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Sodium in PDB 3lhc: Crystal Structure of Cyanovirin-N Swapping Domain B Mutant

Protein crystallography data

The structure of Crystal Structure of Cyanovirin-N Swapping Domain B Mutant, PDB code: 3lhc was solved by E.Matei, A.Zheng, W.Furey, J.Rose, C.Aiken, A.M.Gronenborn, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 36.21 / 1.34
Space group P 32 2 1
Cell size a, b, c (Å), α, β, γ (°) 47.140, 47.140, 78.390, 90.00, 90.00, 120.00
R / Rfree (%) 19.9 / 22.1

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Cyanovirin-N Swapping Domain B Mutant (pdb code 3lhc). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of Cyanovirin-N Swapping Domain B Mutant, PDB code: 3lhc:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 3lhc

Go back to Sodium Binding Sites List in 3lhc
Sodium binding site 1 out of 2 in the Crystal Structure of Cyanovirin-N Swapping Domain B Mutant


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Cyanovirin-N Swapping Domain B Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na221

b:27.1
occ:1.00
O A:HOH111 2.9 18.3 1.0
N A:ASN59 3.4 11.8 1.0
CA A:ARG58 3.6 12.3 1.0
CB A:ARG58 3.8 12.5 1.0
C A:ARG58 4.0 11.9 1.0
CA A:ASN59 4.4 13.0 1.0
O A:CYS57 4.6 16.1 1.0
N A:ARG58 4.9 13.0 1.0

Sodium binding site 2 out of 2 in 3lhc

Go back to Sodium Binding Sites List in 3lhc
Sodium binding site 2 out of 2 in the Crystal Structure of Cyanovirin-N Swapping Domain B Mutant


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of Cyanovirin-N Swapping Domain B Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na222

b:24.6
occ:1.00
OE1 A:GLU100 2.8 20.9 1.0
OE2 A:GLU100 3.1 16.5 1.0
CD A:GLU100 3.3 17.5 1.0
CD1 A:ILE93 4.3 18.7 1.0
CB A:ALA91 4.8 11.6 1.0
CG A:GLU100 4.8 21.1 1.0

Reference:

E.Matei, A.Zheng, W.Furey, J.Rose, C.Aiken, A.M.Gronenborn. Anti-Hiv Activity of Defective Cyanovirin-N Mutants Is Restored By Dimerization. J.Biol.Chem. V. 285 13057 2010.
ISSN: ISSN 0021-9258
PubMed: 20147291
DOI: 10.1074/JBC.M109.094938
Page generated: Tue Dec 15 06:16:46 2020

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