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Copper in PDB 3aw5: Structure of A Multicopper Oxidase From the Hyperthermophilic Archaeon Pyrobaculum Aerophilum

Enzymatic activity of Structure of A Multicopper Oxidase From the Hyperthermophilic Archaeon Pyrobaculum Aerophilum

All present enzymatic activity of Structure of A Multicopper Oxidase From the Hyperthermophilic Archaeon Pyrobaculum Aerophilum:
1.10.3.2;

Protein crystallography data

The structure of Structure of A Multicopper Oxidase From the Hyperthermophilic Archaeon Pyrobaculum Aerophilum, PDB code: 3aw5 was solved by H.Sakuraba, T.Ohshima, K.Yoneda, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 26.32 / 2.00
Space group I 41
Cell size a, b, c (Å), α, β, γ (°) 103.950, 103.950, 122.083, 90.00, 90.00, 90.00
R / Rfree (%) 20.2 / 22.4

Copper Binding Sites:

The binding sites of Copper atom in the Structure of A Multicopper Oxidase From the Hyperthermophilic Archaeon Pyrobaculum Aerophilum (pdb code 3aw5). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 4 binding sites of Copper where determined in the Structure of A Multicopper Oxidase From the Hyperthermophilic Archaeon Pyrobaculum Aerophilum, PDB code: 3aw5:
Jump to Copper binding site number: 1; 2; 3; 4;

Copper binding site 1 out of 4 in 3aw5

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Copper binding site 1 out of 4 in the Structure of A Multicopper Oxidase From the Hyperthermophilic Archaeon Pyrobaculum Aerophilum


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Structure of A Multicopper Oxidase From the Hyperthermophilic Archaeon Pyrobaculum Aerophilum within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu701

b:27.6
occ:1.00
 ND1 A:HIS391 2.1 21.2 1.0
ND1 A:HIS465 2.1 19.9 1.0
SG A:CYS460 2.2 22.6 1.0
CE1 A:HIS391 3.0 23.9 1.0
CE1 A:HIS465 3.0 20.9 1.0
CB A:CYS460 3.1 21.9 1.0
CG A:HIS391 3.1 23.6 1.0
CG A:HIS465 3.2 19.0 1.0
SD A:MET470 3.5 24.0 1.0
CB A:HIS391 3.5 18.9 1.0
CB A:HIS465 3.5 20.4 1.0
CB A:ASN462 3.8 17.5 1.0
CA A:HIS391 3.9 18.3 1.0
NE2 A:HIS391 4.1 24.5 1.0
NE2 A:HIS465 4.2 19.6 1.0
CE A:MET470 4.2 20.5 1.0
CD2 A:HIS391 4.2 24.1 1.0
CD2 A:HIS465 4.3 19.6 1.0
CD A:PRO392 4.5 20.6 1.0
CA A:CYS460 4.5 18.9 1.0
O A:PRO390 4.6 21.1 1.0
CG A:ASN462 4.6 20.1 1.0
ND2 A:ASN462 4.8 15.9 1.0
C A:HIS391 4.9 19.0 1.0
N A:ASN462 4.9 17.4 1.0
N A:PRO392 4.9 19.8 1.0
N A:HIS391 5.0 19.2 1.0

Copper binding site 2 out of 4 in 3aw5

Go back to Copper Binding Sites List in 3aw5
Copper binding site 2 out of 4 in the Structure of A Multicopper Oxidase From the Hyperthermophilic Archaeon Pyrobaculum Aerophilum


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Structure of A Multicopper Oxidase From the Hyperthermophilic Archaeon Pyrobaculum Aerophilum within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu703

b:40.9
occ:1.00
 NE2 A:HIS92 1.9 27.2 1.0
NE2 A:HIS394 1.9 22.4 1.0
CD2 A:HIS394 2.7 23.4 1.0
CD2 A:HIS92 2.8 26.4 1.0
CE1 A:HIS92 2.9 22.9 1.0
O A:HOH1017 2.9 23.7 1.0
CE1 A:HIS394 3.0 22.4 1.0
CD2 A:HIS396 3.2 21.5 1.0
NE2 A:HIS396 3.2 24.8 1.0
O1 A:C2O702 3.4 26.5 1.0
CU2 A:C2O702 3.5 37.2 1.0
ND1 A:HIS94 3.6 24.8 1.0
CG A:HIS396 3.7 22.2 1.0
CE1 A:HIS396 3.7 23.2 1.0
CA A:HIS94 3.8 22.1 1.0
CG A:HIS94 3.9 20.5 1.0
CG A:HIS394 3.9 21.8 1.0
CG A:HIS92 4.0 23.1 1.0
ND1 A:HIS92 4.0 26.6 1.0
ND1 A:HIS396 4.0 22.1 1.0
ND1 A:HIS394 4.0 19.3 1.0
CU3 A:C2O702 4.0 28.7 1.0
CE1 A:HIS94 4.0 16.8 1.0
N A:GLY95 4.1 22.1 1.0
CB A:HIS94 4.1 23.6 1.0
CD2 A:HIS94 4.5 18.9 1.0
C A:HIS94 4.5 22.7 1.0
CA A:HIS396 4.6 23.4 1.0
NE2 A:HIS94 4.6 20.5 1.0
CB A:HIS396 4.6 22.5 1.0
N A:HIS94 4.7 23.4 1.0
O A:HOH1068 4.9 28.9 1.0
NE2 A:HIS459 5.0 26.2 1.0
N A:HIS396 5.0 21.2 1.0

Copper binding site 3 out of 4 in 3aw5

Go back to Copper Binding Sites List in 3aw5
Copper binding site 3 out of 4 in the Structure of A Multicopper Oxidase From the Hyperthermophilic Archaeon Pyrobaculum Aerophilum


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 3 of Structure of A Multicopper Oxidase From the Hyperthermophilic Archaeon Pyrobaculum Aerophilum within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu702

b:37.2
occ:1.00
 CU2 A:C2O702 0.0 37.2 1.0
NE2 A:HIS134 2.1 32.2 1.0
O1 A:C2O702 2.2 26.5 1.0
NE2 A:HIS396 2.2 24.8 1.0
NE2 A:HIS459 2.2 26.2 1.0
CE1 A:HIS396 2.9 23.2 1.0
CD2 A:HIS134 3.0 27.3 1.0
CE1 A:HIS459 3.0 23.6 1.0
CE1 A:HIS134 3.2 28.2 1.0
CD2 A:HIS459 3.3 21.1 1.0
CD2 A:HIS396 3.3 21.5 1.0
CU A:CU703 3.5 40.9 1.0
CD2 A:HIS394 3.7 23.4 1.0
CD2 A:HIS92 3.8 26.4 1.0
NE2 A:HIS92 4.0 27.2 1.0
ND1 A:HIS396 4.1 22.1 1.0
CG A:HIS134 4.2 27.6 1.0
ND1 A:HIS459 4.2 22.6 1.0
NE2 A:HIS394 4.2 22.4 1.0
ND1 A:HIS134 4.3 32.0 1.0
CU3 A:C2O702 4.3 28.7 1.0
CG A:HIS396 4.3 22.2 1.0
CG A:HIS459 4.3 23.3 1.0
CG A:HIS92 4.6 23.1 1.0
OE1 A:GLU466 4.6 33.9 1.0
CE1 A:HIS132 4.7 19.6 1.0
CD2 A:HIS461 4.7 23.3 1.0
CE1 A:HIS92 4.8 22.9 1.0
NE2 A:HIS461 4.8 21.8 1.0
OE2 A:GLU466 4.8 37.0 1.0
CG A:HIS394 4.9 21.8 1.0
CD A:GLU466 5.0 32.5 1.0

Copper binding site 4 out of 4 in 3aw5

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Copper binding site 4 out of 4 in the Structure of A Multicopper Oxidase From the Hyperthermophilic Archaeon Pyrobaculum Aerophilum


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 4 of Structure of A Multicopper Oxidase From the Hyperthermophilic Archaeon Pyrobaculum Aerophilum within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu702

b:28.7
occ:1.00
 CU3 A:C2O702 0.0 28.7 1.0
NE2 A:HIS132 2.1 25.6 1.0
ND1 A:HIS94 2.2 24.8 1.0
O1 A:C2O702 2.2 26.5 1.0
NE2 A:HIS461 2.3 21.8 1.0
CE1 A:HIS132 3.0 19.6 1.0
CE1 A:HIS94 3.1 16.8 1.0
CD2 A:HIS132 3.1 21.7 1.0
CG A:HIS94 3.2 20.5 1.0
CD2 A:HIS461 3.2 23.3 1.0
CE1 A:HIS461 3.3 25.9 1.0
CB A:HIS94 3.5 23.6 1.0
CD2 A:HIS92 3.9 26.4 1.0
CU A:CU703 4.0 40.9 1.0
ND1 A:HIS132 4.1 25.0 1.0
NE2 A:HIS94 4.2 20.5 1.0
CG A:HIS132 4.2 20.7 1.0
CD2 A:HIS94 4.3 18.9 1.0
CU2 A:C2O702 4.3 37.2 1.0
CG A:HIS461 4.4 24.7 1.0
ND1 A:HIS461 4.4 21.4 1.0
NE2 A:HIS92 4.4 27.2 1.0
CD2 A:HIS394 4.5 23.4 1.0
NE2 A:HIS394 4.5 22.4 1.0
CB A:ALA269 4.5 22.2 1.0
CA A:HIS94 4.6 22.1 1.0
CD1 A:LEU130 4.7 29.4 1.0

Reference:

H.Sakuraba, K.Koga, K.Yoneda, Y.Kashima, T.Ohshima. Structure of A Multicopper Oxidase From the Hyperthermophilic Archaeon Pyrobaculum Aerophilum Acta Crystallogr.,Sect.F V. 67 753 2011.
ISSN: ESSN 1744-3091
PubMed: 21795787
DOI: 10.1107/S1744309111018173
Page generated: Wed Jul 31 00:39:54 2024

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