SMTL ID : 6yo5.1

Crystal structure of the M295F variant of Ssl1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-trimer

Ligands

1 x ALA- HIS- ALA: ALA-HIS-ALA(Non-covalent)

ALA-HIS-ALA.1: 5 residues within 4Å: Chain C: G.310, Y.311, E.312, P.313 Ligands: CU.19 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:E.312, C:E.312, C:E.312

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

CU.2: 9 residues within 4Å: Chain A: H.99, H.101, H.151, H.153, A.263 Chain C: H.231, H.286 Ligands: CU.14, CU.17 4 PLIP interactions: 1 interactions with chain C, 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: C:H.286, A:H.101, A:H.153, H2O.18 CU.3: 4 residues within 4Å: Chain A: H.228, C.285, V.287, H.290 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.228, A:C.285, A:H.290, H2O.7 CU.4: 6 residues within 4Å: Chain A: H.231, H.233, M.282, H.284 Chain B: H.155, H.161 4 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: B:H.155, A:H.233, A:H.284, H2O.6 CU.5: 5 residues within 4Å: Chain A: H.231, H.233 Chain B: H.99, H.101 Ligands: CU.12 3 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: B:H.99, A:H.231, H2O.8 CU.9: 4 residues within 4Å: Chain B: H.228, C.285, V.287, H.290 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.228, B:C.285, B:H.290, H2O.13 CU.10: 6 residues within 4Å: Chain B: H.231, H.233, M.282, H.284 Chain C: H.155, H.161 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain B Metal complexes: C:H.155, B:H.233, B:H.284 CU.11: 6 residues within 4Å: Chain B: H.231, H.233 Chain C: H.99, H.101, Y.105 Ligands: CU.16 3 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: B:H.231, C:H.99, H2O.15 CU.12: 8 residues within 4Å: Chain A: H.231, H.286 Chain B: H.99, H.101, H.151, H.153, A.263 Ligands: CU.5 4 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: B:H.101, B:H.153, A:H.286, H2O.6 CU.13: 4 residues within 4Å: Chain C: H.228, C.285, V.287, H.290 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:H.228, C:C.285, C:H.290, H2O.19 CU.14: 6 residues within 4Å: Chain A: H.99, H.101 Chain C: H.231, H.233 Ligands: CU.2, CU.17 3 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: A:H.99, C:H.231, H2O.1 CU.15: 7 residues within 4Å: Chain A: H.155, H.161 Chain C: H.231, H.233, M.282, H.284 Ligands: CU.17 4 PLIP interactions: 1 interactions with chain A, 2 interactions with chain C, 1 Ligand-Water interactions Metal complexes: A:H.155, C:H.233, C:H.284, H2O.18 CU.16: 8 residues within 4Å: Chain B: H.231, H.286 Chain C: H.99, H.101, H.151, H.153, A.263 Ligands: CU.11 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain C Metal complexes: B:H.286, C:H.101, C:H.153 CU.17: 9 residues within 4Å: Chain A: H.99, H.155 Chain C: H.231, H.233, H.284, H.286 Ligands: CU.2, CU.14, CU.15 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:H.231, C:H.233, C:H.284, H2O.18 CU.19: 4 residues within 4Å: Chain C: E.312 Ligands: ALA-HIS-ALA.1, ALA-HIS-ALA.1, ALA-HIS-ALA.1 2 PLIP interactions: 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:E.312, H2O.20

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.6: 2 residues within 4Å: Chain A: R.95, E.120 4 PLIP interactions: 4 interactions with chain A Water bridges: A:R.95, A:E.120, A:E.120 Salt bridges: A:R.95 SO4.7: 9 residues within 4Å: Chain A: R.137, W.142, R.143, A.144 Chain C: W.237, A.238, G.243, M.244, L.245 8 PLIP interactions: 2 interactions with chain C, 6 interactions with chain A Hydrogen bonds: C:L.245, A:W.142, A:A.144 Water bridges: C:R.215, A:R.137, A:R.137, A:W.142 Salt bridges: A:R.137 SO4.8: 3 residues within 4Å: Chain A: R.54, V.94, K.168 4 PLIP interactions: 4 interactions with chain A Water bridges: A:K.168, A:K.168 Salt bridges: A:R.54, A:K.168 SO4.18: 4 residues within 4Å: Chain C: R.54, T.91, M.92, D.93 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:D.93 Water bridges: C:R.54, C:R.54 Salt bridges: C:R.54

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mielenbrink, S. et al., Effect of the axial ligand mutation on spectral and structural properties of Ssl1 laccase. To Be Published

Release Date

2021-04-28

Peptides

Copper oxidase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

B
BBB

C
CCC

Copper oxidase