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Bromine in PDB 3x41: Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Bromide

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

All present enzymatic activity of Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Bromide:
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 Bromide, PDB code: 3x41 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) 31.88 / 1.87
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 191.619, 63.290, 157.851, 90.00, 117.21, 90.00
R / Rfree (%) 15.1 / 18

Other elements in 3x41:

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

Potassium (K) 2 atoms
Copper (Cu) 2 atoms
Sodium (Na) 2 atoms

Bromine Binding Sites:

The binding sites of Bromine atom in the Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Bromide (pdb code 3x41). This binding sites where shown within 5.0 Angstroms radius around Bromine atom.
In total 8 binding sites of Bromine where determined in the Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Bromide, PDB code: 3x41:
Jump to Bromine binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Bromine binding site 1 out of 8 in 3x41

Go back to Bromine Binding Sites List in 3x41
Bromine binding site 1 out of 8 in the Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Bromide


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 1 of Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Bromide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Br702

b:23.4
occ:1.00
 CU A:CU701 2.5 14.7 1.0
OX1 A:2TY382 3.1 17.1 1.0
O A:HOH814 3.2 15.3 1.0
NE2 A:HIS431 3.4 16.2 1.0
CE A:MET602 3.5 36.8 1.0
O A:HOH1154 3.5 36.6 1.0
NE2 A:HIS433 3.6 15.6 1.0
ND1 A:HIS592 3.7 14.2 1.0
CE1 A:HIS433 3.8 17.5 1.0
CE1 A:HIS592 3.8 17.3 1.0
CE1 A:HIS431 3.8 16.6 1.0
CA A:VAL406 4.0 17.2 1.0
O A:HOH834 4.0 17.9 1.0
CD1 A:2TY382 4.1 16.2 1.0
CE1 A:2TY382 4.1 14.5 1.0
SD A:MET602 4.2 35.4 1.0
CG1 A:VAL406 4.4 20.2 1.0
CB A:VAL406 4.4 21.9 1.0
CD2 A:HIS431 4.4 13.7 1.0
N A:PHE407 4.5 14.1 1.0
ND2 A:ASN381 4.5 15.3 1.0
O A:VAL405 4.6 17.9 1.0
N A:VAL406 4.7 14.0 1.0
C A:VAL406 4.8 16.9 1.0
CD2 A:HIS433 4.9 15.9 1.0
C A:VAL405 5.0 17.2 1.0
ND1 A:HIS431 5.0 14.0 1.0
CG A:HIS592 5.0 15.2 1.0

Bromine binding site 2 out of 8 in 3x41

Go back to Bromine Binding Sites List in 3x41
Bromine binding site 2 out of 8 in the Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Bromide


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 2 of Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Bromide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Br703

b:59.7
occ:1.00
 NE2 A:HIS345 3.1 27.3 1.0
O A:HOH1188 3.2 43.7 1.0
OG A:SER374 3.2 18.5 1.0
O A:HOH1169 3.3 34.3 1.0
O A:HOH898 3.6 26.2 1.0
CE2 A:TYR387 3.7 17.4 1.0
CD2 A:HIS345 3.7 24.3 1.0
O A:HOH1301 3.8 28.1 1.0
SG A:CYS317 4.0 30.1 1.0
CG1 A:VAL372 4.0 14.8 1.0
CB A:SER374 4.2 13.8 1.0
CE1 A:HIS345 4.2 29.0 1.0
CD2 A:TYR387 4.3 14.0 1.0
CB A:CYS343 4.4 20.4 1.0
O A:ASP316 4.6 25.7 1.0
CB A:CYS317 4.6 29.6 1.0
CA A:CYS317 4.8 26.2 1.0
CZ A:TYR387 4.8 16.4 1.0
OH A:TYR387 4.9 17.7 1.0
CB A:VAL372 5.0 15.3 1.0
CG A:HIS345 5.0 22.9 1.0

Bromine binding site 3 out of 8 in 3x41

Go back to Bromine Binding Sites List in 3x41
Bromine binding site 3 out of 8 in the Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Bromide


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 3 of Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Bromide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Br704

b:63.1
occ:1.00
 N A:GLU36 3.3 26.8 1.0
CB A:GLU36 3.5 31.7 1.0
O A:HOH1137 3.5 44.2 1.0
CA A:GLY34 3.6 26.5 1.0
C A:GLY34 3.6 26.5 1.0
N A:PRO35 3.7 26.7 1.0
CD A:PRO35 3.7 27.5 1.0
CG A:GLU36 3.7 41.0 1.0
CA A:GLU36 3.9 28.9 1.0
O A:HOH1045 4.0 32.0 1.0
O A:GLY34 4.2 25.5 1.0
CG A:PRO35 4.2 29.5 1.0
N A:GLY34 4.3 22.9 1.0
CG A:LYS37 4.3 23.9 1.0
C A:PRO35 4.3 27.2 1.0
N A:LYS37 4.4 21.4 1.0
C A:GLU36 4.4 20.9 1.0
CA A:PRO35 4.5 27.6 1.0
CD A:LYS37 4.5 25.4 1.0
CE A:LYS37 4.6 32.8 1.0
OD2 A:ASP66 4.7 29.9 1.0
NZ A:LYS37 4.9 36.1 1.0

Bromine binding site 4 out of 8 in 3x41

Go back to Bromine Binding Sites List in 3x41
Bromine binding site 4 out of 8 in the Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Bromide


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 4 of Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Bromide within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Br702

b:22.3
occ:1.00
 CU B:CU701 2.5 14.0 1.0
OX1 B:2TY382 3.1 12.4 1.0
O B:HOH822 3.1 12.1 1.0
CE B:MET602 3.3 35.9 1.0
NE2 B:HIS431 3.4 15.2 1.0
O B:HOH1149 3.5 38.4 1.0
NE2 B:HIS433 3.6 12.2 1.0
ND1 B:HIS592 3.7 13.0 1.0
CE1 B:HIS433 3.8 13.2 1.0
CE1 B:HIS431 3.9 12.3 1.0
CE1 B:HIS592 3.9 17.1 1.0
O B:HOH873 4.0 16.0 1.0
CA B:VAL406 4.0 13.9 0.6
CA B:VAL406 4.1 13.9 0.4
CD1 B:2TY382 4.1 10.9 1.0
CE1 B:2TY382 4.1 12.3 1.0
CG1 B:VAL406 4.2 14.1 0.6
CG2 B:VAL406 4.2 14.4 0.4
SD B:MET602 4.2 35.3 1.0
CB B:VAL406 4.4 14.6 0.6
CD2 B:HIS431 4.5 14.5 1.0
N B:PHE407 4.5 13.7 1.0
CB B:VAL406 4.6 14.4 0.4
ND2 B:ASN381 4.6 12.6 1.0
O B:VAL405 4.6 14.1 1.0
CG1 B:VAL406 4.7 12.7 0.4
N B:VAL406 4.8 15.0 0.6
N B:VAL406 4.8 14.6 0.4
C B:VAL406 4.8 13.8 0.6
C B:VAL406 4.9 13.6 0.4
CD2 B:HIS433 4.9 12.7 1.0
OH B:TYR284 5.0 13.9 1.0
C B:VAL405 5.0 13.4 1.0
ND1 B:HIS431 5.0 14.0 1.0

Bromine binding site 5 out of 8 in 3x41

Go back to Bromine Binding Sites List in 3x41
Bromine binding site 5 out of 8 in the Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Bromide


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 5 of Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Bromide within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Br703

b:28.5
occ:1.00
 OG B:SER529 3.3 15.8 1.0
NH1 B:ARG532 3.5 22.9 1.0
NE B:ARG532 3.5 20.8 1.0
CA B:SER562 3.7 17.1 1.0
CB B:SER562 3.7 20.4 1.0
CZ B:ARG532 3.9 25.1 1.0
N B:GLY563 4.0 15.2 1.0
CB B:SER529 4.0 11.9 1.0
CG B:ARG533 4.0 11.4 1.0
CA B:SER529 4.1 14.2 1.0
CD B:ARG533 4.2 13.0 1.0
CB B:VAL141 4.3 18.0 1.0
O B:HOH946 4.3 23.3 1.0
O B:SER529 4.3 13.5 1.0
C B:SER562 4.3 15.2 1.0
CG1 B:VAL141 4.4 22.0 1.0
O B:VAL141 4.6 19.3 1.0
CD B:ARG532 4.7 19.1 1.0
CB B:ARG532 4.7 12.4 1.0
C B:SER529 4.7 15.9 1.0
N B:SER562 4.9 15.0 1.0
CG2 B:VAL141 4.9 17.9 1.0

Bromine binding site 6 out of 8 in 3x41

Go back to Bromine Binding Sites List in 3x41
Bromine binding site 6 out of 8 in the Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Bromide


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 6 of Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Bromide within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Br704

b:60.0
occ:1.00
 CE1 B:HIS345 3.1 23.2 1.0
O B:HOH962 3.1 29.1 1.0
OG B:SER374 3.2 17.0 1.0
O B:HOH1224 3.4 40.5 1.0
O B:HOH1101 3.4 38.7 1.0
O B:HOH1015 3.6 26.2 1.0
O B:HOH976 3.7 30.6 1.0
ND1 B:HIS345 3.8 24.2 1.0
CE2 B:TYR387 3.8 15.0 1.0
NE2 B:HIS345 4.1 27.6 1.0
SG B:CYS317 4.1 27.5 1.0
CG1 B:VAL372 4.1 13.7 1.0
CB B:SER374 4.2 13.9 1.0
CD2 B:TYR387 4.4 14.1 1.0
CB B:CYS343 4.4 24.8 1.0
O B:ASP316 4.6 26.4 1.0
CB B:CYS317 4.6 28.8 1.0
CA B:CYS317 4.7 24.2 1.0
CZ B:TYR387 4.9 13.6 1.0
CB B:VAL372 5.0 14.8 1.0
OH B:TYR387 5.0 17.2 1.0

Bromine binding site 7 out of 8 in 3x41

Go back to Bromine Binding Sites List in 3x41
Bromine binding site 7 out of 8 in the Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Bromide


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 7 of Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Bromide within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Br705

b:67.0
occ:1.00
 N B:ASP128 3.3 25.3 1.0
CA B:LEU127 3.8 24.4 1.0
CB B:ASP128 4.0 31.1 1.0
CD2 B:LEU127 4.0 23.3 1.0
C B:LEU127 4.0 24.5 1.0
CG1 B:VAL159 4.1 21.5 1.0
CD B:LYS131 4.1 38.7 1.0
CA B:ASP128 4.2 26.8 1.0
CB B:LEU127 4.3 24.5 1.0
O B:ASN126 4.4 26.7 1.0
CB B:LYS131 4.5 24.5 1.0
O B:ASP128 4.5 23.6 1.0
O B:HOH1259 4.6 47.1 0.5
CG B:LYS131 4.7 32.9 1.0
C1 B:GOL712 4.8 53.0 1.0
CG B:LEU127 4.8 22.9 1.0
C B:ASP128 4.9 24.8 1.0
N B:LEU127 4.9 25.3 1.0

Bromine binding site 8 out of 8 in 3x41

Go back to Bromine Binding Sites List in 3x41
Bromine binding site 8 out of 8 in the Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Bromide


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 8 of Copper Amine Oxidase From Arthrobacter Globiformis: Product Schiff- Base Form Produced By Anaerobic Reduction in the Presence of Sodium Bromide within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Br706

b:59.7
occ:1.00
 N B:GLU36 3.2 16.5 1.0
CB B:GLU36 3.3 22.2 1.0
CG B:GLU36 3.5 33.6 1.0
C B:GLY34 3.5 17.6 1.0
CA B:GLY34 3.5 16.9 1.0
N B:PRO35 3.6 18.2 1.0
CD B:PRO35 3.7 17.6 1.0
CA B:GLU36 3.7 17.1 1.0
O B:HOH1037 3.8 27.5 1.0
O B:GLY34 4.0 16.4 1.0
CG B:LYS37 4.1 15.1 1.0
N B:GLY34 4.1 16.6 1.0
N B:LYS37 4.2 15.1 1.0
O B:HOH1132 4.3 45.0 1.0
C B:PRO35 4.3 18.6 1.0
CE B:LYS37 4.3 22.8 1.0
C B:GLU36 4.3 16.6 1.0
CG B:PRO35 4.4 23.5 1.0
CA B:PRO35 4.5 18.9 1.0
CD B:LYS37 4.6 17.8 1.0
CD B:GLU36 4.9 47.1 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: Wed Jul 10 20:42:09 2024

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