Atomistry » Manganese » PDB 8awx-8djy » 8dge
Atomistry »
  Manganese »
    PDB 8awx-8djy »
      8dge »

Manganese in PDB 8dge: BOGH13ASUS From Bacteroides Ovatus

Protein crystallography data

The structure of BOGH13ASUS From Bacteroides Ovatus, PDB code: 8dge was solved by H.A.Brown, A.L.Deveaux, N.M.Koropatkin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 62.00 / 1.89
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 100.387, 148.443, 112.77, 90, 91, 90
R / Rfree (%) 20.9 / 27.1

Other elements in 8dge:

The structure of BOGH13ASUS From Bacteroides Ovatus also contains other interesting chemical elements:

Calcium (Ca) 4 atoms

Manganese Binding Sites:

The binding sites of Manganese atom in the BOGH13ASUS From Bacteroides Ovatus (pdb code 8dge). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 4 binding sites of Manganese where determined in the BOGH13ASUS From Bacteroides Ovatus, PDB code: 8dge:
Jump to Manganese binding site number: 1; 2; 3; 4;

Manganese binding site 1 out of 4 in 8dge

Go back to Manganese Binding Sites List in 8dge
Manganese binding site 1 out of 4 in the BOGH13ASUS From Bacteroides Ovatus


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of BOGH13ASUS From Bacteroides Ovatus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn802

b:35.0
occ:1.00
 OD1 A:ASP446 2.1 24.5 1.0
O A:HOH960 2.1 23.7 1.0
O A:GLY481 2.2 27.1 1.0
O A:HOH926 2.2 29.3 1.0
NE2 A:HIS437 2.3 23.0 1.0
OD1 A:ASN404 2.3 24.0 1.0
CG A:ASP446 3.0 24.5 1.0
C A:GLY481 3.2 26.9 1.0
CE1 A:HIS437 3.2 23.8 1.0
CD2 A:HIS437 3.3 23.9 1.0
OD2 A:ASP446 3.3 26.3 1.0
CG A:ASN404 3.5 21.1 1.0
CA A:GLY481 3.8 26.4 1.0
O A:ASN404 3.8 23.4 1.0
O A:PHE447 4.0 25.1 1.0
ND2 A:ASN404 4.2 19.9 1.0
N A:PHE482 4.3 26.6 1.0
ND1 A:HIS437 4.4 24.4 1.0
CB A:ASP446 4.4 25.8 1.0
O A:THR483 4.4 23.3 1.0
CG A:HIS437 4.4 24.4 1.0
CB A:ASN404 4.5 23.8 1.0
C A:ASN404 4.5 23.4 1.0
CA A:ASN404 4.5 23.4 1.0
N A:THR483 4.5 23.4 1.0
CA A:PHE482 4.6 26.4 1.0
O A:HOH1019 4.6 25.6 1.0
N A:PHE447 4.8 24.6 1.0
CA A:ASP446 4.9 25.4 1.0

Manganese binding site 2 out of 4 in 8dge

Go back to Manganese Binding Sites List in 8dge
Manganese binding site 2 out of 4 in the BOGH13ASUS From Bacteroides Ovatus


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of BOGH13ASUS From Bacteroides Ovatus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn802

b:33.3
occ:1.00
 O B:GLY481 2.0 25.2 1.0
OD1 B:ASP446 2.1 25.4 1.0
NE2 B:HIS437 2.2 25.3 1.0
OD1 B:ASN404 2.2 23.6 1.0
O B:HOH934 2.2 27.1 1.0
O B:HOH951 2.3 29.4 1.0
C B:GLY481 3.0 25.2 1.0
CG B:ASP446 3.0 24.6 1.0
CD2 B:HIS437 3.1 27.0 1.0
CE1 B:HIS437 3.3 26.8 1.0
OD2 B:ASP446 3.3 27.7 1.0
CG B:ASN404 3.3 23.0 1.0
CA B:GLY481 3.5 23.9 1.0
O B:ASN404 3.7 26.4 1.0
ND2 B:ASN404 3.9 26.0 1.0
O B:PHE447 4.1 24.4 1.0
N B:PHE482 4.2 25.5 1.0
CG B:HIS437 4.3 27.1 1.0
ND1 B:HIS437 4.3 26.5 1.0
O B:THR483 4.4 24.2 1.0
CB B:ASP446 4.4 24.5 1.0
CB B:ASN404 4.4 22.5 1.0
C B:ASN404 4.5 23.6 1.0
N B:THR483 4.5 25.4 1.0
CA B:ASN404 4.5 24.5 1.0
CA B:PHE482 4.6 25.6 1.0
O B:HOH1162 4.7 26.8 1.0
N B:GLY481 5.0 25.3 1.0
N B:PHE447 5.0 25.5 1.0

Manganese binding site 3 out of 4 in 8dge

Go back to Manganese Binding Sites List in 8dge
Manganese binding site 3 out of 4 in the BOGH13ASUS From Bacteroides Ovatus


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of BOGH13ASUS From Bacteroides Ovatus within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mn802

b:33.2
occ:1.00
 OD1 C:ASN404 2.1 25.5 1.0
O C:GLY481 2.1 24.7 1.0
OD1 C:ASP446 2.2 23.4 1.0
O C:HOH935 2.3 24.3 1.0
NE2 C:HIS437 2.3 22.6 1.0
O C:HOH923 2.3 26.4 1.0
CG C:ASP446 3.0 24.4 1.0
C C:GLY481 3.2 25.5 1.0
CE1 C:HIS437 3.2 23.5 1.0
CG C:ASN404 3.2 22.9 1.0
OD2 C:ASP446 3.2 25.4 1.0
CD2 C:HIS437 3.3 22.8 1.0
O C:ASN404 3.6 22.6 1.0
CA C:GLY481 3.7 25.8 1.0
ND2 C:ASN404 3.9 24.1 1.0
O C:PHE447 4.1 21.2 1.0
N C:PHE482 4.2 26.1 1.0
ND1 C:HIS437 4.3 21.8 1.0
CB C:ASN404 4.4 22.2 1.0
O C:THR483 4.4 27.2 1.0
C C:ASN404 4.4 22.1 1.0
CG C:HIS437 4.4 22.0 1.0
CB C:ASP446 4.4 24.4 1.0
O C:HOH1178 4.5 26.4 1.0
CA C:ASN404 4.5 22.8 1.0
N C:THR483 4.6 25.3 1.0
CA C:PHE482 4.6 26.3 1.0
N C:PHE447 5.0 23.9 1.0

Manganese binding site 4 out of 4 in 8dge

Go back to Manganese Binding Sites List in 8dge
Manganese binding site 4 out of 4 in the BOGH13ASUS From Bacteroides Ovatus


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of BOGH13ASUS From Bacteroides Ovatus within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mn802

b:31.0
occ:1.00
 O D:HOH938 2.0 24.9 1.0
O D:GLY481 2.1 24.2 1.0
OD1 D:ASP446 2.1 23.0 1.0
O D:HOH972 2.2 23.6 1.0
NE2 D:HIS437 2.2 23.9 1.0
OD1 D:ASN404 2.2 24.0 1.0
CG D:ASP446 3.0 23.8 1.0
CE1 D:HIS437 3.1 26.1 1.0
C D:GLY481 3.2 25.7 1.0
CD2 D:HIS437 3.2 25.2 1.0
OD2 D:ASP446 3.3 24.9 1.0
CG D:ASN404 3.3 23.4 1.0
CA D:GLY481 3.6 26.5 1.0
O D:ASN404 3.8 27.9 1.0
ND2 D:ASN404 4.0 23.6 1.0
O D:PHE447 4.1 25.0 1.0
N D:PHE482 4.3 26.2 1.0
ND1 D:HIS437 4.3 23.3 1.0
CG D:HIS437 4.3 25.0 1.0
CB D:ASP446 4.4 23.8 1.0
O D:THR483 4.4 25.9 1.0
CB D:ASN404 4.5 22.7 1.0
C D:ASN404 4.5 24.8 1.0
CA D:ASN404 4.6 25.1 1.0
N D:THR483 4.6 27.6 1.0
CA D:PHE482 4.6 24.9 1.0
O D:HOH1127 4.6 26.3 1.0
N D:PHE447 4.9 26.7 1.0

Reference:

H.A.Brown, A.L.Deveaux, N.M.Koropatkin. BOGH13ASUS From Bacteroides Ovatus To Be Published.
Page generated: Sun Oct 6 11:31:57 2024

Last articles

Zn in 9MJ5
Zn in 9HNW
Zn in 9G0L
Zn in 9FNE
Zn in 9DZN
Zn in 9E0I
Zn in 9D32
Zn in 9DAK
Zn in 8ZXC
Zn in 8ZUF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy