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Cobalt in PDB 1qxo: Crystal Structure of Chorismate Synthase Complexed with Oxidized Fmn and Epsp

Enzymatic activity of Crystal Structure of Chorismate Synthase Complexed with Oxidized Fmn and Epsp

All present enzymatic activity of Crystal Structure of Chorismate Synthase Complexed with Oxidized Fmn and Epsp:
4.2.3.5;

Protein crystallography data

The structure of Crystal Structure of Chorismate Synthase Complexed with Oxidized Fmn and Epsp, PDB code: 1qxo was solved by J.Maclean, S.Ali, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.00 / 2.00
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 81.059, 124.582, 85.163, 90.00, 115.15, 90.00
R / Rfree (%) 15.7 / 22.2

Cobalt Binding Sites:

The binding sites of Cobalt atom in the Crystal Structure of Chorismate Synthase Complexed with Oxidized Fmn and Epsp (pdb code 1qxo). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 9 binding sites of Cobalt where determined in the Crystal Structure of Chorismate Synthase Complexed with Oxidized Fmn and Epsp, PDB code: 1qxo:
Jump to Cobalt binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Cobalt binding site 1 out of 9 in 1qxo

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Cobalt binding site 1 out of 9 in the Crystal Structure of Chorismate Synthase Complexed with Oxidized Fmn and Epsp


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Crystal Structure of Chorismate Synthase Complexed with Oxidized Fmn and Epsp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co2002

b:86.7
occ:1.00
 CO A:NCO2002 0.0 86.7 1.0
N5 A:NCO2002 1.9 86.2 1.0
N4 A:NCO2002 1.9 86.9 1.0
N2 A:NCO2002 1.9 86.3 1.0
N3 A:NCO2002 1.9 86.5 1.0
N6 A:NCO2002 2.0 86.4 1.0
N1 A:NCO2002 2.0 86.3 1.0
OD2 A:ASP170 3.5 53.4 1.0
OE2 A:GLU173 4.3 63.8 1.0
CG A:ASP170 4.4 51.8 1.0
OD1 A:ASP170 4.6 54.0 1.0
OE1 A:GLU173 4.9 63.2 1.0
CD A:GLU173 5.0 61.8 1.0

Cobalt binding site 2 out of 9 in 1qxo

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Cobalt binding site 2 out of 9 in the Crystal Structure of Chorismate Synthase Complexed with Oxidized Fmn and Epsp


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of Crystal Structure of Chorismate Synthase Complexed with Oxidized Fmn and Epsp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co2004

b:39.7
occ:1.00
 CO A:NCO2004 0.0 39.7 1.0
N4 A:NCO2004 1.9 40.7 1.0
N5 A:NCO2004 1.9 41.6 1.0
N2 A:NCO2004 2.0 42.8 1.0
N6 A:NCO2004 2.0 41.3 1.0
N3 A:NCO2004 2.0 41.8 1.0
N1 A:NCO2004 2.0 39.8 1.0
O A:ARG120 3.8 20.6 1.0
OD1 A:ASP122 4.2 32.2 1.0
O A:HOH5434 4.2 68.4 1.0
O B:HOH5383 4.3 38.8 1.0
OE2 C:GLU372 4.6 31.7 1.0
O C:HOH5004 4.7 10.7 1.0
O A:HOH5081 4.7 27.8 1.0
O C:HOH5266 4.8 54.0 1.0
O A:HOH5284 4.9 35.9 1.0
CG A:ASP122 5.0 31.0 1.0

Cobalt binding site 3 out of 9 in 1qxo

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Cobalt binding site 3 out of 9 in the Crystal Structure of Chorismate Synthase Complexed with Oxidized Fmn and Epsp


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 3 of Crystal Structure of Chorismate Synthase Complexed with Oxidized Fmn and Epsp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co2007

b:80.8
occ:1.00
 CO A:NCO2007 0.0 80.8 1.0
N4 A:NCO2007 1.9 80.1 1.0
N5 A:NCO2007 1.9 80.2 1.0
N2 A:NCO2007 2.0 80.6 1.0
N6 A:NCO2007 2.0 80.7 1.0
N1 A:NCO2007 2.0 80.6 1.0
N3 A:NCO2007 2.0 80.6 1.0
O A:ASN387 3.9 24.0 1.0
O A:HOH5407 4.0 53.1 1.0
O A:HOH5436 4.2 57.8 1.0
O A:HOH5373 4.4 54.0 1.0
O B:HOH5148 4.8 44.8 1.0

Cobalt binding site 4 out of 9 in 1qxo

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Cobalt binding site 4 out of 9 in the Crystal Structure of Chorismate Synthase Complexed with Oxidized Fmn and Epsp


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 4 of Crystal Structure of Chorismate Synthase Complexed with Oxidized Fmn and Epsp within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Co2003

b:41.1
occ:1.00
 CO B:NCO2003 0.0 41.1 1.0
N4 B:NCO2003 1.9 41.6 1.0
N3 B:NCO2003 1.9 41.1 1.0
N6 B:NCO2003 1.9 41.4 1.0
N5 B:NCO2003 1.9 41.2 1.0
N1 B:NCO2003 2.0 41.0 1.0
N2 B:NCO2003 2.0 42.4 1.0
OD1 B:ASP154 3.7 35.4 1.0
O B:HOH5446 4.7 53.9 1.0
CG B:ASP154 4.8 35.2 1.0
O B:HOH5205 4.9 49.2 1.0
O B:GLU152 5.0 22.0 1.0
O B:ALA151 5.0 22.6 1.0

Cobalt binding site 5 out of 9 in 1qxo

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Cobalt binding site 5 out of 9 in the Crystal Structure of Chorismate Synthase Complexed with Oxidized Fmn and Epsp


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 5 of Crystal Structure of Chorismate Synthase Complexed with Oxidized Fmn and Epsp within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Co2008

b:73.7
occ:1.00
 CO B:NCO2008 0.0 73.7 1.0
N4 B:NCO2008 1.9 74.5 1.0
N3 B:NCO2008 1.9 74.5 1.0
N6 B:NCO2008 1.9 74.9 1.0
N5 B:NCO2008 1.9 73.9 1.0
N2 B:NCO2008 1.9 74.4 1.0
N1 B:NCO2008 2.0 74.0 1.0
O B:ASN387 3.8 21.1 1.0
O B:HOH5476 3.8 50.0 1.0
O B:TYR388 4.9 22.9 1.0
O B:HOH5212 4.9 34.0 1.0
O A:HOH5225 4.9 46.6 1.0
C B:ASN387 4.9 22.2 1.0
O B:HOH5475 5.0 40.4 1.0
O B:HOH5062 5.0 25.4 1.0

Cobalt binding site 6 out of 9 in 1qxo

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Cobalt binding site 6 out of 9 in the Crystal Structure of Chorismate Synthase Complexed with Oxidized Fmn and Epsp


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 6 of Crystal Structure of Chorismate Synthase Complexed with Oxidized Fmn and Epsp within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Co2001

b:34.2
occ:1.00
 CO C:NCO2001 0.0 34.2 1.0
N3 C:NCO2001 1.9 35.0 1.0
N2 C:NCO2001 1.9 35.4 1.0
N5 C:NCO2001 1.9 34.4 1.0
N4 C:NCO2001 2.0 36.2 1.0
N1 C:NCO2001 2.0 35.4 1.0
N6 C:NCO2001 2.0 34.6 1.0
O C:HOH5429 3.9 47.0 1.0
O C:ASN387 4.0 25.4 1.0
O C:HOH5309 4.4 46.7 1.0
O C:TYR388 4.6 28.1 1.0
O C:HOH5288 4.7 66.6 1.0
O C:HOH5335 4.9 58.7 1.0
O C:HOH5328 5.0 33.1 1.0

Cobalt binding site 7 out of 9 in 1qxo

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Cobalt binding site 7 out of 9 in the Crystal Structure of Chorismate Synthase Complexed with Oxidized Fmn and Epsp


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 7 of Crystal Structure of Chorismate Synthase Complexed with Oxidized Fmn and Epsp within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Co2005

b:52.8
occ:1.00
 CO C:NCO2005 0.0 52.8 1.0
N5 C:NCO2005 1.9 53.7 1.0
N4 C:NCO2005 1.9 53.9 1.0
N6 C:NCO2005 1.9 53.8 1.0
N3 C:NCO2005 1.9 53.8 1.0
N2 C:NCO2005 2.0 53.1 1.0
N1 C:NCO2005 2.0 52.3 1.0
O C:HOH5099 3.6 55.6 1.0
O C:HOH5262 3.7 50.9 1.0
O C:HOH5455 3.7 72.7 1.0
OE1 C:GLU168 4.0 35.6 1.0
OE1 C:GLU263 4.1 36.5 1.0
O C:HOH5159 4.3 46.6 1.0
O2 D:FMN4006 4.5 49.8 1.0
OE2 C:GLU168 4.6 37.8 1.0
CD C:GLU168 4.6 35.9 1.0

Cobalt binding site 8 out of 9 in 1qxo

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Cobalt binding site 8 out of 9 in the Crystal Structure of Chorismate Synthase Complexed with Oxidized Fmn and Epsp


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 8 of Crystal Structure of Chorismate Synthase Complexed with Oxidized Fmn and Epsp within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Co2006

b:48.3
occ:1.00
 CO D:NCO2006 0.0 48.3 1.0
N4 D:NCO2006 1.9 47.9 1.0
N3 D:NCO2006 1.9 47.3 1.0
N5 D:NCO2006 2.0 47.5 1.0
N6 D:NCO2006 2.0 47.7 1.0
N2 D:NCO2006 2.0 47.3 1.0
N1 D:NCO2006 2.0 47.3 1.0
O C:HOH5231 3.7 49.9 1.0
O D:HOH5215 3.9 37.4 1.0
O D:HOH5260 4.0 71.3 1.0
O D:HOH5385 4.0 57.6 1.0
OE1 D:GLU263 4.0 33.1 1.0
OE1 D:GLU168 4.2 36.7 1.0
O2P C:FMN4005 4.3 62.8 1.0
O C:HOH5233 4.4 73.2 1.0
OE2 D:GLU168 4.5 39.0 1.0
O2 C:FMN4005 4.6 46.2 1.0
O D:HOH5351 4.7 54.2 1.0
CD D:GLU168 4.7 37.6 1.0
C5' C:FMN4005 4.8 61.7 1.0
O D:HOH5450 4.9 48.6 1.0

Cobalt binding site 9 out of 9 in 1qxo

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Cobalt binding site 9 out of 9 in the Crystal Structure of Chorismate Synthase Complexed with Oxidized Fmn and Epsp


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 9 of Crystal Structure of Chorismate Synthase Complexed with Oxidized Fmn and Epsp within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Co2009

b:26.9
occ:1.00
 CO D:NCO2009 0.0 26.9 1.0
N5 D:NCO2009 1.9 29.1 1.0
N4 D:NCO2009 1.9 27.7 1.0
N6 D:NCO2009 1.9 28.7 1.0
N2 D:NCO2009 1.9 26.7 1.0
N3 D:NCO2009 2.0 25.0 1.0
N1 D:NCO2009 2.0 26.7 1.0
O D:ASN387 4.2 19.9 1.0
O D:HOH5409 4.5 42.6 1.0
O D:TYR388 4.7 22.1 1.0
O D:HOH5435 4.7 37.7 1.0
O D:HOH5404 5.0 61.8 1.0

Reference:

J.Maclean, S.Ali. The Structure of Chorismate Synthase Reveals A Novel Flavin Binding Site Fundamental to A Unique Chemical Reaction Structure V. 11 1499 2003.
ISSN: ISSN 0969-2126
PubMed: 14656434
DOI: 10.1016/J.STR.2003.11.005
Page generated: Tue Jul 30 14:32:16 2024

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