Atomistry » Platinum » PDB 3wua-4nsi » 4lq6
Atomistry »
  Platinum »
    PDB 3wua-4nsi »
      4lq6 »

Platinum in PDB 4lq6: Crystal Structure of RV3717 Reveals A Novel Amidase From M. Tuberculosis

Protein crystallography data

The structure of Crystal Structure of RV3717 Reveals A Novel Amidase From M. Tuberculosis, PDB code: 4lq6 was solved by A.Kumar, S.Kumar, D.Kumar, A.Mishra, R.P.Dewangan, P.Shrivastava, S.Ramachandran, B.Taneja, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 21.09 / 1.68
Space group I 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 37.350, 103.780, 129.970, 90.00, 90.00, 90.00
R / Rfree (%) 16.1 / 18.4

Other elements in 4lq6:

The structure of Crystal Structure of RV3717 Reveals A Novel Amidase From M. Tuberculosis also contains other interesting chemical elements:

Chlorine (Cl) 4 atoms
Zinc (Zn) 1 atom

Platinum Binding Sites:

The binding sites of Platinum atom in the Crystal Structure of RV3717 Reveals A Novel Amidase From M. Tuberculosis (pdb code 4lq6). This binding sites where shown within 5.0 Angstroms radius around Platinum atom.
In total 9 binding sites of Platinum where determined in the Crystal Structure of RV3717 Reveals A Novel Amidase From M. Tuberculosis, PDB code: 4lq6:
Jump to Platinum binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Platinum binding site 1 out of 9 in 4lq6

Go back to Platinum Binding Sites List in 4lq6
Platinum binding site 1 out of 9 in the Crystal Structure of RV3717 Reveals A Novel Amidase From M. Tuberculosis


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 1 of Crystal Structure of RV3717 Reveals A Novel Amidase From M. Tuberculosis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt307

b:50.1
occ:0.15
PT A:PT307 0.0 50.1 0.1
PT A:PT307 1.4 22.4 0.1
CG A:MET3 2.1 43.3 1.0
CE A:MET3 2.2 44.6 0.4
SD A:MET3 2.4 46.8 0.4
SD A:MET3 2.5 48.3 0.6
PT A:PT307 2.7 0.5 0.4
CE A:MET3 3.2 45.3 0.6
CB A:MET3 3.4 38.3 1.0
N A:MET3 3.8 37.5 1.0
PT A:PT307 3.9 0.8 0.4
CA A:MET3 4.0 35.0 1.0
O A:HOH505 4.3 42.8 1.0
C A:GLY2 4.4 43.7 1.0
CA A:GLY2 4.9 43.2 1.0

Platinum binding site 2 out of 9 in 4lq6

Go back to Platinum Binding Sites List in 4lq6
Platinum binding site 2 out of 9 in the Crystal Structure of RV3717 Reveals A Novel Amidase From M. Tuberculosis


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 2 of Crystal Structure of RV3717 Reveals A Novel Amidase From M. Tuberculosis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt307

b:0.8
occ:0.35
PT A:PT307 0.0 0.8 0.4
CE A:MET3 2.2 45.3 0.6
PT A:PT307 2.5 22.4 0.1
O A:HOH555 2.6 52.0 1.0
PT A:PT307 2.9 0.5 0.4
O A:GLY65 3.8 28.7 1.0
SD A:MET3 3.8 48.3 0.6
N A:MET3 3.9 37.5 1.0
PT A:PT307 3.9 50.1 0.1
CG A:MET3 4.0 43.3 1.0
N A:GLY2 4.1 44.5 1.0
CB A:MET3 4.1 38.3 1.0
C A:GLY65 4.3 29.3 1.0
O A:LEU64 4.6 32.5 1.0
CA A:MET3 4.6 35.0 1.0
CA A:GLY2 4.7 43.2 1.0
C A:GLY2 4.8 43.7 1.0
CA A:VAL66 4.8 23.3 1.0
N A:VAL66 4.8 24.6 1.0
CG2 A:VAL66 4.9 28.6 1.0

Platinum binding site 3 out of 9 in 4lq6

Go back to Platinum Binding Sites List in 4lq6
Platinum binding site 3 out of 9 in the Crystal Structure of RV3717 Reveals A Novel Amidase From M. Tuberculosis


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 3 of Crystal Structure of RV3717 Reveals A Novel Amidase From M. Tuberculosis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt307

b:0.5
occ:0.35
PT A:PT307 0.0 0.5 0.4
PT A:PT307 2.1 22.4 0.1
PT A:PT307 2.7 50.1 0.1
PT A:PT307 2.9 0.8 0.4
CE A:MET3 3.8 45.3 0.6
CA A:GLY2 3.9 43.2 1.0
N A:GLY2 4.0 44.5 1.0
N A:MET3 4.0 37.5 1.0
CG A:MET3 4.2 43.3 1.0
C A:GLY2 4.3 43.7 1.0
CE A:MET3 4.3 44.6 0.4
SD A:MET3 4.3 48.3 0.6
O A:HOH555 4.3 52.0 1.0
CB A:MET3 4.9 38.3 1.0

Platinum binding site 4 out of 9 in 4lq6

Go back to Platinum Binding Sites List in 4lq6
Platinum binding site 4 out of 9 in the Crystal Structure of RV3717 Reveals A Novel Amidase From M. Tuberculosis


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 4 of Crystal Structure of RV3717 Reveals A Novel Amidase From M. Tuberculosis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt307

b:22.4
occ:0.15
PT A:PT307 0.0 22.4 0.1
PT A:PT307 1.4 50.1 0.1
PT A:PT307 2.1 0.5 0.4
CG A:MET3 2.2 43.3 1.0
CE A:MET3 2.2 45.3 0.6
SD A:MET3 2.4 48.3 0.6
PT A:PT307 2.5 0.8 0.4
CB A:MET3 3.1 38.3 1.0
N A:MET3 3.3 37.5 1.0
CE A:MET3 3.4 44.6 0.4
SD A:MET3 3.4 46.8 0.4
CA A:MET3 3.7 35.0 1.0
O A:HOH555 4.0 52.0 1.0
C A:GLY2 4.1 43.7 1.0
CA A:GLY2 4.4 43.2 1.0
N A:GLY2 4.6 44.5 1.0
O A:GLY2 5.0 43.4 1.0

Platinum binding site 5 out of 9 in 4lq6

Go back to Platinum Binding Sites List in 4lq6
Platinum binding site 5 out of 9 in the Crystal Structure of RV3717 Reveals A Novel Amidase From M. Tuberculosis


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 5 of Crystal Structure of RV3717 Reveals A Novel Amidase From M. Tuberculosis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt308

b:51.4
occ:0.45
PT A:PT308 0.0 51.4 0.5
SD A:MET88 2.2 36.9 1.0
OE2 A:GLU84 2.3 21.0 0.5
CG A:MET88 2.6 29.7 1.0
CE A:MET88 2.7 34.5 1.0
PT A:PT308 2.8 74.4 0.2
PT A:PT308 3.1 46.7 0.2
CD A:GLU84 3.2 30.0 0.5
CG A:GLU84 3.3 21.6 0.5
CB A:MET88 3.6 20.8 1.0
O A:GLU84 4.3 16.1 1.0
OE1 A:GLU84 4.4 23.1 0.5
PT A:PT308 4.4 58.9 0.1
CG A:PRO80 4.4 26.8 1.0
CB A:PRO80 4.5 20.4 1.0
O A:HOH526 4.7 37.1 1.0
CB A:GLU84 4.8 15.2 0.5
CA A:MET88 4.8 16.5 1.0
C A:GLU84 4.8 16.6 1.0
CB A:GLU84 4.8 15.6 0.5

Platinum binding site 6 out of 9 in 4lq6

Go back to Platinum Binding Sites List in 4lq6
Platinum binding site 6 out of 9 in the Crystal Structure of RV3717 Reveals A Novel Amidase From M. Tuberculosis


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 6 of Crystal Structure of RV3717 Reveals A Novel Amidase From M. Tuberculosis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt308

b:46.7
occ:0.20
PT A:PT308 0.0 46.7 0.2
SD A:MET88 2.4 36.9 1.0
PT A:PT308 3.0 58.9 0.1
O A:SER71 3.0 20.6 1.0
PT A:PT308 3.1 51.4 0.5
CG A:MET88 3.3 29.7 1.0
CB A:MET88 3.4 20.8 1.0
CA A:SER71 3.6 14.3 1.0
C A:SER71 3.7 19.7 1.0
CG A:PRO80 3.8 26.8 1.0
CA A:ARG85 3.8 13.8 1.0
CZ A:PHE6 4.0 15.7 1.0
CE A:MET88 4.1 34.5 1.0
CB A:SER71 4.1 14.6 1.0
CG A:ARG85 4.1 14.7 1.0
CB A:PRO80 4.2 20.4 1.0
CB A:ARG85 4.4 13.7 1.0
O A:GLU84 4.4 16.1 1.0
N A:ARG85 4.5 14.2 1.0
CE1 A:PHE6 4.5 17.1 1.0
O A:ARG85 4.6 14.5 1.0
C A:GLU84 4.7 16.6 1.0
O A:LEU70 4.7 18.0 1.0
OE2 A:GLU84 4.7 21.0 0.5
C A:ARG85 4.7 16.9 1.0
CG A:GLU84 4.8 21.6 0.5
N A:SER71 4.9 13.7 1.0
CD A:PRO80 4.9 22.5 1.0
CA A:MET88 5.0 16.5 1.0

Platinum binding site 7 out of 9 in 4lq6

Go back to Platinum Binding Sites List in 4lq6
Platinum binding site 7 out of 9 in the Crystal Structure of RV3717 Reveals A Novel Amidase From M. Tuberculosis


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 7 of Crystal Structure of RV3717 Reveals A Novel Amidase From M. Tuberculosis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt308

b:58.9
occ:0.12
PT A:PT308 0.0 58.9 0.1
SD A:MET88 2.2 36.9 1.0
O A:HOH533 2.3 31.4 1.0
PT A:PT308 3.0 46.7 0.2
O A:LEU70 3.0 18.0 1.0
CG A:MET88 3.2 29.7 1.0
CE A:MET88 3.2 34.5 1.0
CE1 A:PHE6 3.3 17.1 1.0
CZ A:PHE6 3.7 15.7 1.0
CB A:MET88 3.8 20.8 1.0
O A:HOH496 3.9 40.4 1.0
CA A:SER71 3.9 14.3 1.0
C A:LEU70 4.0 17.4 1.0
O A:SER71 4.3 20.6 1.0
C A:SER71 4.3 19.7 1.0
N A:SER71 4.4 13.7 1.0
PT A:PT308 4.4 51.4 0.5
CD1 A:PHE6 4.5 16.5 1.0
PT A:PT308 4.7 74.4 0.2
O A:HOH559 4.9 52.3 1.0

Platinum binding site 8 out of 9 in 4lq6

Go back to Platinum Binding Sites List in 4lq6
Platinum binding site 8 out of 9 in the Crystal Structure of RV3717 Reveals A Novel Amidase From M. Tuberculosis


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 8 of Crystal Structure of RV3717 Reveals A Novel Amidase From M. Tuberculosis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt308

b:74.4
occ:0.23
PT A:PT308 0.0 74.4 0.2
O A:HOH526 2.3 37.1 1.0
CE A:MET88 2.3 34.5 1.0
CG A:MET88 2.3 29.7 1.0
PT A:PT308 2.8 51.4 0.5
SD A:MET88 2.9 36.9 1.0
CB A:MET88 3.7 20.8 1.0
O A:HOH559 3.9 52.3 1.0
CA A:MET88 4.3 16.5 1.0
OE2 A:GLU84 4.4 21.0 0.5
PT A:PT308 4.7 58.9 0.1

Platinum binding site 9 out of 9 in 4lq6

Go back to Platinum Binding Sites List in 4lq6
Platinum binding site 9 out of 9 in the Crystal Structure of RV3717 Reveals A Novel Amidase From M. Tuberculosis


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 9 of Crystal Structure of RV3717 Reveals A Novel Amidase From M. Tuberculosis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt309

b:50.5
occ:0.20
CL A:CL306 2.0 34.5 1.0
CL A:CL305 2.3 48.0 1.0
O A:HOH524 2.4 54.8 1.0
O A:HOH438 2.7 46.1 1.0
O A:HOH487 3.1 42.0 1.0
CD2 A:LEU162 3.9 20.5 1.0
NZ A:LYS31 4.2 38.2 1.0
O A:HOH420 4.2 25.6 1.0
CG1 A:VAL82 4.2 18.8 1.0
O A:HOH458 4.2 28.7 1.0
O A:HOH457 4.4 30.1 1.0
CB A:LEU162 4.4 13.4 1.0
O A:HOH540 4.4 52.3 1.0
CA A:LEU162 4.5 13.2 1.0
N A:ALA163 4.6 14.5 1.0
CG A:LEU162 4.6 17.2 1.0
O A:HOH525 4.7 40.0 1.0
CB A:VAL82 4.8 17.4 1.0
CE A:LYS31 4.8 39.9 1.0
C A:LEU162 5.0 16.3 1.0

Reference:

A.Kumar, S.Kumar, D.Kumar, A.Mishra, R.P.Dewangan, P.Shrivastava, S.Ramachandran, B.Taneja. The Structure of RV3717 Reveals A Novel Amidase From Mycobacterium Tuberculosis. Acta Crystallogr.,Sect.D V. 69 2543 2013.
ISSN: ISSN 0907-4449
PubMed: 24311595
DOI: 10.1107/S0907444913026371
Page generated: Wed Dec 16 02:04:48 2020

Last articles

Tb in 6TVY
Si in 6Y7O
Rh in 6WRM
Rh in 6WRL
Ni in 6Y8Z
Ni in 6Y8Y
Na in 6ZXZ
Na in 7ACG
Na in 6YLS
Na in 6Y8Z
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy