Atomistry » Cobalt » PDB 3mdl-3r61 » 3n5f
Atomistry »
  Cobalt »
    PDB 3mdl-3r61 »
      3n5f »

Cobalt in PDB 3n5f: Crystal Structure of L-N-Carbamoylase From Geobacillus Stearothermophilus CECT43

Enzymatic activity of Crystal Structure of L-N-Carbamoylase From Geobacillus Stearothermophilus CECT43

All present enzymatic activity of Crystal Structure of L-N-Carbamoylase From Geobacillus Stearothermophilus CECT43:
3.5.1.87;

Protein crystallography data

The structure of Crystal Structure of L-N-Carbamoylase From Geobacillus Stearothermophilus CECT43, PDB code: 3n5f was solved by A.Garcia-Pino, S.Martinez-Rodriguez, J.A.Gavira, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.75
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 103.208, 211.683, 43.091, 90.00, 90.00, 90.00
R / Rfree (%) 19.3 / 27.6

Other elements in 3n5f:

The structure of Crystal Structure of L-N-Carbamoylase From Geobacillus Stearothermophilus CECT43 also contains other interesting chemical elements:

Arsenic (As) 1 atom

Cobalt Binding Sites:

The binding sites of Cobalt atom in the Crystal Structure of L-N-Carbamoylase From Geobacillus Stearothermophilus CECT43 (pdb code 3n5f). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 2 binding sites of Cobalt where determined in the Crystal Structure of L-N-Carbamoylase From Geobacillus Stearothermophilus CECT43, PDB code: 3n5f:
Jump to Cobalt binding site number: 1; 2;

Cobalt binding site 1 out of 2 in 3n5f

Go back to Cobalt Binding Sites List in 3n5f
Cobalt binding site 1 out of 2 in the Crystal Structure of L-N-Carbamoylase From Geobacillus Stearothermophilus CECT43


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 L-N-Carbamoylase From Geobacillus Stearothermophilus CECT43 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co410

b:19.1
occ:1.00
NE2 A:HIS79 2.1 19.2 1.0
OD2 A:ASP90 2.2 20.9 1.0
NE2 A:HIS189 2.3 7.5 1.0
CD2 A:HIS79 3.0 18.3 1.0
CE1 A:HIS79 3.1 20.1 1.0
CE1 A:HIS189 3.2 9.2 1.0
CG A:ASP90 3.3 19.6 1.0
CD2 A:HIS189 3.3 9.0 1.0
OE1 A:GLU124 3.5 29.0 1.0
OE2 A:GLU124 3.6 28.5 1.0
OD1 A:ASP90 3.7 22.6 1.0
CD2 A:HIS356 3.7 15.1 1.0
CD A:GLU124 3.8 28.9 1.0
OE2 A:GLU125 3.9 30.4 1.0
CG A:HIS79 4.1 17.2 1.0
ND1 A:HIS79 4.1 20.4 1.0
NE2 A:HIS356 4.2 15.5 1.0
ND1 A:HIS189 4.4 7.6 1.0
N A:GLY91 4.4 16.9 1.0
CG A:HIS189 4.4 9.3 1.0
C A:ASP90 4.6 18.1 1.0
CB A:ASP90 4.6 19.1 1.0
OG A:SER78 4.8 12.7 1.0
CA A:GLY91 4.8 16.0 1.0
CD A:GLU125 4.8 31.2 1.0
CA A:ASP90 4.9 18.9 1.0
NE2 A:GLN192 4.9 11.8 1.0
OE1 A:GLU187 4.9 13.0 1.0
O A:HOH446 4.9 17.0 1.0
CG A:GLU124 4.9 27.9 1.0
CG A:HIS356 4.9 15.7 1.0
O A:ASP90 5.0 18.5 1.0

Cobalt binding site 2 out of 2 in 3n5f

Go back to Cobalt Binding Sites List in 3n5f
Cobalt binding site 2 out of 2 in the Crystal Structure of L-N-Carbamoylase From Geobacillus Stearothermophilus CECT43


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 L-N-Carbamoylase From Geobacillus Stearothermophilus CECT43 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Co411

b:9.2
occ:1.00
OD2 B:ASP90 2.1 6.5 1.0
NE2 B:HIS189 2.2 2.0 1.0
NE2 B:HIS79 2.3 7.2 1.0
CG B:ASP90 3.1 7.5 1.0
CE1 B:HIS189 3.1 2.0 1.0
CD2 B:HIS79 3.2 5.8 1.0
O B:HOH481 3.2 32.1 1.0
CD2 B:HIS189 3.3 2.7 1.0
OD1 B:ASP90 3.4 7.9 1.0
CE1 B:HIS79 3.4 6.5 1.0
OE2 B:GLU124 3.6 13.6 1.0
OE2 B:GLU125 4.1 19.3 1.0
CD B:GLU124 4.2 12.5 1.0
ND1 B:HIS356 4.2 5.0 1.0
O B:HOH412 4.2 8.6 1.0
ND1 B:HIS189 4.2 2.0 1.0
N B:GLY91 4.3 5.5 1.0
CG B:HIS79 4.4 6.0 1.0
CG B:HIS189 4.4 3.6 1.0
C B:ASP90 4.4 7.1 1.0
ND1 B:HIS79 4.4 5.2 1.0
CB B:ASP90 4.4 6.9 1.0
CD B:GLU125 4.6 18.3 1.0
OE1 B:GLU124 4.6 12.9 1.0
CA B:ASP90 4.7 7.5 1.0
O B:ASP90 4.7 8.0 1.0
CA B:GLY91 4.8 3.8 1.0
CE1 B:HIS356 4.8 5.7 1.0
OE1 B:GLU125 4.8 18.7 1.0
OE1 B:GLU187 4.9 2.0 1.0
OG B:SER78 4.9 7.5 1.0
CG B:GLU124 5.0 11.7 1.0

Reference:

S.Martinez-Rodriguez, A.Garcia-Pino, F.J.Las Heras-Vazquez, J.M.Clemente-Jimenez, F.Rodriguez-Vico, J.M.Garcia-Ruiz, R.Loris, J.A.Gavira. Mutational and Structural Analysis of L-N-Carbamoylase Reveals New Insights Into A Peptidase M20/M25/M40 Family Member. J.Bacteriol. V. 194 5759 2012.
ISSN: ISSN 0021-9193
PubMed: 22904279
DOI: 10.1128/JB.01056-12
Page generated: Sun Dec 13 10:41:36 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy