SMTL ID : 6b2m.1

LarE, a sulfur transferase involved in synthesis of the cofactor for lactate racemase in complex with coenzyme A

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.09 Å

Oligo State

homo-hexamer

Ligands

6 x COA: COENZYME A(Non-covalent)

COA.1: 18 residues within 4Å: Chain A: A.24, F.25, S.26, G.28, D.30, S.31, V.50, V.51, A.52, Y.83, W.97, A.100, K.101, F.104, D.122, G.123, M.124, S.177 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:A.100, A:K.101 Hydrogen bonds: A:A.24, A:S.26, A:G.28, A:D.30, A:S.31, A:S.31, A:A.52, A:A.52, A:Y.83, A:Y.83, A:G.123 Water bridges: A:S.177 pi-Stacking: A:F.104, A:F.104 COA.3: 17 residues within 4Å: Chain B: A.24, F.25, S.26, G.28, D.30, S.31, V.50, V.51, A.52, Y.83, W.97, A.100, K.101, F.104, Y.105, D.122, G.123 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:K.101, B:F.104, B:Y.105 Hydrogen bonds: B:A.24, B:S.26, B:G.28, B:D.30, B:D.30, B:S.31, B:S.31, B:A.52, B:A.52, B:Y.83, B:G.123 pi-Stacking: B:F.104, B:F.104 COA.5: 18 residues within 4Å: Chain C: A.24, F.25, S.26, G.28, D.30, S.31, V.50, V.51, A.52, S.54, F.57, Y.83, W.97, K.101, F.104, Y.105, D.122, G.123 19 PLIP interactions: 19 interactions with chain C Hydrophobic interactions: C:F.57, C:K.101, C:Y.105 Hydrogen bonds: C:A.24, C:S.26, C:G.28, C:D.30, C:D.30, C:S.31, C:S.31, C:A.52, C:A.52, C:S.54, C:S.54, C:Y.83, C:Y.83, C:G.123 pi-Stacking: C:F.104, C:F.104 COA.7: 18 residues within 4Å: Chain D: A.24, F.25, S.26, G.28, D.30, S.31, V.50, V.51, A.52, Y.83, W.97, K.101, F.104, Y.105, D.122, G.123, M.124, S.177 21 PLIP interactions: 21 interactions with chain D Hydrophobic interactions: D:F.104, D:Y.105 Hydrogen bonds: D:A.24, D:S.26, D:S.26, D:G.28, D:D.30, D:D.30, D:S.31, D:A.52, D:A.52, D:Y.83, D:G.123 Water bridges: D:E.61, D:E.61, D:E.61, D:Y.83, D:Y.83, D:S.177 pi-Stacking: D:F.104, D:F.104 COA.9: 19 residues within 4Å: Chain E: A.24, F.25, S.26, G.28, D.30, S.31, V.50, V.51, A.52, F.57, Y.83, W.97, A.100, K.101, F.104, D.122, G.123, M.124, S.177 13 PLIP interactions: 13 interactions with chain E Hydrophobic interactions: E:K.101 Hydrogen bonds: E:A.24, E:S.26, E:S.26, E:G.28, E:D.30, E:D.30, E:S.31, E:A.52, E:A.52, E:G.123 pi-Stacking: E:F.104, E:F.104 COA.11: 17 residues within 4Å: Chain F: A.24, F.25, S.26, G.28, D.30, S.31, V.50, V.51, A.52, Y.83, W.97, A.100, K.101, F.104, D.122, G.123, M.124 12 PLIP interactions: 12 interactions with chain F Hydrophobic interactions: F:K.101 Hydrogen bonds: F:A.24, F:S.26, F:G.28, F:D.30, F:S.31, F:S.31, F:A.52, F:A.52, F:G.123 pi-Stacking: F:F.104, F:F.104

6 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 5 residues within 4Å: Chain A: S.180, R.181, R.212, R.214, R.259 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.180, A:S.180 Salt bridges: A:R.212, A:R.214, A:R.259 PO4.4: 3 residues within 4Å: Chain B: S.180, R.212, R.214 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.180 Salt bridges: B:R.212, B:R.214 PO4.6: 5 residues within 4Å: Chain C: S.180, R.181, R.212, R.214, R.259 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:S.180, C:S.180, C:S.180 Salt bridges: C:R.212, C:R.214, C:R.259 PO4.8: 5 residues within 4Å: Chain D: C.176, S.180, R.212, R.214, R.259 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:S.180, D:S.180 Salt bridges: D:R.212, D:R.214, D:R.259 PO4.10: 6 residues within 4Å: Chain E: C.176, S.180, R.181, R.212, R.214, R.259 5 PLIP interactions: 5 interactions with chain E Hydrogen bonds: E:S.180, E:S.180 Salt bridges: E:R.212, E:R.214, E:R.259 PO4.12: 4 residues within 4Å: Chain F: S.180, R.212, R.214, R.259 5 PLIP interactions: 5 interactions with chain F Hydrogen bonds: F:S.180, F:S.180 Salt bridges: F:R.212, F:R.214, F:R.259

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fellner, M. et al., Analysis of the Active Site Cysteine Residue of the Sacrificial Sulfur Insertase LarE from Lactobacillus plantarum. Biochemistry (2018)

Release Date

2018-09-05

Peptides

ATP-utilizing enzyme of the PP-loopsuperfamily: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

ATP-utilizing enzyme of the PP-loopsuperfamily

Related Entries With Identical Sequence