Code
2
Fold
Motif Finder
Load from RCSB
Load
or
Upload Local File
Examples:
1CRN
1HSG
4HHB
2OCC
LOADING...
Code
2
Fold
Load
Upload
Export
Representation
Cartoon
Ribbon
Surface
Ball+Stick
Licorice
Spacefill
Backbone
Rope
Tube
Color
By Chain
Rainbow
Secondary Structure
By Element
Hydrophobicity
B-Factor
Measure
Dist
Angle
Torsion
0/2
Cancel
Tools
Binding Pockets
Show Ligands
Motif Finder
Info
PDB:
-
Chains:
-
Residues:
-
Atoms:
-
Mutations:
0
Measurements
0
Clear
Residue
-
-
Chain:
-
Type:
-
Contacts
Mutate
Pocket Analysis
-
Druggability
-
Volume (ų)
-
Residues
Hydrophobic:
-
Polar:
-
Charged:
-
Aromatic:
-
Pocket Residues
Mutagenesis
From
Select residue
To
Apply Mutation
Superposition
Reference:
-
Mobile
Load
-
Sequence alignment + Kabsch RMSD
Align
RMSD
-
- residues
Interface Analysis
↔
Analyze Interface
-
BSA (Ų)
-
Residues
-
H-Bonds
-
Salt Bridges
-
Hydrophobic
-
π-Stacking
Interactions
Chain
A
Chain
B
Salt Bridge Finder
Cutoff (Å)
Mode
All (intra + inter)
Between chains
↔
Find Salt Bridges
Count:
0
Cutoff:
-
Pairs
Surface Residue Finder
Radius (Å)
Max neighbors
Chain
Find Surface Residues
Surface:
0
Total:
0
Heuristic: residues with low CA-neighbor density
Residues
Motif Finder
Motif (button input only)
⌫
Clear
Codes: X=any, h=hydrophobic, p=polar, c=charged, +=positive, -=negative, a=aromatic, s=small
Chain
Search
Amino acids
Wildcards
X
hydrophobic (h)
polar (p)
charged (c)
positive (+)
negative (-)
aromatic (a)
small (s)
-
Hits
-
Motif len
-
Chain
Matches
Epitope Finder (B-cell)
Chain
All
Length
Top N
Surface-aware scoring
Uses CA-neighbor surface heuristic
Advanced surface thresholds
Radius (Å)
Max neighbors
Surface-only mode keeps windows with ≥50% surface residues.
Run Epitope Finder
Results
0
hits
Click a hit to highlight on structure.
Run to list candidate B-cell epitopes.
UniProt Annotations
Flexibility Analysis
B-factor based flexibility analysis
Flexible (High B-factor)
Rigid (Low B-factor)
Color by Flexibility
2D Ligand Interaction Diagram
PNG
Legend
H-Bond
Hydrophobic
π-Stack
Ionic
Ligand
Name:
-
Atoms:
-
Contacts:
-
Residues
Sequence
Success!