LinkProt API

/static/lasso_data/<pdbid>/<chains>/<pdbid>.pdb_<chains>.pdb.gz For every protein with links in the LinkProt database it is possible to download a file containing the PDB file.
/static/lasso_data/<pdbid>/<chains>/<pdbid>.pdb_<chains>.xyz.tar.gz For every protein with links in the LinkProt database it is possible to download a file containing the 3D coordinates of residues in the chains.
/links.txt.gz List all chains with links in LinkProt. Lists only published ones
/artifacts.txt.gz List all artifact chains in LinkProt
/unlinks.txt.gz List all unlinked chains in LinkProt
/_all List all proteins (PDB IDs) in LinkProt
/allchains.txt.gz List all proteins chains in LinkProt

LinkProt Search API

The results page of any search run on LinkProt has a "raw" button which can be used to open a CSV formatted list of results

Example - display CSV formatted list of Non-redundant protein chains with link type Hopf_1 and SS Bonds found at a 30% cutoff

https://linkprot.cent.uw.edu.pl/browse/?raw=1&linkType=Hopf_1&ssbond=1&set=0&cutoff=30

The query can be specified using the following GET parameters

ParameterValues/TypeDescription
Parameters for searching for links
raw {0, 1} if "1" returns results as a "raw" text file instead of a webpage
linkType String Show results for given type of link - please have a look at the Search page to see examples
fingerprinttags String Show results for given type of link shown as fingerprint - please have a look at the bottom of the Search page to see examples
artifact {0, 1} If set to 1 - show results for artifacts
set {0, 1} if 1 returns full list of results, if 0 or empty only for Non-Redundant chains
ssbond {0, 1} If 1 returns links made by covalent bridges (deterministic), if 0 returns links made by closing the chains on a sphere (stochastic)
cutoff Integer (1-100)Filter results by probability cutoff percentage (percentage) for links found with stochastic method
groupon {0, 1}If 1 return results grouped by main type of link (e.g. "Hopf" instead of "Hopf.1" and "Hopf.2")
molkey String return results for the given Molecule Keyword
moltag String return results for the given Molecule Tags
pfam String return results for the given PFAM descriptor
ec String return results for the given EC code
cath String return results for the given CATH topology
catha String return results for the given CATH architecture
cathc String return results for the given CATH class
caths String return results for the given CATH Organism type
tag String return results for the given Tag keyword

LinkProt | Interdisciplinary Laboratory of Biological Systems Modelling