SMTL ID : 5trx.1

Room temperature structure of an extradiol ring-cleaving dioxygenase from B.fuscum determined using serial femtosecond crystallography

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.38 Å

Oligo State

homo-tetramer

Ligands

4 x FE2: FE (II) ION(Non-covalent)

FE2.1: 4 residues within 4Å: Chain A: H.155, H.214, Y.257, E.267 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.155, A:H.214, A:E.267, H2O.3, H2O.3 FE2.3: 4 residues within 4Å: Chain B: H.155, H.200, H.214, E.267 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.155, B:H.214, B:E.267, H2O.5, H2O.7 FE2.6: 5 residues within 4Å: Chain C: H.155, H.200, H.214, Y.257, E.267 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:H.155, C:H.214, C:E.267, H2O.11, H2O.13 FE2.8: 3 residues within 4Å: Chain D: H.155, H.214, E.267 6 PLIP interactions: 3 interactions with chain D, 3 Ligand-Water interactions Metal complexes: D:H.155, D:H.214, D:E.267, H2O.14, H2O.16, H2O.16

4 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 4 residues within 4Å: Chain A: R.243, H.248, Y.257, R.293 Ligand excluded by PLIP CL.5: 5 residues within 4Å: Chain B: R.243, H.248, Y.257, R.293, W.304 Ligand excluded by PLIP CL.7: 4 residues within 4Å: Chain C: R.243, H.248, Y.257, R.293 Ligand excluded by PLIP CL.9: 3 residues within 4Å: Chain D: R.243, H.248, R.293 Ligand excluded by PLIP

1 x CA: CALCIUM ION(Non-covalent)

CA.4: 2 residues within 4Å: Chain B: D.184, E.185 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.184, B:E.185, B:E.185

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Oberthuer, D. et al., Double-flow focused liquid injector for efficient serial femtosecond crystallography. Sci. Rep. (2017)

Release Date

2017-03-22

Peptides

Homoprotocatechuate 2,3-dioxygenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Homoprotocatechuate 2,3-dioxygenase

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