Atomistry » Cobalt » PDB 7w6v-7yvx » 7waj
Atomistry »
  Cobalt »
    PDB 7w6v-7yvx »
      7waj »

Cobalt in PDB 7waj: Glutamyl-Trna Synthetase From Plasmodium Falciparum (Pfers) Complexed with Atp and Co

Enzymatic activity of Glutamyl-Trna Synthetase From Plasmodium Falciparum (Pfers) Complexed with Atp and Co

All present enzymatic activity of Glutamyl-Trna Synthetase From Plasmodium Falciparum (Pfers) Complexed with Atp and Co:
6.1.1.17;

Protein crystallography data

The structure of Glutamyl-Trna Synthetase From Plasmodium Falciparum (Pfers) Complexed with Atp and Co, PDB code: 7waj was solved by V.Sharma, Y.Manickam, P.Babbar, A.Sharma, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.04 / 2.25
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 158.19, 46.34, 95.32, 90, 110.72, 90
R / Rfree (%) 19.9 / 24.7

Other elements in 7waj:

The structure of Glutamyl-Trna Synthetase From Plasmodium Falciparum (Pfers) Complexed with Atp and Co also contains other interesting chemical elements:

Chlorine (Cl) 4 atoms

Cobalt Binding Sites:

The binding sites of Cobalt atom in the Glutamyl-Trna Synthetase From Plasmodium Falciparum (Pfers) Complexed with Atp and Co (pdb code 7waj). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 8 binding sites of Cobalt where determined in the Glutamyl-Trna Synthetase From Plasmodium Falciparum (Pfers) Complexed with Atp and Co, PDB code: 7waj:
Jump to Cobalt binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Cobalt binding site 1 out of 8 in 7waj

Go back to Cobalt Binding Sites List in 7waj
Cobalt binding site 1 out of 8 in the Glutamyl-Trna Synthetase From Plasmodium Falciparum (Pfers) Complexed with Atp and Co


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Glutamyl-Trna Synthetase From Plasmodium Falciparum (Pfers) Complexed with Atp and Co within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co903

b:98.5
occ:0.63
 OE1 A:GLU444 2.4 110.1 1.0
OE1 A:GLN447 2.5 94.7 1.0
OE2 A:GLU444 2.8 100.4 1.0
CD A:GLU444 3.0 105.4 1.0
CD A:GLN447 3.5 90.9 1.0
NE2 A:GLN447 3.9 94.6 1.0
CG A:GLU444 4.5 91.3 1.0
CG A:GLN447 4.8 80.6 1.0
CB A:GLN447 4.9 79.6 1.0

Cobalt binding site 2 out of 8 in 7waj

Go back to Cobalt Binding Sites List in 7waj
Cobalt binding site 2 out of 8 in the Glutamyl-Trna Synthetase From Plasmodium Falciparum (Pfers) Complexed with Atp and Co


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of Glutamyl-Trna Synthetase From Plasmodium Falciparum (Pfers) Complexed with Atp and Co within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co904

b:118.9
occ:0.93
 NE2 A:HIS767 2.0 109.4 1.0
CE1 A:HIS767 2.8 107.9 1.0
CD2 A:HIS767 3.1 105.1 1.0
O A:ASN764 3.8 75.5 1.0
ND1 A:HIS767 3.9 105.9 1.0
CG A:HIS767 4.1 94.5 1.0
ND2 A:ASN762 4.1 93.8 1.0
CB A:ASP741 4.3 93.3 1.0
OD2 A:ASP741 4.3 119.4 1.0
CA A:SER765 4.8 71.6 1.0
CG A:ASP741 4.8 111.8 1.0
C A:ASN764 5.0 71.3 1.0

Cobalt binding site 3 out of 8 in 7waj

Go back to Cobalt Binding Sites List in 7waj
Cobalt binding site 3 out of 8 in the Glutamyl-Trna Synthetase From Plasmodium Falciparum (Pfers) Complexed with Atp and Co


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 3 of Glutamyl-Trna Synthetase From Plasmodium Falciparum (Pfers) Complexed with Atp and Co within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co905

b:136.5
occ:1.00
 NE2 A:HIS742 3.0 83.4 1.0
CD2 A:HIS742 3.6 86.1 1.0
CE1 A:HIS742 4.1 80.7 1.0
OD2 A:ASP604 4.5 99.8 1.0
CG A:HIS742 4.9 80.8 1.0

Cobalt binding site 4 out of 8 in 7waj

Go back to Cobalt Binding Sites List in 7waj
Cobalt binding site 4 out of 8 in the Glutamyl-Trna Synthetase From Plasmodium Falciparum (Pfers) Complexed with Atp and Co


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 4 of Glutamyl-Trna Synthetase From Plasmodium Falciparum (Pfers) Complexed with Atp and Co within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co906

b:115.8
occ:0.76
 OD2 A:ASP800 2.3 122.5 1.0
CE1 A:HIS806 2.7 97.3 1.0
NE2 A:HIS806 2.7 96.2 1.0
CE1 A:HIS804 2.9 113.6 1.0
ND1 A:HIS804 3.4 114.5 1.0
CG A:ASP800 3.5 114.0 1.0
NE2 A:HIS804 3.9 112.5 1.0
OD1 A:ASP800 4.0 112.1 1.0
ND1 A:HIS806 4.0 93.2 1.0
CD2 A:HIS806 4.0 93.2 1.0
CG A:HIS804 4.5 111.0 1.0
CB A:ASP800 4.7 106.7 1.0
CG A:HIS806 4.7 87.0 1.0
CD2 A:HIS804 4.7 112.7 1.0
OH A:TYR738 4.9 77.2 1.0

Cobalt binding site 5 out of 8 in 7waj

Go back to Cobalt Binding Sites List in 7waj
Cobalt binding site 5 out of 8 in the Glutamyl-Trna Synthetase From Plasmodium Falciparum (Pfers) Complexed with Atp and Co


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 5 of Glutamyl-Trna Synthetase From Plasmodium Falciparum (Pfers) Complexed with Atp and Co within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co907

b:115.9
occ:0.87
 OD1 A:ASP639 2.2 110.1 1.0
OD2 A:ASP639 2.8 99.2 1.0
CG A:ASP639 2.9 95.7 1.0
CB A:ASP639 4.3 77.8 1.0
N A:ASP639 4.8 70.9 1.0
CA A:ASP639 5.0 75.5 1.0

Cobalt binding site 6 out of 8 in 7waj

Go back to Cobalt Binding Sites List in 7waj
Cobalt binding site 6 out of 8 in the Glutamyl-Trna Synthetase From Plasmodium Falciparum (Pfers) Complexed with Atp and Co


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 6 of Glutamyl-Trna Synthetase From Plasmodium Falciparum (Pfers) Complexed with Atp and Co within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co908

b:144.4
occ:1.00
 CG A:GLU342 3.7 76.4 1.0
OE1 A:GLU342 3.9 103.3 1.0
CD A:GLU342 4.0 95.2 1.0
O A:GLN339 4.7 64.6 1.0
OE2 A:GLU342 4.9 100.8 1.0

Cobalt binding site 7 out of 8 in 7waj

Go back to Cobalt Binding Sites List in 7waj
Cobalt binding site 7 out of 8 in the Glutamyl-Trna Synthetase From Plasmodium Falciparum (Pfers) Complexed with Atp and Co


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 7 of Glutamyl-Trna Synthetase From Plasmodium Falciparum (Pfers) Complexed with Atp and Co within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co909

b:141.2
occ:1.00
 NE2 A:HIS712 3.1 125.2 1.0
CE1 A:HIS712 3.3 122.3 1.0
CD2 A:HIS712 4.2 125.2 1.0
ND1 A:HIS712 4.5 122.6 1.0
CG A:HIS712 4.9 123.5 1.0

Cobalt binding site 8 out of 8 in 7waj

Go back to Cobalt Binding Sites List in 7waj
Cobalt binding site 8 out of 8 in the Glutamyl-Trna Synthetase From Plasmodium Falciparum (Pfers) Complexed with Atp and Co


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 8 of Glutamyl-Trna Synthetase From Plasmodium Falciparum (Pfers) Complexed with Atp and Co within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co910

b:127.8
occ:1.00
 OE1 A:GLU362 3.0 93.4 1.0
OE2 A:GLU362 3.1 77.6 1.0
CD A:GLU362 3.4 83.1 1.0
CA A:LYS360 4.5 95.2 1.0
CB A:LYS360 4.7 94.5 1.0
CB A:PRO319 4.8 53.9 1.0
O A:PRO319 4.8 69.6 1.0
CG A:PRO319 4.8 57.8 1.0
CG A:GLU362 4.9 75.2 1.0

Reference:

V.K.Sharma, J.Chhibber-Goel, M.Yogavel, A.Sharma. Structural Characterization of Glutamyl-Trna Synthetase (Glurs) From Plasmodium Falciparum. Mol.Biochem.Parasitol. V. 253 11530 2022.
ISSN: ISSN 0166-6851
PubMed: 36370911
DOI: 10.1016/J.MOLBIOPARA.2022.111530
Page generated: Tue Jul 30 19:33:21 2024

Last articles

Mg in 4Y52
Mg in 4Y30
Mg in 4Y2V
Mg in 4Y2X
Mg in 4Y2Y
Mg in 4Y2U
Mg in 4Y2T
Mg in 4Y2Q
Mg in 4Y2R
Mg in 4Y2S
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy