SMTL ID : 5k95.1

Crystal Structure of GTP Cyclohydrolase-IB with 8-oxo-GTP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.77 Å

Oligo State

homo-tetramer

Ligands

2 x 8GT: 8-OXO-GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

8GT.1: 14 residues within 4Å: Chain A: T.58, H.59, M.60, S.61, R.62 Chain B: C.147, C.149, H.159, F.214, V.215, E.216, E.243 Chain D: E.201 Ligands: ZN.2 16 PLIP interactions: 11 interactions with chain A, 5 interactions with chain B Hydrogen bonds: A:T.58, A:T.58, A:M.60, A:S.61, A:S.61, A:R.62, B:V.215, B:E.243 Water bridges: A:R.62 Salt bridges: A:H.59, A:H.59, A:R.62, A:R.62, B:E.216 pi-Stacking: B:F.214 pi-Cation interactions: B:F.214 8GT.3: 14 residues within 4Å: Chain B: E.201 Chain C: T.58, H.59, M.60, S.61, R.62 Chain D: C.147, C.149, H.159, F.214, V.215, E.216, E.243 Ligands: ZN.4 17 PLIP interactions: 11 interactions with chain C, 6 interactions with chain D Hydrogen bonds: C:T.58, C:T.58, C:M.60, C:S.61, C:S.61, C:R.62, D:V.215, D:E.243, D:E.243 Water bridges: C:R.62 Salt bridges: C:H.59, C:H.59, C:R.62, C:R.62, D:E.216 pi-Stacking: D:F.214 pi-Cation interactions: D:F.214

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain B: C.147, H.159 Chain D: E.201 Ligands: 8GT.1 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain D Metal complexes: B:C.147, B:H.159, D:E.201 ZN.4: 4 residues within 4Å: Chain B: E.201 Chain D: C.147, H.159 Ligands: 8GT.3 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain D Metal complexes: B:E.201, D:C.147, D:H.159

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Paranagama, N. et al., Mechanism and catalytic strategy of the prokaryotic-specific GTP cyclohydrolase-IB. Biochem.J. (2017)

Release Date

2016-09-07

Peptides

GTP cyclohydrolase FolE2: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

GTP cyclohydrolase FolE2

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