PROCHECK specifications

Information


Unique identifier OMICS_06366
Software type Toolkit/Suite
Interface Command line interface
Restrictions to use None
Input data A file holding the coordinates of the structure of interest.
Input format PDB
Output data A number of plots, together with a detailed residue-by-residue listing.
Operating system Unix/Linux
Computer skills Advanced
Version 3.5
Stability Stable
Maintained Yes

Subtool


  • PROCHECK-NMR

Versioning


Add your version

Maintainer


  • person_outline Roman Laskowski <>

Additional information


https://www.ebi.ac.uk/thornton-srv/software/PROCHECK/manual/

PROCHECK articles

PROCHECK citations

 (15)
2017
PMCID: 5705324

[…] configuration based on their backbone chemical shifts and predictions using promega software43. the structure ensemble was visualized and inspected with pymol44 and the quality was evaluated with procheck-nmr45 and the psvs server46. the structure atomic coordinates and restraints used in the calculation were deposited in the protein data bank (pdb id: 5o2y). we estimated the global rotation […]

2017
PMCID: 5646969

[…] bank id, 3crd) were used as the modeling templates for card9 and bcl10 cards, respectively. the stereochemical quality of the constructed models was validated using a ramachandran plot generated by procheck (http://www.ebi.ac.uk/thornton-srv/software/procheck/) (29). ribbon diagrams were generated using pymol software (schrödinger, llc, tokyo, japan) (30)., the card9 signalosome, […]

2017
PMCID: 5487762

[…] id: 4m1m). the sequence alignment was done using prime’s alignment program stain maestro [37, 38] (fig. s4 in the supplementary material). analyzing the models with the structure assessment program procheck [42], the best model had a normalized dope score of −0.625, g-factor −0.12, and qmean score of 0.597. furthermore, the ramachandran plot (fig. s5 in the supplementary material) showed […]

2016
PMCID: 4974663

[…] model, both structures were solved by molecular replacement using molrep in the ccp4 programme suite45. the initial models were refined using refmac5 (ref. 46). the final models were checked by procheck., to detect the role of rps14 c-terminal tail in mediating the interaction between rps14 and hcinap, the four of the last eight amino acid residues (g145a, r147a, g148a and r150a) of rps14 […]

2016
PMCID: 4839703

[…] were improved by energy minimization using 200 cycles of the steepest descents and 500 cycles of the conjugate gradient. the stereochemical quality of the selected model was evaluated using the procheck program [28].thepymol molecular graphics system (delano scientific, san carlos, 184 ca. http://www.pymol.org.) was used in order to visualize the constructed model structures and to generate […]

PROCHECK institution(s)
Biomolecular Structure and Modelling Unit, Department of Biochemistry and Molecular Biology, University College, London, UK; Crystallography Department, Birkbeck College, London, UK

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