SMTL ID : 7xrt.1

Bacteroides thetaiotaomicron ferulic acid esterase (BT_4077)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.01 Å

Oligo State

homo-10-mer

Ligands

10 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: D.237, D.238, D.265 Chain B: E.260 5 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: B:E.260, A:D.237, A:D.238, H2O.9, H2O.10 CA.3: 4 residues within 4Å: Chain A: E.260 Chain B: D.237, D.238, D.265 5 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: B:D.237, B:D.238, A:E.260, H2O.2, H2O.2 CA.4: 4 residues within 4Å: Chain C: D.237, D.238, D.265 Chain E: E.260 5 PLIP interactions: 1 interactions with chain E, 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: E:E.260, C:D.237, C:D.237, C:D.238, H2O.32 CA.5: 4 residues within 4Å: Chain D: D.237, D.238, D.265 Chain G: E.260 5 PLIP interactions: 1 interactions with chain G, 4 interactions with chain D Metal complexes: G:E.260, D:D.237, D:D.237, D:D.238, D:D.265 CA.7: 4 residues within 4Å: Chain C: E.260 Chain E: D.237, D.238, D.265 5 PLIP interactions: 3 interactions with chain E, 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: E:D.237, E:D.237, E:D.238, C:E.260, H2O.18 CA.9: 4 residues within 4Å: Chain F: D.237, D.238, D.265 Chain H: E.260 5 PLIP interactions: 2 interactions with chain F, 1 interactions with chain H, 2 Ligand-Water interactions Metal complexes: F:D.237, F:D.238, H:E.260, H2O.53, H2O.54 CA.11: 4 residues within 4Å: Chain D: E.260 Chain G: D.237, D.238, D.265 5 PLIP interactions: 4 interactions with chain G, 1 interactions with chain D Metal complexes: G:D.237, G:D.237, G:D.238, G:D.265, D:E.260 CA.14: 4 residues within 4Å: Chain F: E.260 Chain H: D.237, D.238, D.265 5 PLIP interactions: 4 interactions with chain H, 1 Ligand-Water interactions Metal complexes: H:D.237, H:D.237, H:D.238, H:D.265, H2O.40 CA.16: 4 residues within 4Å: Chain I: D.237, D.238, D.265 Chain J: E.260 5 PLIP interactions: 2 interactions with chain I, 1 interactions with chain J, 2 Ligand-Water interactions Metal complexes: I:D.237, I:D.238, J:E.260, H2O.60, H2O.66 CA.18: 4 residues within 4Å: Chain I: E.260 Chain J: D.237, D.238, D.265 5 PLIP interactions: 3 interactions with chain J, 1 interactions with chain I, 1 Ligand-Water interactions Metal complexes: J:D.237, J:D.237, J:D.238, I:E.260, H2O.59

9 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.2: 4 residues within 4Å: Chain A: N.114, E.123, H.165, Y.166 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.165 Water bridges: A:E.123 MPD.6: 6 residues within 4Å: Chain D: N.114, E.123, D.124, H.165, Y.166, Q.208 4 PLIP interactions: 4 interactions with chain D Hydrophobic interactions: D:Q.208 Hydrogen bonds: D:N.114, D:D.124, D:Y.166 MPD.8: 4 residues within 4Å: Chain E: N.114, E.123, H.165, Q.208 4 PLIP interactions: 4 interactions with chain E Hydrophobic interactions: E:Q.208 Hydrogen bonds: E:H.165, E:H.165 Water bridges: E:N.114 MPD.10: 5 residues within 4Å: Chain F: N.114, E.123, H.165, Y.166, Q.208 3 PLIP interactions: 3 interactions with chain F Hydrophobic interactions: F:Y.166, F:Q.208 Hydrogen bonds: F:E.123 MPD.12: 7 residues within 4Å: Chain G: G.68, L.69, D.71, S.153, H.268, W.270, W.273 4 PLIP interactions: 4 interactions with chain G Hydrophobic interactions: G:W.273 Hydrogen bonds: G:S.153, G:H.268 Water bridges: G:L.69 MPD.13: 4 residues within 4Å: Chain G: E.123, H.165, Y.166, Q.208 2 PLIP interactions: 2 interactions with chain G Hydrophobic interactions: G:H.165 Water bridges: G:E.123 MPD.15: 5 residues within 4Å: Chain H: N.114, E.123, H.165, Y.166, Q.208 3 PLIP interactions: 3 interactions with chain H Hydrophobic interactions: H:Y.166, H:Q.208 Hydrogen bonds: H:E.123 MPD.17: 5 residues within 4Å: Chain I: N.114, E.123, H.165, Y.166, Q.208 3 PLIP interactions: 3 interactions with chain I Hydrogen bonds: I:N.114 Water bridges: I:E.123, I:D.124 MPD.19: 5 residues within 4Å: Chain J: N.114, E.123, H.165, Y.166, Q.208 5 PLIP interactions: 5 interactions with chain J Hydrophobic interactions: J:H.165, J:Y.166, J:Q.208 Hydrogen bonds: J:N.114, J:E.123

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Du, G. et al., Structural insights into the oligomeric effects on catalytic activity of a decameric feruloyl esterase and its application in ferulic acid production. Int.J.Biol.Macromol. (2023)

Release Date

2023-11-22

Peptides

Ferulic acid esterase: ABCDEFGHIJ

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

I
I

J
J

Ferulic acid esterase