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Sodium in PDB 3tmv: X-Ray Radiation Damage to Hewl Crystals Soaked in 100MM Sodium Nitrate (Dose=0.12MGY)

Enzymatic activity of X-Ray Radiation Damage to Hewl Crystals Soaked in 100MM Sodium Nitrate (Dose=0.12MGY)

All present enzymatic activity of X-Ray Radiation Damage to Hewl Crystals Soaked in 100MM Sodium Nitrate (Dose=0.12MGY):
3.2.1.17;

Protein crystallography data

The structure of X-Ray Radiation Damage to Hewl Crystals Soaked in 100MM Sodium Nitrate (Dose=0.12MGY), PDB code: 3tmv was solved by J.Kmetko, M.A.Warkentin, U.Englich, R.E.Thorne, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 35.72 / 1.90
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 79.876, 79.876, 38.736, 90.00, 90.00, 90.00
R / Rfree (%) 15.2 / 21.9

Other elements in 3tmv:

The structure of X-Ray Radiation Damage to Hewl Crystals Soaked in 100MM Sodium Nitrate (Dose=0.12MGY) also contains other interesting chemical elements:

Chlorine (Cl) 8 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the X-Ray Radiation Damage to Hewl Crystals Soaked in 100MM Sodium Nitrate (Dose=0.12MGY) (pdb code 3tmv). 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 X-Ray Radiation Damage to Hewl Crystals Soaked in 100MM Sodium Nitrate (Dose=0.12MGY), PDB code: 3tmv:

Sodium binding site 1 out of 1 in 3tmv

Go back to Sodium Binding Sites List in 3tmv
Sodium binding site 1 out of 1 in the X-Ray Radiation Damage to Hewl Crystals Soaked in 100MM Sodium Nitrate (Dose=0.12MGY)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of X-Ray Radiation Damage to Hewl Crystals Soaked in 100MM Sodium Nitrate (Dose=0.12MGY) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1138

b:20.9
occ:1.00
 O A:SER60 2.4 16.8 1.0
O A:CYS64 2.4 15.0 1.0
O A:ARG73 2.4 25.3 1.0
O A:HOH2081 2.5 27.4 1.0
OG A:SER72 2.6 29.1 1.0
O A:HOH2076 2.7 19.3 1.0
CB A:SER72 3.4 30.1 1.0
C A:CYS64 3.5 13.1 1.0
C A:SER60 3.5 16.2 1.0
C A:ARG73 3.6 25.6 1.0
CA A:ASN65 4.0 15.6 1.0
N A:ARG73 4.1 26.6 1.0
N A:ASN65 4.1 14.2 1.0
C A:SER72 4.1 29.0 1.0
CA A:SER60 4.2 14.6 1.0
N A:CYS64 4.3 13.9 1.0
CA A:SER72 4.4 30.0 1.0
O A:ARG61 4.4 23.2 1.0
N A:ASN74 4.4 23.2 1.0
CA A:ARG73 4.4 26.3 1.0
CB A:SER60 4.5 14.3 1.0
C A:ARG61 4.5 21.8 1.0
CA A:CYS64 4.5 14.5 1.0
CA A:ASN74 4.5 21.5 1.0
N A:ARG61 4.6 17.0 1.0
O A:SER72 4.7 27.8 1.0
CB A:ASN74 4.7 21.0 1.0
CA A:ARG61 4.8 22.7 1.0
CB A:ASN65 4.8 15.2 1.0
CB A:THR69 4.8 22.3 1.0
OD1 A:ASN65 4.8 28.3 1.0
CL A:CL1132 4.8 44.3 1.0
N A:TRP62 4.9 19.8 1.0
O A:HOH2148 4.9 49.6 1.0
N A:ASP66 4.9 14.5 1.0
N A:TRP63 4.9 17.6 1.0
C A:ASN65 5.0 13.8 1.0

Reference:

J.Kmetko, M.Warkentin, U.Englich, R.E.Thorne. Can Radiation Damage to Protein Crystals Be Reduced Using Small-Molecule Compounds? Acta Crystallogr.,Sect.D V. 67 881 2011.
ISSN: ISSN 0907-4449
PubMed: 21931220
DOI: 10.1107/S0907444911032835
Page generated: Mon Oct 7 13:18:41 2024

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