PDB_INTERSECT(1)

💖 PDB_INTERSECT 💖

okay bestie, welcome to the manual page for pdb_intersect, version 2.5.1 — it lives in section 1 (User Commands) of the manual, and honestly? it's giving quiet genius. ✨

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🌸 NAME 🌸

pdb_intersect — the manual page for pdb_intersect 2.5.1. that's it, that's the name section, we move. 💅

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🦋 DESCRIPTION 🦋

not me getting this on the first line though: pdb_intersect File not found or not readable: '--help'

okay so literally the first thing this thing says is that. iconic behaviour, honestly. anyway—

pdb_intersect returns a new PDB file that contains only the atoms in common to all of the input PDB files. the intersection, babes. the overlap. the shared girlies. 💖

atoms are judged equal when their name, altloc, res. name, res. num, insertion code and chain fields are the same. no cap, that's the whole vibe check — those six fields match, you're in.

the coordinates are taken from the first input file. first file is the main character here, sorry to everyone else. 👑

it also keeps matching TER/ANISOU records. we love a thorough queen. ✨

🎀 Usage 🎀

python pdb_intersect.py <pdb file> <pdb file>

🍓 Example 🍓

python pdb_intersect.py 1XYZ.pdb 1ABC.pdb

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this program is part of the pdb-tools suite of utilities and should not be distributed isolatedly. she's a package deal, bestie, you can't just take her out of the group chat. 🫶

the pdb-tools were created to quickly manipulate PDB files using the terminal, and they can be used sequentially, with one tool streaming data to another. it's a pipeline, it's a relay race, it's teamwork. 🌈

they're based on old FORTRAN77 code that was taking too much effort to maintain and compile. RIP 😭💀

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so yeah. that's the page. pdb_intersect 2.5.1, from September 2024, page PDB_INTERSECT(1) — go intersect some atoms, you absolute legend. 🧚💜