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Calcium in PDB 1jrq: X-Ray Structure Analysis of the Role of the Conserved Tyrosine-369 in Active Site of E. Coli Amine Oxidase

Enzymatic activity of X-Ray Structure Analysis of the Role of the Conserved Tyrosine-369 in Active Site of E. Coli Amine Oxidase

All present enzymatic activity of X-Ray Structure Analysis of the Role of the Conserved Tyrosine-369 in Active Site of E. Coli Amine Oxidase:
1.4.3.4;

Protein crystallography data

The structure of X-Ray Structure Analysis of the Role of the Conserved Tyrosine-369 in Active Site of E. Coli Amine Oxidase, PDB code: 1jrq was solved by J.M.Murray, C.R.Kurtis, W.Tambarajah, C.G.Saysell, C.M.Wilmot, M.R.Parsons, S.E.V.Phillips, P.F.Knowles, M.J.Mcpherson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.15
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 134.540, 166.450, 79.380, 90.00, 90.00, 90.00
R / Rfree (%) 19.5 / 23.5

Other elements in 1jrq:

The structure of X-Ray Structure Analysis of the Role of the Conserved Tyrosine-369 in Active Site of E. Coli Amine Oxidase also contains other interesting chemical elements:

Copper (Cu) 2 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the X-Ray Structure Analysis of the Role of the Conserved Tyrosine-369 in Active Site of E. Coli Amine Oxidase (pdb code 1jrq). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the X-Ray Structure Analysis of the Role of the Conserved Tyrosine-369 in Active Site of E. Coli Amine Oxidase, PDB code: 1jrq:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in 1jrq

Go back to Calcium Binding Sites List in 1jrq
Calcium binding site 1 out of 4 in the X-Ray Structure Analysis of the Role of the Conserved Tyrosine-369 in Active Site of E. Coli Amine Oxidase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of X-Ray Structure Analysis of the Role of the Conserved Tyrosine-369 in Active Site of E. Coli Amine Oxidase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca802

b:26.4
occ:1.00
 O A:ALA679 2.4 18.1 1.0
OD1 A:ASP535 2.4 18.8 1.0
OD1 A:ASP533 2.4 26.7 1.0
OD1 A:ASP678 2.4 26.0 1.0
O A:LEU534 2.5 24.4 1.0
O A:HOH948 2.6 15.3 1.0
C A:LEU534 3.4 22.2 1.0
C A:ALA679 3.5 20.6 1.0
CG A:ASP535 3.6 21.1 1.0
NZ A:LYS133 3.6 22.6 1.0
CG A:ASP678 3.6 29.3 1.0
CG A:ASP533 3.6 26.0 1.0
N A:ALA679 3.6 22.8 1.0
C A:ASP533 4.0 22.1 1.0
CA A:ASP535 4.1 22.0 1.0
N A:LEU534 4.1 23.5 1.0
N A:ASP535 4.1 21.4 1.0
CA A:ALA679 4.1 21.2 1.0
C A:ASP678 4.1 23.6 1.0
O A:ASP533 4.2 20.1 1.0
OD2 A:ASP533 4.2 26.4 1.0
OD2 A:ASP678 4.3 29.8 1.0
CA A:ASP678 4.4 24.9 1.0
CB A:ASP535 4.4 21.1 1.0
CA A:LEU534 4.4 23.2 1.0
CA A:ASP533 4.4 22.0 1.0
OD2 A:ASP535 4.4 20.6 1.0
O A:GLU539 4.5 26.6 1.0
N A:VAL680 4.6 18.2 1.0
CB A:ASP678 4.6 27.3 1.0
CB A:ASP533 4.6 23.4 1.0
ND2 A:ASN541 4.7 19.6 1.0
O A:ASP678 4.8 23.9 1.0
CA A:VAL680 4.8 21.9 1.0
CG2 A:VAL680 4.9 22.1 1.0
CE A:LYS133 4.9 23.9 1.0
CB A:ALA679 4.9 19.8 1.0

Calcium binding site 2 out of 4 in 1jrq

Go back to Calcium Binding Sites List in 1jrq
Calcium binding site 2 out of 4 in the X-Ray Structure Analysis of the Role of the Conserved Tyrosine-369 in Active Site of E. Coli Amine Oxidase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of X-Ray Structure Analysis of the Role of the Conserved Tyrosine-369 in Active Site of E. Coli Amine Oxidase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca803

b:54.8
occ:1.00
 O A:TYR667 2.5 28.2 1.0
OE2 A:GLU573 2.6 28.5 1.0
O A:HOH974 2.6 28.7 1.0
OE1 A:GLU672 2.7 39.8 1.0
O A:HOH979 2.8 30.7 1.0
O A:HOH1523 2.8 35.2 1.0
OE1 A:GLU573 3.1 25.9 1.0
CD A:GLU573 3.2 30.4 1.0
CD A:GLU672 3.7 41.1 1.0
C A:TYR667 3.7 27.3 1.0
CE1 A:HIS644 3.8 49.6 1.0
CG A:GLU672 4.0 40.2 1.0
O A:HOH1033 4.0 47.4 1.0
ND1 A:HIS644 4.0 48.8 1.0
OE1 A:GLU647 4.3 26.1 1.0
N A:ARG642 4.3 25.5 1.0
CB A:ARG642 4.4 31.8 1.0
CA A:TYR667 4.6 27.6 1.0
CB A:GLU672 4.6 35.8 1.0
OE2 A:GLU647 4.6 28.6 1.0
CB A:THR641 4.6 24.6 1.0
N A:SER668 4.6 29.2 1.0
CG A:ARG642 4.7 33.5 1.0
CG A:GLU573 4.7 28.8 1.0
CA A:SER668 4.7 30.4 1.0
O A:ARG642 4.8 25.7 1.0
OE2 A:GLU672 4.8 42.2 1.0
CD A:GLU647 4.9 28.0 1.0
CA A:ARG642 5.0 27.8 1.0

Calcium binding site 3 out of 4 in 1jrq

Go back to Calcium Binding Sites List in 1jrq
Calcium binding site 3 out of 4 in the X-Ray Structure Analysis of the Role of the Conserved Tyrosine-369 in Active Site of E. Coli Amine Oxidase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of X-Ray Structure Analysis of the Role of the Conserved Tyrosine-369 in Active Site of E. Coli Amine Oxidase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca802

b:29.6
occ:1.00
 OD1 B:ASP535 2.4 28.6 1.0
OD1 B:ASP533 2.4 20.6 1.0
O B:ALA679 2.4 28.7 1.0
OD1 B:ASP678 2.5 27.2 1.0
O B:LEU534 2.5 26.1 1.0
O B:HOH981 2.7 25.3 1.0
C B:ALA679 3.4 28.2 1.0
C B:LEU534 3.5 28.0 1.0
N B:ALA679 3.5 27.9 1.0
CG B:ASP533 3.6 23.2 1.0
CG B:ASP535 3.6 27.6 1.0
CG B:ASP678 3.7 30.5 1.0
NZ B:LYS133 3.7 23.1 1.0
CA B:ALA679 4.0 26.9 1.0
C B:ASP678 4.0 28.2 1.0
C B:ASP533 4.1 24.7 1.0
CA B:ASP535 4.1 27.3 1.0
N B:ASP535 4.1 27.3 1.0
N B:LEU534 4.2 26.4 1.0
OD2 B:ASP533 4.2 22.2 1.0
O B:ASP533 4.3 24.5 1.0
CA B:ASP678 4.3 28.6 1.0
OD2 B:ASP678 4.4 30.4 1.0
OD2 B:ASP535 4.4 28.4 1.0
O B:GLU539 4.4 31.8 1.0
CB B:ASP535 4.4 27.4 1.0
CA B:LEU534 4.5 25.6 1.0
CA B:ASP533 4.5 23.9 1.0
N B:VAL680 4.6 28.7 1.0
CB B:ASP678 4.6 29.1 1.0
ND2 B:ASN541 4.7 28.1 1.0
CB B:ASP533 4.7 23.0 1.0
CG2 B:VAL680 4.8 24.3 1.0
O B:ASP678 4.8 28.3 1.0
CB B:ALA679 4.8 27.2 1.0
CA B:VAL680 4.9 24.8 1.0
CE B:LYS133 5.0 27.0 1.0

Calcium binding site 4 out of 4 in 1jrq

Go back to Calcium Binding Sites List in 1jrq
Calcium binding site 4 out of 4 in the X-Ray Structure Analysis of the Role of the Conserved Tyrosine-369 in Active Site of E. Coli Amine Oxidase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of X-Ray Structure Analysis of the Role of the Conserved Tyrosine-369 in Active Site of E. Coli Amine Oxidase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca803

b:54.5
occ:1.00
 O B:TYR667 2.5 28.8 1.0
O B:HOH1007 2.7 35.7 1.0
OE2 B:GLU573 2.7 29.1 1.0
OE2 B:GLU672 2.7 48.8 1.0
O B:HOH1012 2.9 35.5 1.0
OE1 B:GLU573 3.0 32.0 1.0
CD B:GLU573 3.2 33.8 1.0
CD B:GLU672 3.5 48.8 1.0
CG B:GLU672 3.6 45.6 1.0
O B:HOH1064 3.7 44.1 1.0
C B:TYR667 3.8 29.7 1.0
NE2 B:HIS644 4.2 53.6 1.0
CD2 B:HIS644 4.3 52.6 1.0
CB B:GLU672 4.4 40.6 1.0
OE1 B:GLU647 4.5 35.5 1.0
N B:ARG642 4.5 29.7 1.0
CB B:ARG642 4.6 32.1 1.0
CA B:TYR667 4.6 30.6 1.0
CA B:SER668 4.6 32.4 1.0
N B:SER668 4.7 31.2 1.0
OE1 B:GLU672 4.7 50.3 1.0
CG B:GLU573 4.7 31.6 1.0
OE2 B:GLU647 4.8 37.1 1.0
CB B:THR641 4.9 28.9 1.0
O B:ARG642 5.0 28.8 1.0

Reference:

J.M.Murray, C.R.Kurtis, W.Tambyrajah, C.G.Saysell, C.M.Wilmot, M.R.Parsons, S.E.Phillips, P.F.Knowles, M.J.Mcpherson. Conserved Tyrosine-369 in the Active Site of Escherichia Coli Copper Amine Oxidase Is Not Essential. Biochemistry V. 40 12808 2001.
ISSN: ISSN 0006-2960
PubMed: 11669617
DOI: 10.1021/BI011187P
Page generated: Thu Jul 11 10:52:39 2024

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