Atomistry » Iron » PDB 6qk1-6r63 » 6qo7
Atomistry »
  Iron »
    PDB 6qk1-6r63 »
      6qo7 »

Iron in PDB 6qo7: Crystal Structure of Ribonucleotide Reductase Nrdf From Bacillus Anthracis Aerobically Soaked with Ferrous Ions (Photo-Reduced)

Enzymatic activity of Crystal Structure of Ribonucleotide Reductase Nrdf From Bacillus Anthracis Aerobically Soaked with Ferrous Ions (Photo-Reduced)

All present enzymatic activity of Crystal Structure of Ribonucleotide Reductase Nrdf From Bacillus Anthracis Aerobically Soaked with Ferrous Ions (Photo-Reduced):
1.17.4.1;

Protein crystallography data

The structure of Crystal Structure of Ribonucleotide Reductase Nrdf From Bacillus Anthracis Aerobically Soaked with Ferrous Ions (Photo-Reduced), PDB code: 6qo7 was solved by K.Grave, M.Hogbom, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 41.82 / 1.63
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 57.293, 59.958, 95.360, 90.00, 107.11, 90.00
R / Rfree (%) 15.9 / 19.2

Other elements in 6qo7:

The structure of Crystal Structure of Ribonucleotide Reductase Nrdf From Bacillus Anthracis Aerobically Soaked with Ferrous Ions (Photo-Reduced) also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Iron Binding Sites:

The binding sites of Iron atom in the Crystal Structure of Ribonucleotide Reductase Nrdf From Bacillus Anthracis Aerobically Soaked with Ferrous Ions (Photo-Reduced) (pdb code 6qo7). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Crystal Structure of Ribonucleotide Reductase Nrdf From Bacillus Anthracis Aerobically Soaked with Ferrous Ions (Photo-Reduced), PDB code: 6qo7:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 6qo7

Go back to Iron Binding Sites List in 6qo7
Iron binding site 1 out of 4 in the Crystal Structure of Ribonucleotide Reductase Nrdf From Bacillus Anthracis Aerobically Soaked with Ferrous Ions (Photo-Reduced)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Crystal Structure of Ribonucleotide Reductase Nrdf From Bacillus Anthracis Aerobically Soaked with Ferrous Ions (Photo-Reduced) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe401

b:15.3
occ:1.00
OE1 A:GLU93 2.1 21.6 1.0
OE1 A:GLU161 2.1 22.6 1.0
ND1 A:HIS198 2.1 13.9 1.0
OE2 A:GLU195 2.1 18.6 1.0
OE2 A:GLU161 2.4 18.2 1.0
CD A:GLU161 2.5 19.2 1.0
CD A:GLU93 2.8 22.9 1.0
OE2 A:GLU93 2.9 19.9 1.0
CE1 A:HIS198 3.0 13.6 1.0
HE1 A:HIS198 3.1 16.3 1.0
HA A:GLU195 3.2 16.7 1.0
CG A:HIS198 3.2 13.9 1.0
HB2 A:HIS198 3.2 13.5 1.0
CD A:GLU195 3.2 25.4 1.0
HB3 A:HIS198 3.4 13.5 1.0
CB A:HIS198 3.5 11.3 1.0
HE2 A:PHE165 3.7 21.3 1.0
HG2 A:GLN65 3.7 26.0 1.0
FE A:FE2402 3.9 17.8 1.0
OE1 A:GLU195 3.9 20.6 1.0
CG A:GLU161 4.0 18.5 1.0
CA A:GLU195 4.1 13.9 1.0
HB3 A:GLU195 4.1 20.1 1.0
HE3 A:MET70 4.1 32.8 1.0
HE1 A:HIS96 4.1 20.5 1.0
NE2 A:HIS198 4.2 13.2 1.0
CG A:GLU93 4.2 15.4 1.0
HE21 A:GLN65 4.3 26.8 1.0
CD2 A:HIS198 4.3 14.7 1.0
CG A:GLU195 4.3 23.9 1.0
CB A:GLU195 4.3 16.8 1.0
HG2 A:GLU93 4.4 18.5 1.0
HB3 A:GLU161 4.4 17.3 1.0
HG3 A:GLU93 4.4 18.5 1.0
HG3 A:GLU161 4.4 22.2 1.0
HE2 A:MET70 4.5 32.8 1.0
HG2 A:GLU161 4.5 22.2 1.0
CE2 A:PHE165 4.5 17.7 1.0
HA A:GLU161 4.5 15.8 1.0
HZ A:PHE165 4.5 18.9 1.0
CG A:GLN65 4.6 21.7 1.0
CE A:MET70 4.7 27.3 1.0
CB A:GLU161 4.7 14.4 1.0
N A:GLU195 4.8 14.6 1.0
HG3 A:GLN65 4.9 26.0 1.0
CE1 A:HIS96 4.9 17.1 1.0
HG3 A:GLU195 4.9 28.6 1.0
HG2 A:GLU195 4.9 28.6 1.0
HE2 A:HIS198 4.9 15.9 1.0
HB3 A:MET89 4.9 15.0 1.0
CZ A:PHE165 4.9 15.8 1.0
O A:GLU195 5.0 13.7 1.0
HE1 A:MET70 5.0 32.8 1.0
CA A:HIS198 5.0 14.5 1.0
OD1 A:ASP62 5.0 19.7 1.0

Iron binding site 2 out of 4 in 6qo7

Go back to Iron Binding Sites List in 6qo7
Iron binding site 2 out of 4 in the Crystal Structure of Ribonucleotide Reductase Nrdf From Bacillus Anthracis Aerobically Soaked with Ferrous Ions (Photo-Reduced)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Crystal Structure of Ribonucleotide Reductase Nrdf From Bacillus Anthracis Aerobically Soaked with Ferrous Ions (Photo-Reduced) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe402

b:17.8
occ:1.00
OD1 A:ASP62 2.0 19.7 1.0
ND1 A:HIS96 2.0 14.1 1.0
OE1 A:GLU195 2.0 20.6 1.0
OE2 A:GLU93 2.2 19.9 1.0
CD A:GLU195 2.7 25.4 1.0
CG A:ASP62 2.8 14.4 1.0
OE2 A:GLU195 2.8 18.6 1.0
CE1 A:HIS96 2.9 17.1 1.0
HE1 A:HIS96 3.0 20.5 1.0
OD2 A:ASP62 3.0 20.6 1.0
HA A:GLU93 3.0 17.2 1.0
CD A:GLU93 3.1 22.9 1.0
CG A:HIS96 3.2 13.3 1.0
HB2 A:HIS96 3.3 18.5 1.0
HZ A:PHE165 3.5 18.9 1.0
HG23 A:ILE191 3.6 17.1 1.0
CB A:HIS96 3.6 15.4 1.0
HB3 A:HIS96 3.6 18.5 1.0
OE1 A:GLU93 3.7 21.6 1.0
FE A:FE2401 3.9 15.3 1.0
CA A:GLU93 3.9 14.3 1.0
O A:HOH501 3.9 39.0 1.0
CZ A:PHE165 4.0 15.8 1.0
HB3 A:GLU93 4.0 16.2 1.0
NE2 A:HIS96 4.0 13.8 1.0
CG A:GLU195 4.1 23.9 1.0
CD2 A:HIS96 4.2 13.5 1.0
CB A:ASP62 4.2 15.7 1.0
CG A:GLU93 4.2 15.4 1.0
CB A:GLU93 4.2 13.5 1.0
HA A:ASP62 4.3 16.0 1.0
CG2 A:ILE191 4.3 14.2 1.0
HG2 A:GLU195 4.3 28.6 1.0
HE2 A:PHE165 4.3 21.3 1.0
HE1 A:HIS198 4.4 16.3 1.0
HG3 A:GLU195 4.4 28.6 1.0
CE2 A:PHE165 4.4 17.7 1.0
HG21 A:ILE191 4.4 17.1 1.0
HB3 A:ASP62 4.4 18.9 1.0
HG22 A:ILE191 4.5 17.1 1.0
O A:GLU93 4.6 13.2 1.0
CE1 A:PHE165 4.7 13.6 1.0
HG2 A:GLU93 4.8 18.5 1.0
N A:GLU93 4.8 12.9 1.0
HH A:TYR100 4.8 40.0 1.0
HE1 A:PHE165 4.8 16.3 1.0
HE2 A:HIS96 4.8 16.6 1.0
C A:GLU93 4.8 13.4 1.0
CA A:ASP62 4.8 13.3 1.0
HG3 A:GLU93 4.8 18.5 1.0
HB2 A:ASP62 4.8 18.9 1.0
O A:MET92 4.8 12.7 1.0

Iron binding site 3 out of 4 in 6qo7

Go back to Iron Binding Sites List in 6qo7
Iron binding site 3 out of 4 in the Crystal Structure of Ribonucleotide Reductase Nrdf From Bacillus Anthracis Aerobically Soaked with Ferrous Ions (Photo-Reduced)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Crystal Structure of Ribonucleotide Reductase Nrdf From Bacillus Anthracis Aerobically Soaked with Ferrous Ions (Photo-Reduced) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe401

b:16.1
occ:1.00
OD1 B:ASP62 2.0 21.7 1.0
OE2 B:GLU195 2.1 20.9 1.0
ND1 B:HIS96 2.1 12.6 1.0
OE2 B:GLU93 2.2 18.9 1.0
CD B:GLU195 2.7 22.2 1.0
CG B:ASP62 2.8 20.2 1.0
OE1 B:GLU195 2.8 18.3 1.0
CE1 B:HIS96 2.9 13.5 1.0
OD2 B:ASP62 3.0 22.2 1.0
HA B:GLU93 3.0 14.3 1.0
HE1 B:HIS96 3.0 16.2 1.0
CD B:GLU93 3.1 17.1 1.0
CG B:HIS96 3.2 13.4 1.0
HB2 B:HIS96 3.3 19.1 1.0
HG23 B:ILE191 3.5 15.5 1.0
CB B:HIS96 3.6 15.9 1.0
HZ B:PHE165 3.6 22.4 1.0
HB3 B:HIS96 3.6 19.1 1.0
OE1 B:GLU93 3.7 21.5 1.0
CA B:GLU93 3.9 11.9 1.0
FE B:FE2402 3.9 14.5 1.0
O B:HOH502 3.9 29.9 1.0
HB3 B:GLU93 4.0 16.0 1.0
CZ B:PHE165 4.0 18.7 1.0
NE2 B:HIS96 4.1 12.8 1.0
CG B:GLU195 4.2 18.9 1.0
CB B:ASP62 4.2 14.5 1.0
CG B:GLU93 4.2 13.2 1.0
CB B:GLU93 4.2 13.3 1.0
CD2 B:HIS96 4.2 12.6 1.0
HA B:ASP62 4.3 17.5 1.0
HE2 B:PHE165 4.3 23.2 1.0
HE1 B:HIS198 4.3 14.1 1.0
CG2 B:ILE191 4.3 12.9 1.0
HG2 B:GLU195 4.4 22.7 1.0
HB3 B:ASP62 4.4 17.4 1.0
CE2 B:PHE165 4.4 19.3 1.0
HG3 B:GLU195 4.4 22.7 1.0
HG21 B:ILE191 4.5 15.5 1.0
HG22 B:ILE191 4.5 15.5 1.0
O B:GLU93 4.6 13.4 1.0
N B:GLU93 4.7 11.7 1.0
HG2 B:GLU93 4.8 15.9 1.0
C B:GLU93 4.8 15.9 1.0
HB2 B:ASP62 4.8 17.4 1.0
HG3 B:GLU93 4.8 15.9 1.0
CE1 B:PHE165 4.8 15.2 1.0
O B:MET92 4.8 12.0 1.0
CA B:ASP62 4.8 14.6 1.0
HE2 B:HIS96 4.8 15.4 1.0
HE1 B:PHE165 4.9 18.2 1.0
CE1 B:HIS198 4.9 11.8 1.0

Iron binding site 4 out of 4 in 6qo7

Go back to Iron Binding Sites List in 6qo7
Iron binding site 4 out of 4 in the Crystal Structure of Ribonucleotide Reductase Nrdf From Bacillus Anthracis Aerobically Soaked with Ferrous Ions (Photo-Reduced)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Crystal Structure of Ribonucleotide Reductase Nrdf From Bacillus Anthracis Aerobically Soaked with Ferrous Ions (Photo-Reduced) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe402

b:14.5
occ:1.00
OE2 B:GLU161 2.0 22.3 1.0
OE1 B:GLU93 2.1 21.5 1.0
ND1 B:HIS198 2.1 12.6 1.0
OE1 B:GLU195 2.1 18.3 1.0
OE1 B:GLU161 2.4 20.6 1.0
CD B:GLU161 2.5 19.9 1.0
CD B:GLU93 2.8 17.1 1.0
OE2 B:GLU93 2.9 18.9 1.0
CE1 B:HIS198 3.1 11.8 1.0
HA B:GLU195 3.2 19.1 1.0
CG B:HIS198 3.2 13.8 1.0
HE1 B:HIS198 3.2 14.1 1.0
HB2 B:HIS198 3.2 14.0 1.0
CD B:GLU195 3.3 22.2 1.0
HB3 B:HIS198 3.4 14.0 1.0
CB B:HIS198 3.5 11.7 1.0
HE2 B:PHE165 3.6 23.2 1.0
HG2 B:GLN65 3.7 34.5 1.0
FE B:FE2401 3.9 16.1 1.0
OE2 B:GLU195 4.0 20.9 1.0
CG B:GLU161 4.0 17.4 1.0
HB3 B:GLU195 4.0 18.7 1.0
CA B:GLU195 4.0 15.9 1.0
CG B:GLU93 4.2 13.2 1.0
NE2 B:HIS198 4.2 12.1 1.0
HE1 B:HIS96 4.2 16.2 1.0
CD2 B:HIS198 4.3 12.6 1.0
HE21 B:GLN65 4.3 29.3 1.0
HE3 B:MET70 4.3 40.1 1.0
HE2 B:MET70 4.3 40.1 1.0
HB3 B:GLU161 4.3 16.0 1.0
CB B:GLU195 4.3 15.6 1.0
CG B:GLU195 4.3 18.9 1.0
CE2 B:PHE165 4.4 19.3 1.0
HG2 B:GLU93 4.4 15.9 1.0
HG3 B:GLU161 4.4 20.9 1.0
HG3 B:GLU93 4.4 15.9 1.0
HG2 B:GLU161 4.5 20.9 1.0
HA B:GLU161 4.5 18.2 1.0
HZ B:PHE165 4.5 22.4 1.0
CG B:GLN65 4.6 28.8 1.0
CB B:GLU161 4.6 13.3 1.0
CE B:MET70 4.7 33.4 1.0
N B:GLU195 4.8 13.1 1.0
HG3 B:GLN65 4.9 34.5 1.0
CZ B:PHE165 4.9 18.7 1.0
HG3 B:GLU195 4.9 22.7 1.0
OD1 B:ASP62 4.9 21.7 1.0
CE1 B:HIS96 4.9 13.5 1.0
HG2 B:GLU195 4.9 22.7 1.0
O B:GLU195 4.9 12.8 1.0
HE2 B:HIS198 5.0 14.6 1.0
HB3 B:MET89 5.0 14.7 1.0
HE1 B:MET70 5.0 40.1 1.0
O B:ASP194 5.0 14.6 1.0

Reference:

K.Grave, W.Lambert, G.Berggren, J.J.Griese, M.D.Bennett, D.T.Logan, M.Hogbom. Redox-Induced Structural Changes in the Di-Iron and Di-Manganese Forms of Bacillus Anthracis Ribonucleotide Reductase Subunit Nrdf Suggest A Mechanism For Gating of Radical Access. J.Biol.Inorg.Chem. V. 24 849 2019.
ISSN: ESSN 1432-1327
PubMed: 31410573
DOI: 10.1007/S00775-019-01703-Z
Page generated: Sun Dec 13 16:57:35 2020

Last articles

Zn in 7L0B
Zn in 7KZZ
Zn in 7KZL
Zn in 7L3O
Zn in 7L52
Zn in 7L6T
Zn in 7KZ7
Zn in 7L6R
Zn in 7KKM
Zn in 7KKQ
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy