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Sodium in PDB 3v2v: Nitrite Bound Chlorin Substituted Myoglobin- Method 1

Protein crystallography data

The structure of Nitrite Bound Chlorin Substituted Myoglobin- Method 1, PDB code: 3v2v was solved by J.Yi, L.M.Thomas, G.B.Ricther-Addo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 26.23 / 1.65
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 34.432, 30.519, 63.579, 90.00, 105.23, 90.00
R / Rfree (%) 19.2 / 21.8

Other elements in 3v2v:

The structure of Nitrite Bound Chlorin Substituted Myoglobin- Method 1 also contains other interesting chemical elements:

Iron (Fe) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Nitrite Bound Chlorin Substituted Myoglobin- Method 1 (pdb code 3v2v). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Nitrite Bound Chlorin Substituted Myoglobin- Method 1, PDB code: 3v2v:

Sodium binding site 1 out of 1 in 3v2v

Go back to Sodium Binding Sites List in 3v2v
Sodium binding site 1 out of 1 in the Nitrite Bound Chlorin Substituted Myoglobin- Method 1


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Nitrite Bound Chlorin Substituted Myoglobin- Method 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na160

b:32.8
occ:1.00
OG A:SER92 2.7 28.1 1.0
CD2 A:LEU89 3.4 24.6 1.0
O4 A:HKL154 3.5 31.6 1.0
O A:PRO88 3.6 19.2 1.0
CB A:SER92 3.7 25.7 1.0
CA A:LEU89 3.7 17.9 1.0
C27 A:HKL154 3.8 22.5 1.0
C29 A:HKL154 3.9 31.2 1.0
CG A:LEU89 3.9 21.5 1.0
C A:PRO88 3.9 20.2 1.0
O1 A:NO2156 4.0 44.2 1.0
C28 A:HKL154 4.0 26.8 1.0
N A:LEU89 4.0 19.2 1.0
CB A:LEU89 4.4 18.1 1.0
N A:NO2156 4.5 44.6 1.0
O2 A:NO2156 4.6 44.5 1.0
CB A:PRO88 4.8 21.3 1.0
C A:LEU89 4.8 17.1 1.0
O2 A:HKL154 4.8 33.5 1.0
O A:LEU89 4.8 17.4 1.0
CE1 A:HIS93 4.8 19.4 1.0
ND1 A:HIS93 4.9 19.8 1.0
C26 A:HKL154 4.9 19.8 1.0
CA A:PRO88 4.9 20.9 1.0
CA A:SER92 5.0 25.1 1.0

Reference:

J.Yi, L.M.Thomas, G.B.Richter-Addo. Distal Pocket Control of Nitrite Binding in Myoglobin Angew.Chem.Int.Ed.Engl. V. 51 3625 2012.
ISSN: ISSN 1433-7851
PubMed: 22383424
DOI: 10.1002/ANIE.201200010
Page generated: Tue Dec 15 06:28:04 2020

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