Sodium in PDB 1l5b: Domain-Swapped Cyanovirin-N Dimer

The structure of Domain-Swapped Cyanovirin-N Dimer, PDB code: 1l5b was solved by L.G.Barrientos, J.M.Louis, I.Botos, T.Mori, Z.Han, B.R.O'keefe, M.R.Boyd, A.Wlodawer, A.M.Gronenborn, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.90 / 2.00
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	61.966, 61.966, 148.400, 90.00, 90.00, 90.00
R / Rfree (%)	24.7 / 25.8

The binding sites of Sodium atom in the Domain-Swapped Cyanovirin-N Dimer (pdb code 1l5b). 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 Domain-Swapped Cyanovirin-N Dimer, PDB code: 1l5b:

Sodium binding site 1 out of 1 in the Domain-Swapped Cyanovirin-N Dimer


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Domain-Swapped Cyanovirin-N Dimer within 5.0Å range: probe atom residue distance (Å) B Occ A:Na302 b:60.9 occ:1.00 OE1 A:GLN50 2.1 33.6 1.0 O A:HOH307 2.5 40.5 1.0 OE1 B:GLN50 2.6 30.5 1.0 O B:SER38 2.6 36.3 1.0 O A:SER38 2.7 37.2 1.0 O A:HOH311 2.7 37.4 1.0 CD B:GLN50 3.1 34.6 1.0 CD A:GLN50 3.1 36.8 1.0 NE2 B:GLN50 3.6 35.9 1.0 C B:SER38 3.6 34.6 1.0 C A:SER38 3.6 36.2 1.0 NE2 A:GLN50 3.7 36.9 1.0 CA B:SER38 4.0 37.0 1.0 CG B:GLN50 4.0 30.3 1.0 CB A:GLN50 4.0 32.8 1.0 CB B:SER38 4.1 42.2 1.0 CA A:SER38 4.1 35.6 1.0 CB B:GLN50 4.1 32.4 1.0 CG A:GLN50 4.1 35.3 1.0 CB A:SER38 4.3 35.9 1.0 O B:HOH189 4.4 46.6 1.0 N B:VAL39 4.6 32.1 1.0 N A:VAL39 4.8 35.9 1.0 O B:HOH195 4.8 63.6 1.0 OG B:SER38 4.8 46.1 1.0 O A:PRO51 4.8 35.0 1.0

L.G.Barrientos, J.M.Louis, I.Botos, T.Mori, Z.Han, B.R.O'keefe, M.R.Boyd, A.Wlodawer, A.M.Gronenborn. The Domain-Swapped Dimer of Cyanovirin-N Is in A Metastable Folded State: Reconciliation of X-Ray and uc(Nmr) Structures. Structure V. 10 673 2002.
ISSN: ISSN 0969-2126
PubMed: 12015150
DOI: 10.1016/S0969-2126(02)00758-X