Calcium in PDB 5v6m: Crystal Structure of Rabbit Anti-Hiv-1 GP120 V3 Fab 10A3 in Complex with V3 Peptide Conb

The structure of Crystal Structure of Rabbit Anti-Hiv-1 GP120 V3 Fab 10A3 in Complex with V3 Peptide Conb, PDB code: 5v6m was solved by R.Pan, X.-P.Kong, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.86 / 1.90
Space group	P 21 2 21
Cell size a, b, c (Å), α, β, γ (°)	62.846, 83.870, 90.610, 90.00, 90.00, 90.00
R / Rfree (%)	17.9 / 22.4

The binding sites of Calcium atom in the Crystal Structure of Rabbit Anti-Hiv-1 GP120 V3 Fab 10A3 in Complex with V3 Peptide Conb (pdb code 5v6m). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Crystal Structure of Rabbit Anti-Hiv-1 GP120 V3 Fab 10A3 in Complex with V3 Peptide Conb, PDB code: 5v6m:

Calcium binding site 1 out of 1 in the Crystal Structure of Rabbit Anti-Hiv-1 GP120 V3 Fab 10A3 in Complex with V3 Peptide Conb


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Rabbit Anti-Hiv-1 GP120 V3 Fab 10A3 in Complex with V3 Peptide Conb within 5.0Å range: probe atom residue distance (Å) B Occ H:Ca301 b:22.8 occ:1.00 O H:HOH576 3.1 29.9 1.0 O H:HOH486 3.1 22.7 1.0 N H:TRP47 3.2 12.8 1.0 N L:PHE98 3.2 17.2 1.0 O L:HOH559 3.3 32.8 1.0 CA L:ALA97 3.8 18.3 1.0 CA H:GLU46 3.8 13.6 1.0 CD2 L:PHE98 3.9 15.4 1.0 CB H:TRP47 3.9 13.4 1.0 O L:HOH409 4.0 22.9 1.0 C H:GLU46 4.0 14.8 1.0 C L:ALA97 4.0 19.1 1.0 CB L:PHE98 4.1 15.8 1.0 CA H:TRP47 4.2 15.0 1.0 CA L:PHE98 4.2 15.7 1.0 CG H:GLU46 4.2 16.4 1.0 O H:LEU45 4.3 18.0 1.0 O H:HOH426 4.4 28.4 1.0 O L:PHE98 4.4 18.9 1.0 CB L:ALA97 4.4 19.6 1.0 CG L:PHE98 4.5 13.4 1.0 O L:HOH630 4.5 35.6 1.0 CB H:GLU46 4.6 17.4 1.0 O H:TRP47 4.7 16.8 1.0 O L:HOH406 4.7 33.5 1.0 C L:PHE98 4.8 18.8 1.0 N H:GLU46 4.8 14.9 1.0 O L:ALA96 4.9 16.8 1.0 CE2 L:PHE98 4.9 13.1 1.0 N L:ALA97 4.9 16.2 1.0 C H:LEU45 5.0 13.6 1.0 C H:TRP47 5.0 15.9 1.0 O L:HOH435 5.0 28.3 1.0

R.Pan, Y.Qin, M.Banasik, W.Lees, A.J.Shepherd, M.W.Cho, X.P.Kong. Increased Epitope Complexity Correlated with Antibody Affinity Maturation and A Novel Binding Mode Revealed By Structures of Rabbit Antibodies Against the Third Variable Loop (V3) of Hiv-1 GP120. J. Virol. 2018.
ISSN: ESSN 1098-5514
PubMed: 29343576
DOI: 10.1128/JVI.01894-17