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Representation
Cartoon
Stick
Sphere
Ball·Stick
Line
Surface
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Coloring
Spectrum
Chain
Secondary structure
Element (CPK)
B-factor
Hydrophobicity ↗
Charge
By residue ↗
Solid color ↗
SASA accessibility ↗
Style
Cartoon thickness0.40
Stick radius0.12
Sphere size0.28
Surface opacity0.80
Label size11
Hydrogens
Residue labels
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Depth fog
Backdrop
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Objects & Selections
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Advanced
Restrict the germline pool. Human-only avoids VH3 antibodies being called alpaca.
Chains to scan
Measure
Structural alignment — Kabsch on Cα
Align using
Pick Mobile (moves) and Ref (fixed)
Correspondence sequence alignment
Contact map
Group AGroup B
Non-covalent contacts
Group AGroup B
Antibody numbering Framework CDR1 CDR2 CDR3
Show numbering
Chemical Liabilities High Medium Low
Active rule set
Liability Detection High Medium Low buried outside CDR germline
Hydrophobicity scales
Per-residue values · higher = more hydrophobic · cells tinted by each scale's own range
Kyte & Doolittle (1982) · Eisenberg et al. (1984) · Fauchère & Pliska (1983) · Wimley & White (1996, octanol)
Hydrophobicity scale
Hydrophilic
Hydrophobic
Residue coloring
Render mode outline styles
Outline color tint
Output quality
Selection color
Solvent Accessibility (SASA)
Computing…0%
Probe radius 1.4 Å Points
Computed within the whole structure.
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