Protein-class {protein8k}

Protein Class Definitions

Description

Protein Class used to Define Protein Objects of S3 and S4 Types. Currently still in development, Integrity checks still need to be added.

Format

Breakdown of a Protein Object's structure:

• header: List of 2, Header Line and Title

  • header_line: List of 3, Classification, depDate, and idCode

    • classifiation: Classification of the Protein in the PDB

    • depDat: Date the PDB was deposited or created

    • idCode: 4 digit identifier for the PDB. Always unique.

  • title: The title of the PDB.

• structure: Dataframe of 16 variables

  1. record_type:Type of record in this section. Generally ATOM or HETATM

  2. serial_num: The serial number for the position of the atom in the sequence

  3. atom_name: A name to identify the atom in a structure

  4. alt_location_id:

  5. residue_name: 3 character identifier for a residue

  6. chain_id:

  7. residue_seq_num: Number representing where in the sequence a residue is.

  8. insert_residue_code:

  9. x_ortho_coord: X coordinate in Ångstroms on an orthogonal plane

  10. y_ortho_coord: Y coordinate in Ångstroms on an orthogonal plane

  11. z_ortho_coord: Z coordinate in Ångstroms on an orthogonal plane

  12. occupancy:

  13. temp_factor: The amount of overall error in the measurement of an atom.

  14. segment_id:

  15. element_symbol: Periodic symbol representing an atom.

  16. charge: Charge of the given atom. Can be +, -, or none at all