SMTL ID : 3fnn.1

Biochemical and structural analysis of an atypical ThyX: Corynebacterium glutamicum NCHU 87078 depends on ThyA for thymidine biosynthesis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-tetramer

Ligands

4 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.1: 23 residues within 4Å: Chain A: S.106, S.108, Q.109, S.111 Chain B: C.49, Y.50, V.73, G.74, H.75, A.77, E.80, H.104, N.194, R.196, T.197 Chain D: R.101, H.102, R.103, H.104, H.200, M.204, R.205 Ligands: FAD.3 23 PLIP interactions: 3 interactions with chain A, 8 interactions with chain B, 12 interactions with chain D Hydrogen bonds: A:S.106, A:Q.109, A:Q.109, B:N.194, D:R.101, D:R.101, D:R.103, D:R.103, D:H.104, D:H.200 Water bridges: B:R.196, B:R.196, D:H.104, D:H.104 Salt bridges: B:R.196, D:R.103, D:R.103, D:H.200, D:H.200 pi-Stacking: B:H.75, B:H.75, B:H.104, B:H.104 FAD.2: 23 residues within 4Å: Chain A: C.49, Y.50, V.73, G.74, H.75, A.77, E.80, H.104, N.194, R.196, T.197 Chain B: S.106, S.108, Q.109, S.111 Chain C: R.101, H.102, R.103, H.104, H.200, M.204, R.205 Ligands: FAD.4 23 PLIP interactions: 8 interactions with chain A, 12 interactions with chain C, 3 interactions with chain B Hydrogen bonds: A:N.194, C:R.101, C:R.101, C:R.103, C:R.103, C:H.104, C:H.200, B:S.106, B:Q.109, B:Q.109 Water bridges: A:R.196, A:R.196, C:H.104, C:H.104 Salt bridges: A:R.196, C:R.103, C:R.103, C:H.200, C:H.200 pi-Stacking: A:H.75, A:H.75, A:H.104, A:H.104 FAD.3: 23 residues within 4Å: Chain B: R.101, H.102, R.103, H.104, H.200, M.204, R.205 Chain C: S.106, S.108, Q.109, S.111 Chain D: C.49, Y.50, V.73, G.74, H.75, A.77, E.80, H.104, N.194, R.196, T.197 Ligands: FAD.1 24 PLIP interactions: 3 interactions with chain C, 10 interactions with chain D, 11 interactions with chain B Hydrogen bonds: C:S.106, C:Q.109, C:Q.109, D:Y.50, D:N.194, D:T.197, B:R.101, B:R.101, B:R.103, B:R.103, B:H.200 Water bridges: D:R.196, D:R.196, B:H.104, B:H.104 Salt bridges: D:R.196, B:R.103, B:R.103, B:H.200, B:H.200 pi-Stacking: D:H.75, D:H.75, D:H.104, D:H.104 FAD.4: 23 residues within 4Å: Chain A: R.101, H.102, R.103, H.104, H.200, M.204, R.205 Chain C: C.49, Y.50, V.73, G.74, H.75, A.77, E.80, H.104, N.194, R.196, T.197 Chain D: S.106, S.108, Q.109, S.111 Ligands: FAD.2 24 PLIP interactions: 11 interactions with chain A, 10 interactions with chain C, 3 interactions with chain D Hydrogen bonds: A:R.101, A:R.101, A:R.103, A:R.103, A:H.200, C:Y.50, C:N.194, C:T.197, D:S.106, D:Q.109, D:Q.109 Water bridges: A:H.104, A:H.104, C:R.196, C:R.196 Salt bridges: A:R.103, A:R.103, A:H.200, A:H.200, C:R.196 pi-Stacking: C:H.75, C:H.75, C:H.104, C:H.104

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, W.-C. et al., Biochemical and structural analysis of an atypical ThyX: Corynebacterium glutamicum NCHU 87078 depends on ThyA for thymidine biosynthesis. To be published

Release Date

2009-12-29

Peptides

Thymidylate synthase thyX: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Thymidylate synthase thyX