Atomistry » Manganese » PDB 8dnu-8f4e » 8dq5
Atomistry »
  Manganese »
    PDB 8dnu-8f4e »
      8dq5 »

Manganese in PDB 8dq5: X-Ray Crystal Structure of Flavobacterium Johnsoniae Dimanganese(II) Class Id Ribonucleotide Reductase T191I Variant

Enzymatic activity of X-Ray Crystal Structure of Flavobacterium Johnsoniae Dimanganese(II) Class Id Ribonucleotide Reductase T191I Variant

All present enzymatic activity of X-Ray Crystal Structure of Flavobacterium Johnsoniae Dimanganese(II) Class Id Ribonucleotide Reductase T191I Variant:
1.17.4.1;

Protein crystallography data

The structure of X-Ray Crystal Structure of Flavobacterium Johnsoniae Dimanganese(II) Class Id Ribonucleotide Reductase T191I Variant, PDB code: 8dq5 was solved by H.R.Rose, A.K.Boal, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.57 / 2.10
Space group P 31
Cell size a, b, c (Å), α, β, γ (°) 53.771, 53.771, 221.288, 90, 90, 120
R / Rfree (%) 24.7 / 28.2

Other elements in 8dq5:

The structure of X-Ray Crystal Structure of Flavobacterium Johnsoniae Dimanganese(II) Class Id Ribonucleotide Reductase T191I Variant also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Manganese Binding Sites:

The binding sites of Manganese atom in the X-Ray Crystal Structure of Flavobacterium Johnsoniae Dimanganese(II) Class Id Ribonucleotide Reductase T191I Variant (pdb code 8dq5). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 4 binding sites of Manganese where determined in the X-Ray Crystal Structure of Flavobacterium Johnsoniae Dimanganese(II) Class Id Ribonucleotide Reductase T191I Variant, PDB code: 8dq5:
Jump to Manganese binding site number: 1; 2; 3; 4;

Manganese binding site 1 out of 4 in 8dq5

Go back to Manganese Binding Sites List in 8dq5
Manganese binding site 1 out of 4 in the X-Ray Crystal Structure of Flavobacterium Johnsoniae Dimanganese(II) Class Id Ribonucleotide Reductase T191I Variant


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of X-Ray Crystal Structure of Flavobacterium Johnsoniae Dimanganese(II) Class Id Ribonucleotide Reductase T191I Variant within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn401

b:14.8
occ:0.30
 OE1 A:GLU67 2.3 19.9 1.0
O A:HOH535 2.5 11.8 1.0
ND1 A:HIS100 3.0 11.5 1.0
OE2 A:GLU195 3.3 21.9 1.0
CB A:HIS100 3.4 9.5 1.0
CD A:GLU67 3.4 18.8 1.0
O A:HOH508 3.5 9.4 1.0
CG A:HIS100 3.5 10.6 1.0
NZ A:LYS71 3.5 11.1 1.0
O A:HOH512 3.6 19.4 1.0
CG A:GLU97 3.8 17.8 1.0
CA A:GLU97 3.8 15.2 1.0
MN A:MN402 3.8 26.3 0.6
CB A:GLU97 4.0 11.0 1.0
OE2 A:GLU67 4.0 14.5 1.0
CE1 A:HIS100 4.1 13.9 1.0
O A:HOH502 4.2 13.9 1.0
O A:GLU97 4.3 10.9 1.0
CD A:GLU195 4.4 17.3 1.0
CG A:GLU67 4.4 9.8 1.0
C A:GLU97 4.6 11.5 1.0
CD A:LYS71 4.6 22.4 1.0
CB A:GLU67 4.6 11.1 1.0
CE A:LYS71 4.6 16.8 1.0
OE1 A:GLU195 4.7 20.7 1.0
CD2 A:HIS100 4.7 9.7 1.0
N A:GLU97 4.8 11.7 1.0
CA A:HIS100 4.8 12.5 1.0
CD A:GLU97 4.8 17.0 1.0
OE2 A:GLU97 4.9 17.8 1.0
O A:CYS96 5.0 7.0 1.0
NE2 A:HIS100 5.0 14.0 1.0

Manganese binding site 2 out of 4 in 8dq5

Go back to Manganese Binding Sites List in 8dq5
Manganese binding site 2 out of 4 in the X-Ray Crystal Structure of Flavobacterium Johnsoniae Dimanganese(II) Class Id Ribonucleotide Reductase T191I Variant


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of X-Ray Crystal Structure of Flavobacterium Johnsoniae Dimanganese(II) Class Id Ribonucleotide Reductase T191I Variant within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn402

b:26.3
occ:0.58
 OE2 A:GLU160 2.1 17.3 1.0
O A:HOH502 2.1 13.9 1.0
OE1 A:GLU195 2.3 20.7 1.0
O A:HOH512 2.3 19.4 1.0
ND1 A:HIS198 2.4 9.8 1.0
CD A:GLU195 3.0 17.3 1.0
OE2 A:GLU195 3.1 21.9 1.0
CD A:GLU160 3.2 12.6 1.0
CE1 A:HIS198 3.2 13.2 1.0
OE1 A:GLU160 3.5 15.0 1.0
CG A:HIS198 3.5 11.2 1.0
MN A:MN401 3.8 14.8 0.3
CB A:HIS198 3.9 6.1 1.0
NZ A:LYS71 3.9 11.1 1.0
OE2 A:GLU97 4.3 17.8 1.0
NE2 A:HIS198 4.4 11.1 1.0
CG A:GLU97 4.4 17.8 1.0
CG A:GLU195 4.4 9.0 1.0
OE1 A:GLU67 4.5 19.9 1.0
CG A:GLU160 4.5 21.8 1.0
CD2 A:HIS198 4.5 11.6 1.0
CA A:GLU195 4.6 8.9 1.0
CB A:GLU160 4.8 20.0 1.0
ND1 A:HIS100 4.8 11.5 1.0
CB A:GLU195 4.9 9.3 1.0
CD A:GLU97 4.9 17.0 1.0
CA A:GLU160 4.9 24.3 1.0
O A:ILE159 4.9 26.1 1.0
CE1 A:HIS100 5.0 13.9 1.0

Manganese binding site 3 out of 4 in 8dq5

Go back to Manganese Binding Sites List in 8dq5
Manganese binding site 3 out of 4 in the X-Ray Crystal Structure of Flavobacterium Johnsoniae Dimanganese(II) Class Id Ribonucleotide Reductase T191I Variant


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of X-Ray Crystal Structure of Flavobacterium Johnsoniae Dimanganese(II) Class Id Ribonucleotide Reductase T191I Variant within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn401

b:20.5
occ:0.31
 OE1 B:GLU67 2.5 20.2 1.0
O B:HOH507 3.1 10.2 1.0
NZ B:LYS71 3.1 13.3 1.0
CG B:GLU97 3.3 19.6 1.0
CD B:GLU67 3.3 24.8 1.0
MN B:MN402 3.3 38.8 0.7
O B:HOH504 3.3 26.2 1.0
OE2 B:GLU195 3.4 26.9 1.0
ND1 B:HIS100 3.5 14.9 1.0
OE2 B:GLU67 3.7 18.0 1.0
CB B:GLU97 3.7 10.8 1.0
O B:HOH501 3.8 18.3 1.0
CA B:GLU97 3.9 14.2 1.0
CB B:HIS100 4.0 11.3 1.0
CG B:HIS100 4.1 14.7 1.0
CE B:LYS71 4.2 24.6 1.0
CD B:LYS71 4.2 22.1 1.0
CD B:GLU97 4.3 18.4 1.0
OE2 B:GLU97 4.3 23.6 1.0
CG B:GLU67 4.4 12.3 1.0
CD B:GLU195 4.5 30.7 1.0
O B:GLU97 4.5 6.6 1.0
CE1 B:HIS100 4.6 19.2 1.0
CB B:GLU67 4.6 14.4 1.0
C B:GLU97 4.7 11.8 1.0
OE1 B:GLU195 4.8 38.6 1.0
N B:GLU97 4.9 8.4 1.0

Manganese binding site 4 out of 4 in 8dq5

Go back to Manganese Binding Sites List in 8dq5
Manganese binding site 4 out of 4 in the X-Ray Crystal Structure of Flavobacterium Johnsoniae Dimanganese(II) Class Id Ribonucleotide Reductase T191I Variant


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of X-Ray Crystal Structure of Flavobacterium Johnsoniae Dimanganese(II) Class Id Ribonucleotide Reductase T191I Variant within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn402

b:38.8
occ:0.70
 O B:HOH504 2.0 26.2 1.0
OE2 B:GLU160 2.4 39.4 1.0
OE1 B:GLU195 2.6 38.6 1.0
ND1 B:HIS198 2.7 21.9 1.0
OE2 B:GLU195 2.8 26.9 1.0
CD B:GLU195 3.0 30.7 1.0
CD B:GLU160 3.2 44.1 1.0
OE1 B:GLU160 3.2 37.7 1.0
MN B:MN401 3.3 20.5 0.3
CE1 B:HIS198 3.5 20.9 1.0
CG B:HIS198 3.8 27.4 1.0
NZ B:LYS71 3.8 13.3 1.0
OE2 B:GLU97 4.0 23.6 1.0
CG B:GLU97 4.1 19.6 1.0
OE1 B:GLU67 4.1 20.2 1.0
CB B:HIS198 4.1 20.3 1.0
CG B:GLU195 4.5 21.9 1.0
CD B:GLU97 4.5 18.4 1.0
CG B:GLU160 4.7 45.0 1.0
NE2 B:HIS198 4.7 21.4 1.0
ND1 B:HIS100 4.8 14.9 1.0
CD2 B:HIS198 4.8 19.5 1.0
CA B:GLU195 4.9 20.6 1.0
CA B:GLU160 5.0 49.2 1.0
CD B:GLU67 5.0 24.8 1.0

Reference:

H.R.Rose, A.K.Boal. X-Ray Crystal Structure of Flavobacterium Johnsoniae Dimanganese(II) Class Id Ribonucleotide Reductase T191I Variant To Be Published.
Page generated: Thu Dec 28 11:04:43 2023

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