SMTL ID : 2wym.1

Structure of a metallo-b-lactamase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-hexamer

Ligands

6 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 5 residues within 4Å: Chain A: H.119, D.121, H.122, D.226, H.281 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.122, A:D.226, A:H.281 MN.4: 4 residues within 4Å: Chain B: D.121, H.122, D.226, H.281 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.122, B:D.226, B:H.281 MN.6: 5 residues within 4Å: Chain C: H.119, D.121, H.122, D.226, H.281 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:H.122, C:D.226, C:H.281 MN.8: 5 residues within 4Å: Chain D: H.119, D.121, H.122, D.226, H.281 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:D.121, D:H.122, D:D.226, D:H.281 MN.11: 5 residues within 4Å: Chain E: H.119, D.121, H.122, D.226, H.281 3 PLIP interactions: 3 interactions with chain E Metal complexes: E:H.122, E:D.226, E:H.281 MN.13: 5 residues within 4Å: Chain F: H.119, D.121, H.122, D.226, H.281 3 PLIP interactions: 3 interactions with chain F Metal complexes: F:H.122, F:D.226, F:H.281

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 7 residues within 4Å: Chain A: R.296, W.299, E.300, K.303, F.330 Chain D: K.303, D.304 4 PLIP interactions: 2 interactions with chain D, 2 interactions with chain A Hydrogen bonds: D:K.303, D:D.304, A:R.296, A:K.303 GOL.3: 8 residues within 4Å: Chain A: N.25, I.28, E.29, W.49, A.106, I.107, R.108, Q.109 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.25, A:A.106, A:R.108, A:Q.109 GOL.5: 3 residues within 4Å: Chain B: V.169, V.170, K.171 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.171 Water bridges: B:V.169, B:V.169 GOL.7: 2 residues within 4Å: Chain C: D.168, V.169 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:D.168, C:D.168, C:V.169 Water bridges: C:V.169 GOL.10: 8 residues within 4Å: Chain B: R.305 Chain C: Q.289, A.290, D.291 Chain D: Q.293, Q.316, E.331, Y.332 4 PLIP interactions: 2 interactions with chain D, 2 interactions with chain C Hydrogen bonds: D:Q.293, D:Q.316, C:Q.289, C:A.290 GOL.12: 8 residues within 4Å: Chain C: K.307 Chain E: F.313, K.320, D.326, N.329, E.331, Y.332, H.333 5 PLIP interactions: 3 interactions with chain E, 2 interactions with chain C Hydrogen bonds: E:K.320, E:H.333, E:H.333, C:K.307, C:K.307 GOL.14: 5 residues within 4Å: Chain A: Q.316 Chain D: R.305 Chain F: Q.289, A.290, P.292 4 PLIP interactions: 3 interactions with chain F, 1 interactions with chain D Hydrogen bonds: F:Q.289, F:A.290, D:R.305 Water bridges: F:A.290

1 x FLC: CITRATE ANION(Non-covalent)

FLC.9: 3 residues within 4Å: Chain D: V.169, V.170, K.171 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:V.169, D:K.171

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Garces, F. et al., Molecular Architecture of the Mn(2+)Dependent Lactonase Ulag Reveals an Rnase-Like Metallo-Beta-Lactamase Fold and a Novel Quaternary Structure. J.Mol.Biol. (2010)

Release Date

2010-04-14

Peptides

L-ASCORBATE-6-PHOSPHATE LACTONASE ULAG: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

L-ASCORBATE-6-PHOSPHATE LACTONASE ULAG

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