SMTL ID : 8yu6.1

The structure of thiocyanate dehydrogenase mutant with the H447Q substitution from Pelomicrobium methylotrophicum (pmTcDH H447Q), activated by crystal soaking with 1mM CuCl2 and 1 mM sodium ascorbate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

homo-dimer

Ligands

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 5 residues within 4Å: Chain A: N.188, G.200, T.201, M.314, D.315 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.188, A:T.201, A:D.315 Water bridges: A:T.201 EDO.6: 6 residues within 4Å: Chain B: N.188, G.200, T.201, K.313, M.314, D.315 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:N.188, B:T.201, B:T.201, B:D.315, B:D.315 Water bridges: B:T.201 EDO.7: 5 residues within 4Å: Chain B: P.261, R.262, P.328, D.329, R.482 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:P.328 EDO.8: 4 residues within 4Å: Chain B: V.291, E.296, D.315, K.316 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:E.296, B:D.315, B:K.316 Water bridges: B:E.296, B:D.315, B:D.315, B:K.316

7 x CU: COPPER (II) ION(Non-covalent)

CU.2: 4 residues within 4Å: Chain A: H.147, D.255, H.322, Q.323 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.147, A:D.255, A:D.255, A:H.322, H2O.9 CU.3: 4 residues within 4Å: Chain A: K.44, H.76, H.77, H.469 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.76, A:H.469, H2O.3, H2O.3 CU.4: 3 residues within 4Å: Chain A: G.19, H.20, M.21 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.20, H2O.13 CU.5: 3 residues within 4Å: Chain A: F.377, H.378, Q.423 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.378, H2O.15 CU.9: 3 residues within 4Å: Chain B: H.147, D.255, H.322 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.147, B:D.255, B:H.322, H2O.27, H2O.30 CU.10: 3 residues within 4Å: Chain B: K.44, H.76, H.469 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.76, B:H.469, H2O.22, H2O.23 CU.11: 3 residues within 4Å: Chain B: F.377, H.378, Q.423 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.378, H2O.32

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

CL.12: 3 residues within 4Å: Chain B: P.152, D.153, R.281 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Varfolomeeva, L.A. et al., The structure of thiocyanate dehydrogenase mutant with the H447Q substitution from Pelomicrobium methylotrophicum (pmTcDH H447Q), activated by crystal soaking with 1mM CuCl2 and 1 mM sodium ascorbate. To Be Published

Release Date

2024-04-24

Peptides

Twin-arginine translocation signal domain-containing protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Twin-arginine translocation signal domain-containing protein

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