SMTL ID : 6rh9.3 (3 other biounits)

Crystal Structure of Two-Domain Laccase mutant I170F from Streptomyces griseoflavus

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-trimer

Ligands

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

CU.1: 4 residues within 4Å: Chain A: H.232, C.289, H.294, M.299 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.232, A:C.289, A:H.294 CU.2: 6 residues within 4Å: Chain A: H.235, H.237, H.288 Chain C: H.159 Ligands: CU.3, OXY.13 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain A Metal complexes: C:H.159, A:H.237, A:H.288 CU.3: 7 residues within 4Å: Chain A: H.235, H.237 Chain C: H.103, H.105 Ligands: CU.2, CU.12, OXY.13 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain A Metal complexes: C:H.103, A:H.235 CU.4: 7 residues within 4Å: Chain A: H.103, H.105, H.157 Chain B: H.235, H.290 Ligands: CU.5, CU.10 4 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: A:H.105, A:H.157, B:H.290, H2O.2 CU.5: 6 residues within 4Å: Chain A: H.103, H.105 Chain B: H.235, H.237 Ligands: CU.4, CU.10 3 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: B:H.235, A:H.103, H2O.2 CU.9: 4 residues within 4Å: Chain B: H.232, C.289, H.294, M.299 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.232, B:C.289, B:H.294 CU.10: 6 residues within 4Å: Chain A: H.159 Chain B: H.235, H.237, H.288 Ligands: CU.4, CU.5 4 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: A:H.159, B:H.237, B:H.288, H2O.2 CU.11: 4 residues within 4Å: Chain B: H.103, H.105, H.157 Chain C: H.290 4 PLIP interactions: 2 interactions with chain B, 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: B:H.105, B:H.157, C:H.290, H2O.5 CU.12: 7 residues within 4Å: Chain A: H.235, H.290 Chain C: H.103, H.105, H.157 Ligands: CU.3, OXY.13 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain A Metal complexes: C:H.105, C:H.157, A:H.290 CU.14: 6 residues within 4Å: Chain C: Y.231, H.232, C.289, V.291, H.294, M.299 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:H.232, C:C.289, C:H.294 CU.15: 6 residues within 4Å: Chain B: H.103, H.159 Chain C: H.235, H.237, H.288 Ligands: CU.16 4 PLIP interactions: 2 interactions with chain C, 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: C:H.237, C:H.288, B:H.159, H2O.5 CU.16: 5 residues within 4Å: Chain B: H.103, H.105 Chain C: H.235, H.237 Ligands: CU.15 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C Metal complexes: B:H.103, C:H.235

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

EDO.6: 1 residues within 4Å: Chain A: Y.230 No protein-ligand interaction detected (PLIP) EDO.7: 6 residues within 4Å: Chain A: G.152, Y.153, V.180, R.181, D.185, R.245 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.152, A:R.181, A:R.245 Water bridges: A:Q.273

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.8: 3 residues within 4Å: Chain A: H.136, R.147 Chain B: G.279 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.147, A:R.147

1 x OXY: OXYGEN MOLECULE(Non-covalent)

OXY.13: 10 residues within 4Å: Chain A: H.235, H.237, H.288, H.290 Chain C: H.103, H.157, H.159 Ligands: CU.2, CU.3, CU.12 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:H.157

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gabdulkhakov, A. et al., Investigations of Accessibility of T2/T3 Copper Center of Two-Domain Laccase fromStreptomyces griseoflavusAc-993. Int J Mol Sci (2019)

Release Date

2019-07-17

Peptides

Two-domain laccase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

B
H

C
I

Two-domain laccase

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