Atomistry » Copper » PDB 7ev9-7o3c » 7mms
Atomistry »
  Copper »
    PDB 7ev9-7o3c »
      7mms »

Copper in PDB 7mms: Crystal Structure of the Class Ie Ribonucleotide Reductase Beta-Nrdi Complex From Aerococcus Urinae in Semiquinone Form with Cu(I) Bound

Enzymatic activity of Crystal Structure of the Class Ie Ribonucleotide Reductase Beta-Nrdi Complex From Aerococcus Urinae in Semiquinone Form with Cu(I) Bound

All present enzymatic activity of Crystal Structure of the Class Ie Ribonucleotide Reductase Beta-Nrdi Complex From Aerococcus Urinae in Semiquinone Form with Cu(I) Bound:
1.17.4.1;

Protein crystallography data

The structure of Crystal Structure of the Class Ie Ribonucleotide Reductase Beta-Nrdi Complex From Aerococcus Urinae in Semiquinone Form with Cu(I) Bound, PDB code: 7mms was solved by G.M.Palowitch, A.K.Boal, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.25 / 1.91
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 77.354, 104.787, 137.412, 90, 100.29, 90
R / Rfree (%) 20.1 / 22.6

Other elements in 7mms:

The structure of Crystal Structure of the Class Ie Ribonucleotide Reductase Beta-Nrdi Complex From Aerococcus Urinae in Semiquinone Form with Cu(I) Bound also contains other interesting chemical elements:

Calcium (Ca) 3 atoms

Copper Binding Sites:

The binding sites of Copper atom in the Crystal Structure of the Class Ie Ribonucleotide Reductase Beta-Nrdi Complex From Aerococcus Urinae in Semiquinone Form with Cu(I) Bound (pdb code 7mms). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 4 binding sites of Copper where determined in the Crystal Structure of the Class Ie Ribonucleotide Reductase Beta-Nrdi Complex From Aerococcus Urinae in Semiquinone Form with Cu(I) Bound, PDB code: 7mms:
Jump to Copper binding site number: 1; 2; 3; 4;

Copper binding site 1 out of 4 in 7mms

Go back to Copper Binding Sites List in 7mms
Copper binding site 1 out of 4 in the Crystal Structure of the Class Ie Ribonucleotide Reductase Beta-Nrdi Complex From Aerococcus Urinae in Semiquinone Form with Cu(I) Bound


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Crystal Structure of the Class Ie Ribonucleotide Reductase Beta-Nrdi Complex From Aerococcus Urinae in Semiquinone Form with Cu(I) Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu401

b:36.6
occ:0.55
 O A:HOH545 1.9 27.9 1.0
ND1 A:HIS213 2.2 12.1 1.0
O A:HOH590 2.3 13.2 1.0
CG2 A:VAL116 3.1 9.9 1.0
CG A:HIS213 3.1 12.1 1.0
CE1 A:HIS213 3.3 11.9 1.0
CB A:HIS213 3.3 12.1 1.0
CB A:PRO176 3.6 16.1 1.0
NZ A:LYS210 4.0 13.5 1.0
CG A:PRO176 4.0 16.0 1.0
OD2 A:ASP93 4.2 14.2 1.0
CG A:LYS210 4.3 13.0 1.0
CD2 A:HIS213 4.3 11.9 1.0
NE2 A:HIS213 4.4 11.9 1.0
CD A:PRO176 4.5 16.1 1.0
CG A:GLN88 4.5 13.3 1.0
CA A:LYS210 4.5 12.6 1.0
CB A:VAL116 4.5 9.8 1.0
CD A:LYS210 4.6 13.3 1.0
CA A:PRO176 4.6 16.2 1.0
CB A:LYS210 4.8 12.9 1.0
CA A:HIS213 4.8 12.3 1.0
CG1 A:VAL116 4.9 10.0 1.0
CE A:LYS210 4.9 13.3 1.0
N A:PRO176 5.0 16.2 1.0
O A:HOH528 5.0 40.5 1.0

Copper binding site 2 out of 4 in 7mms

Go back to Copper Binding Sites List in 7mms
Copper binding site 2 out of 4 in the Crystal Structure of the Class Ie Ribonucleotide Reductase Beta-Nrdi Complex From Aerococcus Urinae in Semiquinone Form with Cu(I) Bound


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Crystal Structure of the Class Ie Ribonucleotide Reductase Beta-Nrdi Complex From Aerococcus Urinae in Semiquinone Form with Cu(I) Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cu401

b:36.5
occ:0.61
 ND1 B:HIS213 2.1 12.1 1.0
O B:HOH555 2.4 30.2 1.0
O B:HOH578 2.4 9.7 1.0
CG B:HIS213 3.0 12.1 1.0
CG2 B:VAL116 3.1 10.3 1.0
CE1 B:HIS213 3.1 11.9 1.0
CB B:HIS213 3.2 12.4 1.0
CB B:PRO176 3.7 16.7 1.0
CG B:PRO176 4.1 16.7 1.0
NZ B:LYS210 4.1 13.8 1.0
CD2 B:HIS213 4.2 11.9 1.0
NE2 B:HIS213 4.2 11.9 1.0
OD2 B:ASP93 4.2 15.7 1.0
CG B:LYS210 4.4 13.4 1.0
CG B:GLN88 4.5 14.0 1.0
CB B:VAL116 4.5 10.2 1.0
CA B:LYS210 4.5 12.8 1.0
CD B:PRO176 4.6 16.6 1.0
CD B:LYS210 4.7 13.6 1.0
CA B:PRO176 4.7 16.8 1.0
CA B:HIS213 4.8 12.7 1.0
O B:HOH582 4.8 34.3 1.0
CB B:LYS210 4.8 13.2 1.0
CG1 B:VAL116 4.9 10.3 1.0
OD1 B:ASP93 4.9 15.3 1.0

Copper binding site 3 out of 4 in 7mms

Go back to Copper Binding Sites List in 7mms
Copper binding site 3 out of 4 in the Crystal Structure of the Class Ie Ribonucleotide Reductase Beta-Nrdi Complex From Aerococcus Urinae in Semiquinone Form with Cu(I) Bound


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 3 of Crystal Structure of the Class Ie Ribonucleotide Reductase Beta-Nrdi Complex From Aerococcus Urinae in Semiquinone Form with Cu(I) Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cu401

b:42.0
occ:0.70
 ND1 C:HIS213 2.2 13.4 1.0
O C:HOH598 2.3 12.9 1.0
O C:HOH527 2.7 33.4 1.0
CG C:HIS213 3.1 13.2 1.0
CG2 C:VAL116 3.1 10.9 1.0
CE1 C:HIS213 3.2 13.3 1.0
CB C:HIS213 3.3 13.2 1.0
CB C:PRO176 3.6 15.2 1.0
CG C:PRO176 4.0 15.3 1.0
NZ C:LYS210 4.1 14.8 1.0
CD2 C:HIS213 4.2 13.2 1.0
OD2 C:ASP93 4.3 13.9 1.0
NE2 C:HIS213 4.3 13.0 1.0
CG C:LYS210 4.4 14.5 1.0
CG C:GLN88 4.5 12.3 1.0
CB C:VAL116 4.5 10.7 1.0
CD C:PRO176 4.5 15.1 1.0
CA C:LYS210 4.6 13.9 1.0
CD C:LYS210 4.7 14.8 1.0
CA C:PRO176 4.7 15.0 1.0
CG1 C:VAL116 4.7 10.9 1.0
CB C:LYS210 4.9 14.4 1.0
CA C:HIS213 4.9 13.2 1.0
O C:HOH575 4.9 29.9 1.0
CE C:LYS210 5.0 14.7 1.0
OD1 C:ASP93 5.0 13.9 1.0

Copper binding site 4 out of 4 in 7mms

Go back to Copper Binding Sites List in 7mms
Copper binding site 4 out of 4 in the Crystal Structure of the Class Ie Ribonucleotide Reductase Beta-Nrdi Complex From Aerococcus Urinae in Semiquinone Form with Cu(I) Bound


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 4 of Crystal Structure of the Class Ie Ribonucleotide Reductase Beta-Nrdi Complex From Aerococcus Urinae in Semiquinone Form with Cu(I) Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cu403

b:42.0
occ:0.74
 ND1 C:HIS256 1.9 21.7 1.0
CE1 C:HIS256 2.9 21.5 1.0
CG C:HIS256 2.9 21.7 1.0
CB C:HIS256 3.3 20.8 1.0
O C:HOH567 3.8 22.8 1.0
CB C:ALA265 3.8 24.0 1.0
CA C:HIS256 3.8 20.2 1.0
NE2 C:HIS256 4.0 21.8 1.0
CD2 C:HIS256 4.0 22.0 1.0
O C:HOH528 4.4 31.4 1.0
C C:HIS256 4.9 20.5 1.0
N C:HIS256 4.9 18.8 1.0
O C:HIS256 4.9 21.0 1.0
CD1 C:ILE269 4.9 19.2 1.0

Reference:

G.M.Palowitch, A.K.Boal. Ribonucleotide Reductase To Be Published.
Page generated: Wed Jul 31 08:37:40 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