SMTL ID : 6b6a.1

Beta-Lactamase, 2secs timepoint, mixed, shards crystal form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-tetramer

Ligands

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

PO4.1: 8 residues within 4Å: Chain A: S.44, S.102, R.196, K.210, T.211, G.212, T.213 Chain B: Q.83 12 PLIP interactions: 10 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:S.44, A:S.102, A:S.102, A:R.196, A:R.196, A:T.211, A:T.213, A:T.213, A:T.213, B:Q.82, B:Q.83 Salt bridges: A:K.210 PO4.5: 8 residues within 4Å: Chain C: S.44, S.102, R.196, K.210, T.211, G.212, T.213 Chain D: Q.83 12 PLIP interactions: 11 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:S.44, C:S.102, C:S.102, C:S.102, C:T.192, C:R.196, C:R.196, C:T.211, C:T.211, C:T.213, D:Q.83 Salt bridges: C:K.210

4 x 9F2: Ceftriaxone(Non-covalent)

9F2.2: 12 residues within 4Å: Chain A: R.100, Y.101, N.190, T.191 Chain B: I.77, P.79, Y.101, T.191, T.192, D.215 Ligands: 9F2.3, FZS.4 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.100, A:R.100, A:Y.101, B:T.191 Salt bridges: A:R.100 9F2.3: 16 residues within 4Å: Chain A: Q.83 Chain B: C.43, S.44, S.102, P.143, N.146, T.192, R.196, K.210, T.211, G.212, T.213, G.214, D.215 Ligands: 9F2.2, FZS.4 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:S.44, B:S.102, B:N.146, B:T.192, B:T.213, B:D.215 Water bridges: B:K.210 Salt bridges: B:R.196, B:K.210 9F2.6: 12 residues within 4Å: Chain C: R.100, Y.101, N.190, T.191 Chain D: I.77, P.79, Y.101, T.191, T.192, D.215 Ligands: 9F2.7, FZS.8 5 PLIP interactions: 2 interactions with chain D, 3 interactions with chain C Hydrogen bonds: D:T.191, D:T.191, C:R.100, C:Y.101 Salt bridges: C:R.100 9F2.7: 18 residues within 4Å: Chain C: Q.83 Chain D: C.43, S.44, I.77, S.102, P.143, N.146, T.192, R.196, K.210, T.211, G.212, T.213, G.214, D.215, E.252 Ligands: 9F2.6, FZS.8 13 PLIP interactions: 13 interactions with chain D Hydrogen bonds: D:S.44, D:S.102, D:S.102, D:T.211, D:T.213, D:T.213, D:D.215, D:D.215 Water bridges: D:N.146, D:N.146, D:N.190 Salt bridges: D:R.196, D:K.210

2 x FZS: (2R)-2-[(1S)-1-{[(2Z)-2-(2-amino-1,3-thiazol-4-yl)-2-(methoxyimino)acetyl]amino}-2-hydroxyethyl]-5-methylidene-5,6-dihydro-2H-1,3-thiazine-4-carboxylic acid(Covalent)

FZS.4: 17 residues within 4Å: Chain A: Q.83 Chain B: C.43, S.44, K.47, I.77, S.102, P.143, N.146, R.196, K.210, T.211, G.212, T.213, G.214, D.215 Ligands: 9F2.2, 9F2.3 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:S.44, B:S.102, B:T.213, B:D.215 Water bridges: B:N.146 Salt bridges: B:R.196, B:K.210 FZS.8: 18 residues within 4Å: Chain C: Q.83 Chain D: C.43, S.44, K.47, I.77, S.102, P.143, N.146, R.147, T.192, K.210, T.211, G.212, T.213, G.214, D.215 Ligands: 9F2.6, 9F2.7 13 PLIP interactions: 12 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: D:T.192 Hydrogen bonds: D:S.44, D:S.102, D:N.146, D:T.211, D:T.213, D:T.213, D:T.213, D:D.215, D:D.215 Salt bridges: D:R.196, D:K.210 Water bridges: C:Q.83

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Olmos, J.L. et al., Enzyme intermediates captured "on the fly" by mix-and-inject serial crystallography. BMC Biol. (2018)

Release Date

2018-06-27

Peptides

Beta-lactamase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Beta-lactamase

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