Atomistry » Calcium » PDB 1px7-1qcp » 1qaf
Atomistry »
  Calcium »
    PDB 1px7-1qcp »
      1qaf »

Calcium in PDB 1qaf: The Active Site Base Controls Cofactor Reactivity in Escherichia Coli Amine Oxidase : X-Ray Crystallographic Studies with Mutational Variants

Enzymatic activity of The Active Site Base Controls Cofactor Reactivity in Escherichia Coli Amine Oxidase : X-Ray Crystallographic Studies with Mutational Variants

All present enzymatic activity of The Active Site Base Controls Cofactor Reactivity in Escherichia Coli Amine Oxidase : X-Ray Crystallographic Studies with Mutational Variants:
1.4.3.4;

Protein crystallography data

The structure of The Active Site Base Controls Cofactor Reactivity in Escherichia Coli Amine Oxidase : X-Ray Crystallographic Studies with Mutational Variants, PDB code: 1qaf was solved by J.M.Murray, C.M.Wilmot, C.G.Saysell, J.Jaeger, P.F.Knowles, S.E.Phillips, M.J.Mcpherson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.20
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 135.200, 167.000, 79.930, 90.00, 90.00, 90.00
R / Rfree (%) 17.6 / 24.4

Other elements in 1qaf:

The structure of The Active Site Base Controls Cofactor Reactivity in Escherichia Coli Amine Oxidase : X-Ray Crystallographic Studies with Mutational Variants also contains other interesting chemical elements:

Copper (Cu) 2 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the The Active Site Base Controls Cofactor Reactivity in Escherichia Coli Amine Oxidase : X-Ray Crystallographic Studies with Mutational Variants (pdb code 1qaf). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the The Active Site Base Controls Cofactor Reactivity in Escherichia Coli Amine Oxidase : X-Ray Crystallographic Studies with Mutational Variants, PDB code: 1qaf:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in 1qaf

Go back to Calcium Binding Sites List in 1qaf
Calcium binding site 1 out of 4 in the The Active Site Base Controls Cofactor Reactivity in Escherichia Coli Amine Oxidase : X-Ray Crystallographic Studies with Mutational Variants


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of The Active Site Base Controls Cofactor Reactivity in Escherichia Coli Amine Oxidase : X-Ray Crystallographic Studies with Mutational Variants within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca802

b:25.1
occ:1.00
 OD1 A:ASP535 2.3 17.9 1.0
OD1 A:ASP678 2.4 22.8 1.0
O A:ALA679 2.4 21.9 1.0
OD1 A:ASP533 2.4 24.9 1.0
O A:LEU534 2.5 23.4 1.0
O A:HOH952 2.6 18.1 1.0
C A:LEU534 3.5 25.8 1.0
NZ A:LYS133 3.5 26.0 1.0
CG A:ASP535 3.5 18.6 1.0
C A:ALA679 3.5 21.6 1.0
N A:ALA679 3.6 17.7 1.0
CG A:ASP678 3.6 31.4 1.0
CG A:ASP533 3.7 25.6 1.0
C A:ASP533 4.1 23.7 1.0
N A:LEU534 4.1 24.8 1.0
CA A:ASP535 4.1 21.7 1.0
CA A:ALA679 4.1 19.5 1.0
N A:ASP535 4.1 21.8 1.0
C A:ASP678 4.2 18.8 1.0
OD2 A:ASP678 4.3 32.1 1.0
O A:ASP533 4.3 21.3 1.0
CB A:ASP535 4.3 21.4 1.0
OD2 A:ASP533 4.3 24.6 1.0
OD2 A:ASP535 4.4 19.2 1.0
CA A:LEU534 4.4 23.9 1.0
CA A:ASP678 4.4 21.3 1.0
CA A:ASP533 4.5 24.1 1.0
O A:GLU539 4.6 22.3 1.0
N A:VAL680 4.6 20.1 1.0
CB A:ASP533 4.7 22.6 1.0
CB A:ASP678 4.7 22.9 1.0
CB A:ALA679 4.8 17.4 1.0
ND2 A:ASN541 4.8 20.1 1.0
CE A:LYS133 4.9 30.6 1.0
CA A:VAL680 4.9 22.3 1.0

Calcium binding site 2 out of 4 in 1qaf

Go back to Calcium Binding Sites List in 1qaf
Calcium binding site 2 out of 4 in the The Active Site Base Controls Cofactor Reactivity in Escherichia Coli Amine Oxidase : X-Ray Crystallographic Studies with Mutational Variants


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of The Active Site Base Controls Cofactor Reactivity in Escherichia Coli Amine Oxidase : X-Ray Crystallographic Studies with Mutational Variants within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca803

b:53.3
occ:1.00
 O A:TYR667 2.5 25.2 1.0
OE2 A:GLU573 2.5 28.4 1.0
O A:HOH978 2.5 30.2 1.0
OE1 A:GLU672 2.7 48.8 1.0
O A:HOH983 2.8 40.7 1.0
O A:HOH1547 2.9 41.1 1.0
OE1 A:GLU573 3.0 27.0 1.0
CD A:GLU573 3.1 30.2 1.0
C A:TYR667 3.7 28.3 1.0
CD A:GLU672 3.8 50.0 1.0
CE1 A:HIS644 4.1 62.9 1.0
N A:ARG642 4.2 29.5 1.0
ND1 A:HIS644 4.2 64.0 1.0
OE1 A:GLU647 4.2 28.8 1.0
CG A:GLU672 4.3 46.5 1.0
O A:HOH1037 4.4 43.9 1.0
CB A:THR641 4.6 25.5 1.0
CB A:ARG642 4.6 37.2 1.0
CG A:ARG642 4.6 41.3 1.0
CG A:GLU573 4.6 27.0 1.0
CA A:TYR667 4.6 27.6 1.0
N A:SER668 4.6 34.7 1.0
OE2 A:GLU647 4.6 33.0 1.0
O A:ARG642 4.7 24.7 1.0
CA A:SER668 4.7 35.6 1.0
CB A:GLU672 4.8 42.8 1.0
OE2 A:GLU672 4.9 53.0 1.0
CA A:ARG642 4.9 31.1 1.0
CD A:GLU647 4.9 28.6 1.0
CB A:TYR667 5.0 29.2 1.0
CD A:ARG642 5.0 44.8 1.0

Calcium binding site 3 out of 4 in 1qaf

Go back to Calcium Binding Sites List in 1qaf
Calcium binding site 3 out of 4 in the The Active Site Base Controls Cofactor Reactivity in Escherichia Coli Amine Oxidase : X-Ray Crystallographic Studies with Mutational Variants


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of The Active Site Base Controls Cofactor Reactivity in Escherichia Coli Amine Oxidase : X-Ray Crystallographic Studies with Mutational Variants within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca802

b:29.0
occ:1.00
 O B:ALA679 2.3 27.3 1.0
OD1 B:ASP535 2.3 28.8 1.0
OD1 B:ASP533 2.3 15.4 1.0
O B:LEU534 2.4 26.1 1.0
OD1 B:ASP678 2.6 22.4 1.0
O B:HOH1619 2.6 29.8 1.0
C B:LEU534 3.4 30.4 1.0
C B:ALA679 3.4 28.1 1.0
CG B:ASP535 3.5 29.6 1.0
CG B:ASP533 3.6 23.7 1.0
N B:ALA679 3.6 25.0 1.0
NZ B:LYS133 3.7 27.2 1.0
CG B:ASP678 3.8 29.8 1.0
C B:ASP533 4.0 21.7 1.0
N B:LEU534 4.0 28.0 1.0
CA B:ALA679 4.0 25.2 1.0
CA B:ASP535 4.1 29.3 1.0
N B:ASP535 4.1 28.0 1.0
O B:ASP533 4.1 21.3 1.0
C B:ASP678 4.2 30.1 1.0
OD2 B:ASP533 4.2 21.7 1.0
CA B:LEU534 4.4 26.1 1.0
OD2 B:ASP535 4.4 27.3 1.0
CB B:ASP535 4.4 28.3 1.0
CA B:ASP533 4.4 25.0 1.0
N B:VAL680 4.4 27.4 1.0
OD2 B:ASP678 4.4 27.4 1.0
CA B:ASP678 4.5 27.3 1.0
O B:GLU539 4.6 29.1 1.0
CB B:ASP533 4.6 20.6 1.0
CB B:ASP678 4.7 29.1 1.0
ND2 B:ASN541 4.7 33.1 1.0
CA B:VAL680 4.8 29.1 1.0
CG2 B:VAL680 4.8 24.5 1.0
CB B:ALA679 4.8 27.5 1.0
CE B:LYS133 4.9 22.6 1.0
O B:ASP678 4.9 26.9 1.0

Calcium binding site 4 out of 4 in 1qaf

Go back to Calcium Binding Sites List in 1qaf
Calcium binding site 4 out of 4 in the The Active Site Base Controls Cofactor Reactivity in Escherichia Coli Amine Oxidase : X-Ray Crystallographic Studies with Mutational Variants


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of The Active Site Base Controls Cofactor Reactivity in Escherichia Coli Amine Oxidase : X-Ray Crystallographic Studies with Mutational Variants within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca803

b:53.9
occ:1.00
 OE2 B:GLU573 2.5 28.5 1.0
O B:TYR667 2.6 29.4 1.0
OE2 B:GLU672 2.7 51.4 1.0
O B:HOH1645 2.8 38.9 1.0
O B:HOH1650 2.8 36.4 1.0
OE1 B:GLU573 2.9 36.1 1.0
CD B:GLU573 3.1 35.4 1.0
CG B:GLU672 3.4 51.2 1.0
CD B:GLU672 3.5 56.3 1.0
O B:HOH1702 3.7 53.1 1.0
C B:TYR667 3.8 26.7 1.0
CD2 B:HIS644 4.2 66.8 1.0
NE2 B:HIS644 4.3 66.3 1.0
CB B:GLU672 4.3 42.6 1.0
CB B:ARG642 4.5 39.4 1.0
N B:ARG642 4.5 31.4 1.0
CG B:GLU573 4.6 31.8 1.0
CA B:SER668 4.6 35.6 1.0
N B:SER668 4.6 31.5 1.0
CA B:TYR667 4.7 29.3 1.0
OE1 B:GLU647 4.7 37.0 1.0
OE1 B:GLU672 4.7 58.6 1.0
OE2 B:GLU647 4.9 38.0 1.0
CG B:ARG642 4.9 44.2 1.0
CB B:THR641 4.9 33.5 1.0

Reference:

J.M.Murray, C.G.Saysell, C.M.Wilmot, W.S.Tambyrajah, J.Jaeger, P.F.Knowles, S.E.Phillips, M.J.Mcpherson. The Active Site Base Controls Cofactor Reactivity in Escherichia Coli Amine Oxidase: X-Ray Crystallographic Studies with Mutational Variants. Biochemistry V. 38 8217 1999.
ISSN: ISSN 0006-2960
PubMed: 10387067
DOI: 10.1021/BI9900469
Page generated: Thu Jul 11 14:17:17 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy