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The 3-D structure of a protein in space. It can refer to secondary structures, such as alpha helices or beta sheets, or the 3-D coordinates of the atoms making up a protein.

2 votes
1 answer
1k views

What are the differences between "Site" and "CONECT" in a PDB file

The CONECT section in a PDB file describes atomic connectivity. The SITE section describes (among other characteristics), environments surrounding ligands present in the structure. Now, how come not …
Adrian Smith's user avatar
4 votes
2 answers
183 views

Cross-reference with PDB database

I have a list of several thousand proteins and their UNIPROT IDs. I'm looking for an efficient method of cross-referencing it against the PDB tertiary structure database, and get a list of those prote …
Adrian Smith's user avatar
1 vote
0 answers
15 views

"No records to view" error in the "Drug and Drug Target Mapping" PDB's search engine

I'm using the "Drug and Drug Target Mapping" search engine (http://www.rcsb.org/pdb/ligand/drugMapping.do). I've noticed that there are some drugs (generic names) that if they appear in the query, the …
Adrian Smith's user avatar