SMTL ID : 4ivk.3 (2 other biounits)

Crystal structure of a fammily VIII carboxylesterase in a complex with cephalothin.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-octamer

Ligands

8 x CEP: CEPHALOTHIN GROUP(Covalent)

CEP.1: 12 residues within 4Å: Chain A: Y.99, S.100, F.174, V.175, Y.218, I.277, Q.296, L.350, G.383, A.384, R.409, W.413 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:Y.99, A:F.174, A:F.174, A:I.277, A:L.350 Hydrogen bonds: A:S.100, A:A.384 Salt bridges: A:R.409 CEP.6: 12 residues within 4Å: Chain B: Y.99, S.100, F.174, V.175, Y.218, I.277, Q.296, L.350, G.383, A.384, R.409, W.413 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:Y.99, B:F.174, B:F.174, B:I.277, B:L.350 Hydrogen bonds: B:S.100, B:A.384 Salt bridges: B:R.409 CEP.11: 12 residues within 4Å: Chain C: Y.99, S.100, F.174, V.175, Y.218, I.277, Q.296, L.350, G.383, A.384, R.409, W.413 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:Y.99, C:F.174, C:F.174, C:I.277, C:L.350 Hydrogen bonds: C:S.100, C:A.384 Salt bridges: C:R.409 CEP.16: 12 residues within 4Å: Chain D: Y.99, S.100, F.174, V.175, Y.218, I.277, Q.296, L.350, G.383, A.384, R.409, W.413 8 PLIP interactions: 8 interactions with chain D Hydrophobic interactions: D:Y.99, D:F.174, D:F.174, D:I.277, D:L.350 Hydrogen bonds: D:S.100, D:A.384 Salt bridges: D:R.409 CEP.21: 12 residues within 4Å: Chain E: Y.99, S.100, F.174, V.175, Y.218, I.277, Q.296, L.350, G.383, A.384, R.409, W.413 8 PLIP interactions: 8 interactions with chain E Hydrophobic interactions: E:Y.99, E:F.174, E:F.174, E:I.277, E:L.350 Hydrogen bonds: E:S.100, E:A.384 Salt bridges: E:R.409 CEP.26: 12 residues within 4Å: Chain F: Y.99, S.100, F.174, V.175, Y.218, I.277, Q.296, L.350, G.383, A.384, R.409, W.413 8 PLIP interactions: 8 interactions with chain F Hydrophobic interactions: F:Y.99, F:F.174, F:F.174, F:I.277, F:L.350 Hydrogen bonds: F:S.100, F:A.384 Salt bridges: F:R.409 CEP.31: 12 residues within 4Å: Chain G: Y.99, S.100, F.174, V.175, Y.218, I.277, Q.296, L.350, G.383, A.384, R.409, W.413 8 PLIP interactions: 8 interactions with chain G Hydrophobic interactions: G:Y.99, G:F.174, G:F.174, G:I.277, G:L.350 Hydrogen bonds: G:S.100, G:A.384 Salt bridges: G:R.409 CEP.36: 12 residues within 4Å: Chain H: Y.99, S.100, F.174, V.175, Y.218, I.277, Q.296, L.350, G.383, A.384, R.409, W.413 8 PLIP interactions: 8 interactions with chain H Hydrophobic interactions: H:Y.99, H:F.174, H:F.174, H:I.277, H:L.350 Hydrogen bonds: H:S.100, H:A.384 Salt bridges: H:R.409

32 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 5 residues within 4Å: Chain A: T.32, K.33, P.34, K.35, E.36 Ligand excluded by PLIP SO4.3: 5 residues within 4Å: Chain A: V.29, S.78, T.91, A.92, E.93 Ligand excluded by PLIP SO4.4: 4 residues within 4Å: Chain A: G.250, G.303, D.304, R.307 Ligand excluded by PLIP SO4.5: 4 residues within 4Å: Chain A: K.276, G.279, S.280, E.281 Ligand excluded by PLIP SO4.7: 5 residues within 4Å: Chain B: T.32, K.33, P.34, K.35, E.36 Ligand excluded by PLIP SO4.8: 5 residues within 4Å: Chain B: V.29, S.78, T.91, A.92, E.93 Ligand excluded by PLIP SO4.9: 4 residues within 4Å: Chain B: G.250, G.303, D.304, R.307 Ligand excluded by PLIP SO4.10: 4 residues within 4Å: Chain B: K.276, G.279, S.280, E.281 Ligand excluded by PLIP SO4.12: 5 residues within 4Å: Chain C: T.32, K.33, P.34, K.35, E.36 Ligand excluded by PLIP SO4.13: 5 residues within 4Å: Chain C: V.29, S.78, T.91, A.92, E.93 Ligand excluded by PLIP SO4.14: 4 residues within 4Å: Chain C: G.250, G.303, D.304, R.307 Ligand excluded by PLIP SO4.15: 4 residues within 4Å: Chain C: K.276, G.279, S.280, E.281 Ligand excluded by PLIP SO4.17: 5 residues within 4Å: Chain D: T.32, K.33, P.34, K.35, E.36 Ligand excluded by PLIP SO4.18: 5 residues within 4Å: Chain D: V.29, S.78, T.91, A.92, E.93 Ligand excluded by PLIP SO4.19: 4 residues within 4Å: Chain D: G.250, G.303, D.304, R.307 Ligand excluded by PLIP SO4.20: 4 residues within 4Å: Chain D: K.276, G.279, S.280, E.281 Ligand excluded by PLIP SO4.22: 5 residues within 4Å: Chain E: T.32, K.33, P.34, K.35, E.36 Ligand excluded by PLIP SO4.23: 5 residues within 4Å: Chain E: V.29, S.78, T.91, A.92, E.93 Ligand excluded by PLIP SO4.24: 4 residues within 4Å: Chain E: G.250, G.303, D.304, R.307 Ligand excluded by PLIP SO4.25: 4 residues within 4Å: Chain E: K.276, G.279, S.280, E.281 Ligand excluded by PLIP SO4.27: 5 residues within 4Å: Chain F: T.32, K.33, P.34, K.35, E.36 Ligand excluded by PLIP SO4.28: 5 residues within 4Å: Chain F: V.29, S.78, T.91, A.92, E.93 Ligand excluded by PLIP SO4.29: 4 residues within 4Å: Chain F: G.250, G.303, D.304, R.307 Ligand excluded by PLIP SO4.30: 4 residues within 4Å: Chain F: K.276, G.279, S.280, E.281 Ligand excluded by PLIP SO4.32: 5 residues within 4Å: Chain G: T.32, K.33, P.34, K.35, E.36 Ligand excluded by PLIP SO4.33: 5 residues within 4Å: Chain G: V.29, S.78, T.91, A.92, E.93 Ligand excluded by PLIP SO4.34: 4 residues within 4Å: Chain G: G.250, G.303, D.304, R.307 Ligand excluded by PLIP SO4.35: 4 residues within 4Å: Chain G: K.276, G.279, S.280, E.281 Ligand excluded by PLIP SO4.37: 5 residues within 4Å: Chain H: T.32, K.33, P.34, K.35, E.36 Ligand excluded by PLIP SO4.38: 5 residues within 4Å: Chain H: V.29, S.78, T.91, A.92, E.93 Ligand excluded by PLIP SO4.39: 4 residues within 4Å: Chain H: G.250, G.303, D.304, R.307 Ligand excluded by PLIP SO4.40: 4 residues within 4Å: Chain H: K.276, G.279, S.280, E.281 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cha, S.S. et al., Structural basis for the beta-lactamase activity of EstU1, a family VIII carboxylesterase. Proteins (2013)

Release Date

2013-06-19

Peptides

Carboxylesterases: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

G
A

H
A

Carboxylesterases

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