Copper in PDB 6t5z: Crystal Structure of An AA10 Lpmo From Photorhabdus Luminescens

The structure of Crystal Structure of An AA10 Lpmo From Photorhabdus Luminescens, PDB code: 6t5z was solved by A.Munzone, B.El Kerdi, M.Reglier, A.Royant, A.J.Simaan, C.Decroos, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	58.55 / 1.60
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	76.530, 80.390, 90.910, 90.00, 90.00, 90.00
R / Rfree (%)	18.8 / 21.8

The binding sites of Copper atom in the Crystal Structure of An AA10 Lpmo From Photorhabdus Luminescens (pdb code 6t5z). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 6 binding sites of Copper where determined in the Crystal Structure of An AA10 Lpmo From Photorhabdus Luminescens, PDB code: 6t5z:
Jump to Copper binding site number: 1; 2; 3; 4; 5; 6;

Copper binding site 1 out of 6 in the Crystal Structure of An AA10 Lpmo From Photorhabdus Luminescens


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Crystal Structure of An AA10 Lpmo From Photorhabdus Luminescens within 5.0Å range: probe atom residue distance (Å) B Occ A:Cu400 b:16.7 occ:1.00 NE2 A:HIS115 2.0 15.6 1.0 ND1 A:HIS26 2.0 19.5 1.0 N A:HIS26 2.1 14.5 1.0 O A:HOH654 2.3 16.5 0.4 O A:HOH575 2.4 22.7 0.4 CG A:HIS26 2.9 19.2 1.0 CD2 A:HIS115 3.0 15.1 1.0 CE1 A:HIS115 3.0 17.3 1.0 CE1 A:HIS26 3.1 19.4 1.0 CA A:HIS26 3.1 14.0 1.0 CB A:HIS26 3.2 19.1 1.0 CZ A:PHE188 3.6 16.5 1.0 CB A:ILE113 3.9 18.9 1.0 O A:HOH736 4.0 49.1 1.0 ND1 A:HIS115 4.1 16.9 1.0 CD2 A:HIS26 4.1 17.9 1.0 CG A:HIS115 4.1 15.4 1.0 CE1 A:PHE188 4.1 15.1 1.0 NE2 A:HIS26 4.1 19.4 1.0 O A:ILE113 4.1 18.1 1.0 CG2 A:ILE113 4.2 20.3 1.0 O A:HOH695 4.3 20.3 1.0 O A:HOH702 4.4 39.9 1.0 CE2 A:PHE188 4.5 17.4 1.0 C A:HIS26 4.5 14.1 1.0 CD1 A:ILE113 4.5 26.7 1.0 CG1 A:ILE113 4.7 24.6 1.0 O A:HIS26 4.8 15.3 1.0 C A:ILE113 4.8 16.4 1.0 CA A:ILE113 4.9 18.8 1.0

Copper binding site 2 out of 6 in the Crystal Structure of An AA10 Lpmo From Photorhabdus Luminescens


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Crystal Structure of An AA10 Lpmo From Photorhabdus Luminescens within 5.0Å range: probe atom residue distance (Å) B Occ A:Cu401 b:30.4 occ:1.00 ND1 A:HIS83 2.1 15.5 1.0 CG A:HIS83 3.0 15.1 1.0 CE1 A:HIS83 3.2 16.7 1.0 CB A:HIS83 3.2 15.4 1.0 CD2 A:HIS83 4.2 15.4 1.0 NE2 A:HIS83 4.2 16.9 1.0 O A:HOH683 4.3 19.9 1.0 CA A:HIS83 4.7 15.5 1.0 CD2 A:LEU52 4.8 14.1 1.0

Copper binding site 3 out of 6 in the Crystal Structure of An AA10 Lpmo From Photorhabdus Luminescens


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 3 of Crystal Structure of An AA10 Lpmo From Photorhabdus Luminescens within 5.0Å range: probe atom residue distance (Å) B Occ B:Cu400 b:16.5 occ:1.00 NE2 B:HIS115 2.0 17.9 1.0 ND1 B:HIS26 2.1 15.2 1.0 N B:HIS26 2.2 14.9 1.0 CE1 B:HIS115 3.0 19.1 1.0 CD2 B:HIS115 3.0 15.9 1.0 CG B:HIS26 3.0 15.9 1.0 CE1 B:HIS26 3.1 19.5 1.0 CA B:HIS26 3.2 15.2 1.0 CB B:HIS26 3.3 14.6 1.0 CZ B:PHE188 3.6 18.1 1.0 CB B:ILE113 3.9 19.4 1.0 O B:ILE113 4.0 17.3 1.0 ND1 B:HIS115 4.1 21.2 1.0 CG B:HIS115 4.1 19.0 1.0 CG2 B:ILE113 4.2 21.4 1.0 CD2 B:HIS26 4.2 18.5 1.0 NE2 B:HIS26 4.2 15.0 1.0 CE1 B:PHE188 4.2 19.2 1.0 CD1 B:ILE113 4.4 30.9 1.0 CE2 B:PHE188 4.4 17.2 1.0 O B:HOH655 4.4 30.2 1.0 C B:HIS26 4.5 16.8 1.0 CG1 B:ILE113 4.6 27.1 1.0 C B:ILE113 4.7 18.2 1.0 O B:HIS26 4.8 17.4 1.0 CA B:ILE113 4.9 19.3 1.0

Copper binding site 4 out of 6 in the Crystal Structure of An AA10 Lpmo From Photorhabdus Luminescens


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 4 of Crystal Structure of An AA10 Lpmo From Photorhabdus Luminescens within 5.0Å range: probe atom residue distance (Å) B Occ C:Cu400 b:17.3 occ:1.00 ND1 C:HIS26 2.0 20.4 1.0 NE2 C:HIS115 2.0 22.2 1.0 N C:HIS26 2.3 15.7 1.0 CG C:HIS26 2.9 20.1 1.0 CE1 C:HIS115 3.0 21.8 1.0 CE1 C:HIS26 3.0 21.9 1.0 CD2 C:HIS115 3.0 18.9 1.0 CA C:HIS26 3.2 18.0 1.0 CB C:HIS26 3.2 18.0 1.0 CZ C:PHE188 3.4 18.1 1.0 CB C:ILE113 3.8 21.4 1.0 CG2 C:ILE113 4.0 21.2 1.0 NE2 C:HIS26 4.1 20.4 1.0 CD2 C:HIS26 4.1 20.5 1.0 ND1 C:HIS115 4.1 21.4 1.0 CE1 C:PHE188 4.1 17.8 1.0 O C:ILE113 4.1 19.4 1.0 CG C:HIS115 4.1 17.4 1.0 CE2 C:PHE188 4.2 16.7 1.0 CD1 C:ILE113 4.5 25.8 1.0 CG1 C:ILE113 4.5 25.3 1.0 O C:HOH679 4.5 10.6 0.5 C C:HIS26 4.5 16.5 1.0 C C:ILE113 4.7 19.8 1.0 CA C:ILE113 4.8 21.1 1.0 O C:HIS26 5.0 15.4 1.0

Copper binding site 5 out of 6 in the Crystal Structure of An AA10 Lpmo From Photorhabdus Luminescens


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 5 of Crystal Structure of An AA10 Lpmo From Photorhabdus Luminescens within 5.0Å range: probe atom residue distance (Å) B Occ C:Cu401 b:42.7 occ:0.50 O C:HOH664 2.2 30.8 0.6 NE2 C:HIS83 2.2 24.7 0.5 O C:HOH621 2.3 40.0 1.0 O C:HOH669 2.7 44.3 1.0 CD2 C:HIS83 3.1 24.9 0.5 CE1 C:HIS83 3.3 25.2 0.5 O C:HOH603 4.2 26.3 1.0 CG C:HIS83 4.3 23.4 0.5 ND1 C:HIS83 4.3 23.3 0.5

Copper binding site 6 out of 6 in the Crystal Structure of An AA10 Lpmo From Photorhabdus Luminescens


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 6 of Crystal Structure of An AA10 Lpmo From Photorhabdus Luminescens within 5.0Å range: probe atom residue distance (Å) B Occ C:Cu402 b:41.0 occ:0.50 OE2 C:GLU167 2.4 51.2 1.0 CD C:GLU167 3.4 49.6 1.0 O C:HOH513 3.4 34.7 1.0 OE1 C:GLU167 3.8 52.9 1.0 OE2 A:GLU45 4.4 40.5 1.0 O A:HOH516 4.4 40.1 1.0 CG C:GLU167 4.7 40.9 1.0 O A:HOH644 4.8 44.0 1.0 OE1 A:GLU45 4.8 41.6 1.0

A.Munzone, B.El Kerdi, M.Fanuel, H.Rogniaux, D.Ropartz, M.Reglier, A.Royant, A.J.Simaan, C.Decroos. Characterization of A Bacterial Copper-Dependent Lytic Polysaccharide Monooxygenase with An Unusual Second Coordination Sphere. Febs J. 2020.
ISSN: ISSN 1742-464X
PubMed: 31903721
DOI: 10.1111/FEBS.15203