Biomolecular coordinate converter
- Name
- ID number
- Structure
Which coordinates would you like to enter?
Enter Cartesian coordinates
Fill in x, y and z (in Ångström) for the N, CA (alpha carbon, Cα), C and O of each residue. A new residue starts at each N. You can also paste x y z into one box to fill all three.
| # | Residue | Atom | x (Å) | y (Å) | z (Å) | Remove |
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Paste a whole PDB file, or one atom per line as NAME X Y Z.
Enter internal coordinates
One atom per line. Lengths in Å, angles in degrees. The bond is to the previous atom, the angle with the one before that, and the dihedral with the one before that.
Atom 1 NAME Atom 2 NAME bond Atom 3 NAME bond angle Atom 4+ NAME bond angle dihedral
To choose reference atoms yourself, put the atom number before each value: CB 2 1.530 1 110.5 3 -122.6. An AMBER internal-coordinate file (.in) is accepted too. Lines starting with # are ignored.
Pick the amino acid in each row. Residue 1 has no φ and the last residue has no ω, because those angles need a neighbouring residue. Leave N–CA–C–O blank to use ψ + 180°, which keeps O in the peptide plane.
| # | Residue | φ phi (°) | ψ psi (°) | ω omega (°) | bond lengthC=O (Å) | bond angleCA–C–O (°) | dihedral (torsion)N–CA–C–O (°) | Remove |
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Measured per residue: φ, ψ, ω and oxygen
Show the full Z-matrix (bond length, angle and dihedral for every atom)
Each atom is placed by a bond length to its bonded partner, an angle with that partner's partner, and a dihedral with the next atom along the chain.