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Copper in PDB 1n9e: Crystal Structure of Pichia Pastoris Lysyl Oxidase Pplo

Enzymatic activity of Crystal Structure of Pichia Pastoris Lysyl Oxidase Pplo

All present enzymatic activity of Crystal Structure of Pichia Pastoris Lysyl Oxidase Pplo:
1.4.3.13;

Protein crystallography data

The structure of Crystal Structure of Pichia Pastoris Lysyl Oxidase Pplo, PDB code: 1n9e was solved by J.M.Guss, A.P.Duff, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 24.60 / 1.65
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 248.442, 121.125, 151.841, 90.00, 124.64, 90.00
R / Rfree (%) 16.1 / 18.7

Other elements in 1n9e:

The structure of Crystal Structure of Pichia Pastoris Lysyl Oxidase Pplo also contains other interesting chemical elements:

Calcium (Ca) 8 atoms

Copper Binding Sites:

The binding sites of Copper atom in the Crystal Structure of Pichia Pastoris Lysyl Oxidase Pplo (pdb code 1n9e). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 4 binding sites of Copper where determined in the Crystal Structure of Pichia Pastoris Lysyl Oxidase Pplo, PDB code: 1n9e:
Jump to Copper binding site number: 1; 2; 3; 4;

Copper binding site 1 out of 4 in 1n9e

Go back to Copper Binding Sites List in 1n9e
Copper binding site 1 out of 4 in the Crystal Structure of Pichia Pastoris Lysyl Oxidase Pplo


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 Pichia Pastoris Lysyl Oxidase Pplo within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu801

b:16.0
occ:1.00
NE2 A:HIS528 2.0 15.9 1.0
ND1 A:HIS694 2.0 12.6 1.0
NE2 A:HIS530 2.1 13.9 1.0
O4 A:TPQ478 2.1 23.2 1.0
C4 A:TPQ478 2.8 26.3 1.0
CE1 A:HIS528 2.9 20.6 1.0
CE1 A:HIS694 3.0 11.1 1.0
CD2 A:HIS530 3.0 13.8 1.0
CD2 A:HIS528 3.0 11.1 1.0
CG A:HIS694 3.1 10.8 1.0
CE1 A:HIS530 3.1 17.7 1.0
O5 A:TPQ478 3.1 47.0 1.0
C5 A:TPQ478 3.3 38.4 1.0
CB A:HIS694 3.4 8.8 1.0
C3 A:TPQ478 3.8 34.8 1.0
O A:HOH2287 4.0 17.4 1.0
ND1 A:HIS528 4.0 16.6 1.0
NE2 A:HIS694 4.1 11.2 1.0
CG A:HIS528 4.1 12.5 1.0
ND1 A:HIS530 4.2 15.6 1.0
CG A:HIS530 4.2 14.9 1.0
CD2 A:HIS694 4.2 12.5 1.0
C6 A:TPQ478 4.6 32.8 1.0
CA A:HIS694 4.9 10.2 1.0

Copper binding site 2 out of 4 in 1n9e

Go back to Copper Binding Sites List in 1n9e
Copper binding site 2 out of 4 in the Crystal Structure of Pichia Pastoris Lysyl Oxidase Pplo


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 Pichia Pastoris Lysyl Oxidase Pplo within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cu801

b:16.1
occ:1.00
NE2 B:HIS528 2.0 12.9 1.0
ND1 B:HIS694 2.0 12.5 1.0
NE2 B:HIS530 2.0 14.7 1.0
O4 B:TPQ478 2.1 19.2 1.0
C4 B:TPQ478 2.9 23.9 1.0
CE1 B:HIS528 2.9 14.7 1.0
CE1 B:HIS694 3.0 12.2 1.0
CD2 B:HIS530 3.0 14.1 1.0
CG B:HIS694 3.0 11.6 1.0
CE1 B:HIS530 3.0 14.0 1.0
CD2 B:HIS528 3.0 12.5 1.0
O5 B:TPQ478 3.1 45.1 1.0
C5 B:TPQ478 3.3 36.5 1.0
CB B:HIS694 3.4 10.0 1.0
C3 B:TPQ478 3.9 30.9 1.0
O B:HOH4287 4.0 18.2 1.0
ND1 B:HIS528 4.1 15.5 1.0
NE2 B:HIS694 4.1 12.6 1.0
ND1 B:HIS530 4.1 11.4 1.0
CD2 B:HIS694 4.1 12.3 1.0
CG B:HIS528 4.1 9.7 1.0
CG B:HIS530 4.2 9.6 1.0
C6 B:TPQ478 4.7 33.6 1.0
CA B:HIS694 4.9 12.1 1.0
O B:HOH4411 4.9 17.2 0.5

Copper binding site 3 out of 4 in 1n9e

Go back to Copper Binding Sites List in 1n9e
Copper binding site 3 out of 4 in the Crystal Structure of Pichia Pastoris Lysyl Oxidase Pplo


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 Pichia Pastoris Lysyl Oxidase Pplo within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cu801

b:16.4
occ:1.00
NE2 C:HIS528 2.0 13.5 1.0
ND1 C:HIS694 2.0 11.8 1.0
NE2 C:HIS530 2.0 13.1 1.0
O4 C:TPQ478 2.2 21.3 1.0
CE1 C:HIS528 2.9 15.3 1.0
C4 C:TPQ478 2.9 23.8 1.0
CD2 C:HIS530 3.0 14.3 1.0
CE1 C:HIS694 3.0 10.2 1.0
CD2 C:HIS528 3.0 12.2 1.0
CG C:HIS694 3.0 11.5 1.0
CE1 C:HIS530 3.1 16.3 1.0
O5 C:TPQ478 3.2 46.2 1.0
CB C:HIS694 3.4 10.1 1.0
C5 C:TPQ478 3.4 36.3 1.0
C3 C:TPQ478 4.0 33.0 1.0
O C:HOH6287 4.0 19.1 1.0
ND1 C:HIS528 4.0 14.7 1.0
NE2 C:HIS694 4.1 11.7 1.0
CG C:HIS528 4.1 11.7 1.0
CG C:HIS530 4.1 13.0 1.0
ND1 C:HIS530 4.1 12.0 1.0
CD2 C:HIS694 4.1 12.6 1.0
C6 C:TPQ478 4.8 34.1 1.0
CA C:HIS694 4.9 8.9 1.0

Copper binding site 4 out of 4 in 1n9e

Go back to Copper Binding Sites List in 1n9e
Copper binding site 4 out of 4 in the Crystal Structure of Pichia Pastoris Lysyl Oxidase Pplo


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 Pichia Pastoris Lysyl Oxidase Pplo within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cu801

b:17.3
occ:1.00
NE2 D:HIS528 2.0 13.3 1.0
NE2 D:HIS530 2.0 14.8 1.0
ND1 D:HIS694 2.0 13.3 1.0
O4 D:TPQ478 2.1 25.2 1.0
C4 D:TPQ478 2.9 28.0 1.0
CE1 D:HIS528 2.9 17.4 1.0
CD2 D:HIS530 2.9 16.1 1.0
CE1 D:HIS694 3.0 10.7 1.0
CE1 D:HIS530 3.0 16.6 1.0
CG D:HIS694 3.0 13.5 1.0
CD2 D:HIS528 3.0 10.9 1.0
O5 D:TPQ478 3.1 48.4 1.0
C5 D:TPQ478 3.3 37.5 1.0
CB D:HIS694 3.4 10.2 1.0
O D:HOH9298 3.5 36.4 1.0
C3 D:TPQ478 3.9 37.5 1.0
O D:HOH8287 3.9 20.6 1.0
ND1 D:HIS528 4.0 17.9 1.0
ND1 D:HIS530 4.1 14.3 1.0
CG D:HIS530 4.1 11.5 1.0
NE2 D:HIS694 4.1 12.3 1.0
CG D:HIS528 4.1 10.4 1.0
CD2 D:HIS694 4.1 14.2 1.0
C6 D:TPQ478 4.7 35.4 1.0
CA D:HIS694 4.9 11.2 1.0

Reference:

A.P.Duff, A.E.Cohen, P.J.Ellis, J.A.Kuchar, D.B.Langley, E.M.Shepard, D.M.Dooley, H.C.Freeman, J.M.Guss. The Crystal Structure of Pichia Pastoris Lysyl Oxidase Biochemistry V. 42 15148 2003.
ISSN: ISSN 0006-2960
PubMed: 14690425
DOI: 10.1021/BI035338V
Page generated: Wed Oct 28 14:16:10 2020
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