SMTL ID : 6twm.13 (13 other biounits)

Product bound structure of the Ectoine utilization protein EutE (DoeB) from Ruegeria pomeroyi

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-hexamer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: H.65, E.68, R.107, H.151, S.152 Ligands: DAB.2 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.65, A:E.68, A:E.68, A:H.151 ZN.3: 6 residues within 4Å: Chain B: H.65, E.68, H.151, S.152, E.216 Ligands: DAB.4 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Ligand interactions Metal complexes: B:E.68, B:E.68, B:H.151, DAB.4 ZN.6: 6 residues within 4Å: Chain D: H.65, E.68, R.107, H.151, S.152 Ligands: ACT.7 5 PLIP interactions: 4 interactions with chain D, 1 Ligand-Ligand interactions Metal complexes: D:H.65, D:E.68, D:E.68, D:H.151, ACT.7 ZN.8: 5 residues within 4Å: Chain E: H.65, E.68, H.151, S.152 Ligands: DAB.9 4 PLIP interactions: 4 interactions with chain E Metal complexes: E:H.65, E:E.68, E:E.68, E:H.151

5 x DAB: 2,4-DIAMINOBUTYRIC ACID(Covalent)(Non-covalent)

DAB.2: 7 residues within 4Å: Chain A: H.65, R.107, H.151, E.194, E.216 Chain F: W.40 Ligands: ZN.1 5 PLIP interactions: 2 interactions with chain F, 3 interactions with chain A Water bridges: F:S.34, F:S.34 Hydrogen bonds: A:R.107 Salt bridges: A:H.65, A:R.107 DAB.4: 8 residues within 4Å: Chain B: H.65, R.107, N.117, E.194, M.200, E.216 Chain D: W.40 Ligands: ZN.3 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:N.117, B:E.194 Water bridges: B:R.107, B:R.107 Salt bridges: B:H.65, B:R.107, B:H.151 DAB.5: 7 residues within 4Å: Chain A: W.40 Chain C: H.65, R.107, N.117, H.151, M.200, E.216 8 PLIP interactions: 7 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:R.107, C:N.117, C:E.216, A:W.40 Water bridges: C:R.107 Salt bridges: C:H.65, C:R.118, C:H.151 DAB.9: 12 residues within 4Å: Chain B: A.39, W.40 Chain E: H.65, E.68, R.107, H.151, S.152, G.153, L.157, F.159, E.216 Ligands: ZN.8 10 PLIP interactions: 8 interactions with chain E, 2 interactions with chain B Hydrophobic interactions: E:F.159, B:W.40 Hydrogen bonds: E:R.107, E:G.153, E:E.216, B:W.40 Water bridges: E:L.157 Salt bridges: E:H.65, E:R.107, E:H.151 DAB.10: 10 residues within 4Å: Chain C: W.40 Chain F: H.65, E.68, R.107, N.117, R.118, H.151, S.152, M.200, E.216 9 PLIP interactions: 8 interactions with chain F, 1 interactions with chain C Hydrogen bonds: F:R.107, F:R.107, F:N.117, F:G.153, C:W.40 Salt bridges: F:H.65, F:R.107, F:R.118, F:H.151

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.7: 5 residues within 4Å: Chain D: R.107, N.117, E.216 Chain E: W.40 Ligands: ZN.6 2 PLIP interactions: 2 interactions with chain D Salt bridges: D:H.65, D:R.107

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mais, C.N. et al., Degradation of the microbial stress protectants and chemical chaperones ectoine and hydroxyectoine by a bacterial hydrolase-deacetylase complex. J.Biol.Chem. (2020)

Release Date

2020-05-20

Peptides

N-acetyl-L-2,4-diaminobutyric acid deacetylase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
D

C
F

D
G

E
J

F
K

N-acetyl-L-2,4-diaminobutyric acid deacetylase

Related Entries With Identical Sequence