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Chlorine in PDB 3x40: Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Chloride

Enzymatic activity of Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Chloride

All present enzymatic activity of Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Chloride:
1.4.3.21;

Protein crystallography data

The structure of Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Chloride, PDB code: 3x40 was solved by T.Okajima, S.Nakanishi, T.Murakawa, M.Kataoka, H.Hayashi, A.Hamaguchi, T.Nakai, Y.Kawano, H.Yamaguchi, K.Tanizawa, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 26.22 / 1.85
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 191.812, 63.020, 158.108, 90.00, 117.29, 90.00
R / Rfree (%) 21.2 / 26.4

Other elements in 3x40:

The structure of Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Chloride also contains other interesting chemical elements:

Copper (Cu) 2 atoms
Sodium (Na) 3 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Chloride (pdb code 3x40). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 5 binding sites of Chlorine where determined in the Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Chloride, PDB code: 3x40:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5;

Chlorine binding site 1 out of 5 in 3x40

Go back to Chlorine Binding Sites List in 3x40
Chlorine binding site 1 out of 5 in the Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Chloride


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Chloride within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl702

b:19.4
occ:1.00
 CU A:CU701 2.3 15.2 1.0
O A:HOH1370 2.4 20.0 1.0
O A:HOH824 2.9 21.0 1.0
NE2 A:HIS431 3.0 23.6 1.0
OX1 A:2TY382 3.2 14.5 1.0
CE1 A:HIS431 3.5 14.3 1.0
NE2 A:HIS433 3.6 24.4 1.0
CE1 A:HIS433 3.6 18.0 1.0
ND1 A:HIS592 3.6 20.7 1.0
CE A:MET602 3.7 14.9 1.0
CE1 A:HIS592 3.8 22.7 1.0
O A:HOH809 4.0 15.3 1.0
CD2 A:HIS431 4.0 21.1 1.0
CE1 A:2TY382 4.0 17.6 1.0
CD1 A:2TY382 4.1 14.5 1.0
CA A:VAL406 4.1 20.6 1.0
CG1 A:VAL406 4.3 19.2 1.0
SD A:MET602 4.4 33.8 1.0
N A:PHE407 4.5 15.7 1.0
CB A:VAL406 4.6 23.7 1.0
ND1 A:HIS431 4.6 17.3 1.0
ND2 A:ASN381 4.7 17.5 1.0
O A:VAL405 4.8 15.7 1.0
OH A:TYR284 4.8 14.8 1.0
O A:HOH820 4.9 15.2 1.0
CG A:HIS431 4.9 21.8 1.0
C A:VAL406 4.9 16.7 1.0
CG A:HIS592 4.9 25.4 1.0
CD2 A:HIS433 4.9 17.6 1.0
ND1 A:HIS433 4.9 20.6 1.0
N A:VAL406 5.0 15.8 1.0

Chlorine binding site 2 out of 5 in 3x40

Go back to Chlorine Binding Sites List in 3x40
Chlorine binding site 2 out of 5 in the Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Chloride


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Chloride within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl703

b:45.3
occ:1.00
 O A:HOH1150 2.3 45.4 1.0
NE2 A:HIS345 2.9 20.6 1.0
O A:HOH1347 3.0 34.1 1.0
OG A:SER374 3.0 18.8 1.0
CE2 A:TYR387 3.6 20.4 1.0
CD2 A:HIS345 3.8 23.3 1.0
SG A:CYS317 3.8 37.6 1.0
CE1 A:HIS345 3.9 18.0 1.0
O A:HOH971 3.9 31.9 1.0
CB A:SER374 3.9 16.9 1.0
CD2 A:TYR387 4.1 13.8 1.0
CG1 A:VAL372 4.4 19.6 1.0
CB A:CYS343 4.4 29.8 1.0
O A:ASP316 4.7 30.2 1.0
CZ A:TYR387 4.7 18.7 1.0
CB A:CYS317 4.9 31.7 1.0
CB A:VAL372 4.9 23.4 1.0
OH A:TYR387 4.9 25.7 1.0
CG A:HIS345 4.9 26.6 1.0
ND1 A:HIS345 4.9 27.6 1.0
SG A:CYS343 5.0 46.6 1.0

Chlorine binding site 3 out of 5 in 3x40

Go back to Chlorine Binding Sites List in 3x40
Chlorine binding site 3 out of 5 in the Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Chloride


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Chloride within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl702

b:22.1
occ:1.00
 CU B:CU701 2.2 13.7 1.0
O B:HOH1319 2.5 14.3 1.0
NE2 B:HIS431 3.0 12.2 1.0
O B:HOH1309 3.1 12.6 1.0
CE1 B:HIS431 3.3 18.8 1.0
OX1 B:2TY382 3.3 11.8 1.0
NE2 B:HIS433 3.4 15.5 1.0
CE B:MET602 3.5 11.6 1.0
ND1 B:HIS592 3.5 16.4 1.0
CE1 B:HIS433 3.6 13.2 1.0
CE1 B:HIS592 3.8 19.2 1.0
O B:HOH817 4.0 11.2 1.0
CE1 B:2TY382 4.1 20.3 1.0
CD2 B:HIS431 4.1 11.2 1.0
CD1 B:2TY382 4.2 11.5 1.0
CA B:VAL406 4.2 12.4 1.0
SD B:MET602 4.3 32.0 1.0
ND1 B:HIS431 4.4 11.7 1.0
CG1 B:VAL406 4.6 28.8 1.0
CG2 B:VAL406 4.6 15.6 1.0
N B:PHE407 4.6 12.7 1.0
ND2 B:ASN381 4.7 18.1 1.0
CB B:VAL406 4.7 20.2 1.0
CG B:HIS592 4.8 21.9 1.0
CD2 B:HIS433 4.8 21.7 1.0
OH B:TYR284 4.8 13.9 1.0
CG B:HIS431 4.9 13.6 1.0
O B:VAL405 4.9 15.5 1.0
ND1 B:HIS433 4.9 12.2 1.0
NE2 B:HIS592 5.0 19.8 1.0

Chlorine binding site 4 out of 5 in 3x40

Go back to Chlorine Binding Sites List in 3x40
Chlorine binding site 4 out of 5 in the Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Chloride


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Chloride within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl703

b:46.4
occ:1.00
 OG B:SER374 2.7 20.2 1.0
O B:HOH1204 3.1 27.5 1.0
CE2 B:TYR387 3.4 12.3 1.0
NE2 B:HIS345 3.4 24.2 1.0
O B:HOH1001 3.6 29.8 1.0
CB B:SER374 3.7 18.4 1.0
O B:HOH1353 3.8 42.3 1.0
CG1 B:VAL372 3.8 10.9 1.0
CD2 B:TYR387 3.8 10.6 1.0
O B:HOH1180 4.0 31.0 1.0
CD2 B:HIS345 4.1 21.7 1.0
O B:HOH1041 4.2 26.0 1.0
CB B:CYS343 4.4 21.3 1.0
CZ B:TYR387 4.5 13.9 1.0
SG B:CYS317 4.5 29.4 1.0
CE1 B:HIS345 4.5 28.9 1.0
OH B:TYR387 4.7 14.3 1.0
CB B:CYS317 4.8 29.5 1.0
O B:ASP316 4.8 28.2 1.0
CB B:VAL372 4.8 11.2 1.0
CA B:SER374 5.0 10.8 1.0

Chlorine binding site 5 out of 5 in 3x40

Go back to Chlorine Binding Sites List in 3x40
Chlorine binding site 5 out of 5 in the Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Chloride


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Chloride within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl704

b:58.6
occ:1.00
 O B:HOH1360 3.3 57.2 1.0
N B:ASP128 3.4 26.0 1.0
CA B:LEU127 3.9 23.2 1.0
O B:ASN126 3.9 22.4 1.0
CD B:LYS131 4.0 37.2 1.0
CB B:ASP128 4.0 36.9 1.0
C B:LEU127 4.1 29.9 1.0
O B:HOH1038 4.3 39.5 1.0
CA B:ASP128 4.3 30.3 1.0
CB B:LEU127 4.7 27.3 1.0
CD2 B:LEU127 4.7 20.5 1.0
C B:ASN126 4.8 33.0 1.0
CB B:LYS131 4.8 24.2 1.0
CG B:LYS131 4.9 29.2 1.0
N B:LEU127 4.9 22.9 1.0
O B:ASP128 4.9 23.2 1.0
CE B:LYS131 5.0 45.2 1.0
O B:HOH1457 5.0 44.8 1.0
CG1 B:VAL159 5.0 18.6 1.0

Reference:

T.Murakawa, A.Hamaguchi, S.Nakanishi, M.Kataoka, T.Nakai, Y.Kawano, H.Yamaguchi, H.Hayashi, K.Tanizawa, T.Okajima. Probing the Catalytic Mechanism of Copper Amine Oxidase From Arthrobacter Globiformis with Halide Ions J.Biol.Chem. 2015.
ISSN: ESSN 1083-351X
DOI: 10.1074/JBC.M115.662726
Page generated: Sun Jul 21 07:55:39 2024

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