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Manganese in PDB 2e6c: Crystal Structure of the Stationary Phase Survival Protein Sure From Thermus Thermophilus HB8 Cocrystallized with Manganese and Amp

Enzymatic activity of Crystal Structure of the Stationary Phase Survival Protein Sure From Thermus Thermophilus HB8 Cocrystallized with Manganese and Amp

All present enzymatic activity of Crystal Structure of the Stationary Phase Survival Protein Sure From Thermus Thermophilus HB8 Cocrystallized with Manganese and Amp:
3.1.3.5;

Protein crystallography data

The structure of Crystal Structure of the Stationary Phase Survival Protein Sure From Thermus Thermophilus HB8 Cocrystallized with Manganese and Amp, PDB code: 2e6c was solved by W.Iwasaki, K.Miki, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.56 / 2.05
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 132.599, 132.599, 130.783, 90.00, 90.00, 120.00
R / Rfree (%) 20.8 / 24.9

Manganese Binding Sites:

The binding sites of Manganese atom in the Crystal Structure of the Stationary Phase Survival Protein Sure From Thermus Thermophilus HB8 Cocrystallized with Manganese and Amp (pdb code 2e6c). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 4 binding sites of Manganese where determined in the Crystal Structure of the Stationary Phase Survival Protein Sure From Thermus Thermophilus HB8 Cocrystallized with Manganese and Amp, PDB code: 2e6c:
Jump to Manganese binding site number: 1; 2; 3; 4;

Manganese binding site 1 out of 4 in 2e6c

Go back to Manganese Binding Sites List in 2e6c
Manganese binding site 1 out of 4 in the Crystal Structure of the Stationary Phase Survival Protein Sure From Thermus Thermophilus HB8 Cocrystallized with Manganese and Amp


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Crystal Structure of the Stationary Phase Survival Protein Sure From Thermus Thermophilus HB8 Cocrystallized with Manganese and Amp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn301

b:25.8
occ:1.00
 OD2 A:ASP8 2.1 24.0 1.0
OD1 A:ASN96 2.2 21.2 1.0
OE1 C:GLU37 2.2 20.2 1.0
OD1 A:ASP9 2.2 24.0 1.0
O A:HOH594 2.5 27.7 1.0
CG A:ASP8 3.1 24.2 1.0
CD C:GLU37 3.1 24.0 1.0
CG A:ASN96 3.2 22.2 1.0
CG A:ASP9 3.2 29.9 1.0
OD1 A:ASP8 3.4 22.2 1.0
ND2 A:ASN96 3.5 20.7 1.0
OE2 C:GLU37 3.6 29.6 1.0
OD2 A:ASP9 3.7 23.2 1.0
O C:HOH2436 3.9 39.0 1.0
CG C:GLU37 4.2 32.0 1.0
N A:ASP9 4.3 22.2 1.0
OG1 A:THR110 4.3 21.1 1.0
O A:HOH506 4.3 20.2 1.0
C A:ASP8 4.4 24.7 1.0
CB A:ASP9 4.4 23.7 1.0
CA A:ASP9 4.5 25.1 1.0
CB A:ASP8 4.5 22.3 1.0
CB A:ASN96 4.6 18.7 1.0
O A:ASP8 4.7 21.5 1.0
O A:LEU97 4.8 22.4 1.0
N A:LEU97 4.9 20.6 1.0
CA A:ASP8 4.9 24.7 1.0
O A:HOH585 5.0 39.1 1.0

Manganese binding site 2 out of 4 in 2e6c

Go back to Manganese Binding Sites List in 2e6c
Manganese binding site 2 out of 4 in the Crystal Structure of the Stationary Phase Survival Protein Sure From Thermus Thermophilus HB8 Cocrystallized with Manganese and Amp


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Crystal Structure of the Stationary Phase Survival Protein Sure From Thermus Thermophilus HB8 Cocrystallized with Manganese and Amp within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn1301

b:48.7
occ:1.00
 OD1 B:ASN96 2.2 23.3 1.0
OD2 B:ASP9 2.3 26.1 1.0
OD2 B:ASP8 2.5 48.0 1.0
CG B:ASN96 3.2 29.9 1.0
CG B:ASP8 3.3 42.4 1.0
CG B:ASP9 3.3 33.8 1.0
OD1 B:ASP8 3.4 43.9 1.0
ND2 B:ASN96 3.5 23.7 1.0
OD1 B:ASP9 3.8 30.7 1.0
O B:HOH1519 4.2 24.3 1.0
N B:ASP9 4.3 27.7 1.0
CA B:ASP9 4.4 29.5 1.0
C B:ASP8 4.5 27.9 1.0
CB B:ASP9 4.5 33.4 1.0
CB B:ASN96 4.5 24.9 1.0
OG1 B:THR110 4.6 25.5 1.0
CB B:ASP8 4.7 35.8 1.0
O B:ASP8 4.7 31.7 1.0
O B:LEU97 4.8 29.1 1.0

Manganese binding site 3 out of 4 in 2e6c

Go back to Manganese Binding Sites List in 2e6c
Manganese binding site 3 out of 4 in the Crystal Structure of the Stationary Phase Survival Protein Sure From Thermus Thermophilus HB8 Cocrystallized with Manganese and Amp


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Crystal Structure of the Stationary Phase Survival Protein Sure From Thermus Thermophilus HB8 Cocrystallized with Manganese and Amp within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mn2301

b:24.8
occ:1.00
 OD2 C:ASP8 2.1 21.5 1.0
OD1 C:ASN96 2.2 18.3 1.0
O C:HOH2470 2.2 26.5 1.0
OD1 C:ASP9 2.2 28.4 1.0
OE2 A:GLU37 2.3 21.2 1.0
CG C:ASP8 3.1 26.9 1.0
CG C:ASN96 3.1 21.0 1.0
CG C:ASP9 3.2 26.6 1.0
CD A:GLU37 3.2 32.2 1.0
OD1 C:ASP8 3.4 28.9 1.0
ND2 C:ASN96 3.5 16.6 1.0
OD2 C:ASP9 3.6 26.8 1.0
OE1 A:GLU37 3.7 34.9 1.0
O C:HOH2408 4.2 24.2 1.0
N C:ASP9 4.3 20.8 1.0
OG1 C:THR110 4.3 20.1 1.0
C C:ASP8 4.3 20.9 1.0
CG A:GLU37 4.4 30.2 1.0
CB C:ASP9 4.4 25.1 1.0
CA C:ASP9 4.5 23.7 1.0
CB C:ASP8 4.5 23.0 1.0
CB C:ASN96 4.5 17.0 1.0
O C:ASP8 4.6 22.2 1.0
O C:LEU97 4.7 28.8 1.0
N C:LEU97 4.8 20.8 1.0
CA C:ASP8 4.9 25.6 1.0

Manganese binding site 4 out of 4 in 2e6c

Go back to Manganese Binding Sites List in 2e6c
Manganese binding site 4 out of 4 in the Crystal Structure of the Stationary Phase Survival Protein Sure From Thermus Thermophilus HB8 Cocrystallized with Manganese and Amp


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of Crystal Structure of the Stationary Phase Survival Protein Sure From Thermus Thermophilus HB8 Cocrystallized with Manganese and Amp within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mn3301

b:42.8
occ:1.00
 OD2 D:ASP9 2.2 28.2 1.0
OD1 D:ASN96 2.2 22.7 1.0
OD2 D:ASP8 3.1 49.8 1.0
CG D:ASP9 3.2 33.0 1.0
CG D:ASN96 3.3 30.2 1.0
ND2 D:ASN96 3.7 20.0 1.0
OD1 D:ASP9 3.7 29.9 1.0
CB D:ASP8 3.7 36.8 1.0
CG D:ASP8 3.9 41.7 1.0
O D:HOH3420 4.1 26.7 1.0
N D:ASP9 4.1 26.0 1.0
C D:ASP8 4.3 28.7 1.0
CB D:ASP9 4.4 25.0 1.0
CA D:ASP9 4.5 26.9 1.0
OG1 D:THR110 4.5 22.5 1.0
CB D:ASN96 4.6 16.2 1.0
CA D:ASP8 4.6 27.5 1.0
O D:ASP8 4.8 28.5 1.0
N D:LEU97 5.0 27.2 1.0
O D:LEU97 5.0 30.6 1.0

Reference:

W.Iwasaki, K.Miki. Crystal Structure of the Stationary Phase Survival Protein Sure with Metal Ion and Amp J.Mol.Biol. V. 371 123 2007.
ISSN: ISSN 0022-2836
PubMed: 17561111
DOI: 10.1016/J.JMB.2007.05.007
Page generated: Sat Oct 5 13:55:15 2024

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