270, K.295, E.296, G.297, R.298, K.305, Y.309, Y.324, R.338, S.360, M.361, S.362, K.365, E.394, K.398, Y.403 Ligands: ZN.2 27 PLIP interactions: 27 interactions with chain A Hydrogen bonds: A:D.252, A:D.252, A:K.295, A:R.298, A:R.298, A:Y.309, A:R.312, A:S.360, A:M.361, A:S.362, A:Y.403 Water bridges: A:K.305, A:K.305, A:S.362, A:K.365, A:K.398, A:K.398, A:K.398 Salt bridges: A:R.249, A:R.249, A:H.251, A:R.338, A:R.338, A:K.365, A:K.365, A:K.365, A:K.398 DUT.3: 23 residues within 4Å: Chain B: R.249, V.250, H.251, D.252, E.253, C.254, C.267, Y.270, K.295, G.297, R.298, K.305, Y.309, Y.324, R.338, S.360, M.361, S.362, K.365, E.394, K.398, Y.403 Ligands: ZN.4 29 PLIP interactions: 29 interactions with chain B Hydrogen bonds: B:K.295, B:G.297, B:R.298, B:R.298, B:Y.309, B:Y.309, B:Y.324, B:M.361, B:S.362 Water bridges: B:V.250, B:K.305, B:K.305, B:R.312, B:R.312, B:S.360, B:S.362, B:K.398, B:K.398, B:K.398, B:K.398 Salt bridges: B:R.249, B:R.249, B:H.251, B:R.338, B:R.338, B:K.365, B:K.365, B:K.365, B:K.398

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 5 residues within 4Å: Chain A: C.254, S.257, C.265, C.267 Ligands: DUT.1 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:C.254, A:C.265, A:C.267, H2O.9 ZN.4: 5 residues within 4Å: Chain B: C.254, S.257, C.265, C.267 Ligands: DUT.3 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:C.254, B:C.265, B:C.267, H2O.29

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, H. et al., Structural and biochemical investigation of UTP cyclohydrolase. Acs Catalysis (2021)

Release Date

2021-07-28

Peptides

GTP cyclohydrolase II: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

GTP cyclohydrolase II