SMTL ID : 7ye3.1

Crystal structure of Lactobacillus rhamnosus 4-deoxy-L-threo-5-hexosulose-uronate ketol-isomerase KduI complexed with MES

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.55 Å

Oligo State

homo-hexamer

Ligands

6 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: H.198, H.200, E.205, H.248, M.262 Ligands: MES.2 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.198, A:H.200, A:E.205, A:H.248 ZN.3: 5 residues within 4Å: Chain B: H.198, H.200, E.205, H.248, M.262 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.198, B:H.200, B:E.205, B:H.248 ZN.5: 4 residues within 4Å: Chain C: H.198, H.200, E.205, H.248 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:H.198, C:H.200, C:E.205 ZN.7: 4 residues within 4Å: Chain D: H.200, E.205, H.248, M.262 2 PLIP interactions: 2 interactions with chain D Metal complexes: D:E.205, D:H.248 ZN.8: 4 residues within 4Å: Chain E: H.198, H.200, E.205, H.248 1 PLIP interactions: 1 interactions with chain E Metal complexes: E:E.205 ZN.9: 5 residues within 4Å: Chain F: H.198, H.200, E.205, H.248, M.262 4 PLIP interactions: 4 interactions with chain F Metal complexes: F:H.198, F:H.200, F:E.205, F:H.248

4 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.2: 12 residues within 4Å: Chain A: R.163, I.165, T.184, T.194, H.198, E.205, Y.207, F.258, W.260, M.262, Y.269 Ligands: ZN.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.194 Salt bridges: A:R.163, A:E.205 MES.4: 9 residues within 4Å: Chain B: R.163, I.165, T.184, T.194, H.198, E.205, F.258, W.260, M.262 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.184, B:T.194 Salt bridges: B:R.163, B:E.205 MES.6: 10 residues within 4Å: Chain C: R.163, I.165, T.184, N.193, T.194, H.198, E.205, F.258, W.260, Y.269 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:T.194, C:T.194 Salt bridges: C:R.163, C:E.205 MES.10: 9 residues within 4Å: Chain F: R.163, I.165, T.184, N.193, T.194, E.205, F.258, W.260, M.262 4 PLIP interactions: 4 interactions with chain F Hydrogen bonds: F:T.194, F:T.194 Salt bridges: F:R.163, F:E.205

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Iwase, H. et al., Crystal Structures of Lacticaseibacillus 4-Deoxy-L- threo- 5-hexosulose-uronate Ketol-isomerase KduI in Complex with Substrate Analogs. J Appl Glycosci (1999) (2023)

Release Date

2023-07-05

Peptides

4-deoxy-L-threo-5-hexosulose-uronate ketol-isomerase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

4-deoxy-L-threo-5-hexosulose-uronate ketol-isomerase

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