ProteinsPlus statistics

Tool stats & trends

Looking to identify usage trends or leading experts?

Protocols

ProteinsPlus specifications

Information


Unique identifier OMICS_18277
Name ProteinsPlus
Interface Web user interface
Restrictions to use None
Input data A protein structure or a ligand structure.
Input format PDB, SDF
Computer skills Basic
Stability Stable
Maintained Yes

Subtools


  • ActivityFinder
  • DoGSiteScorer
  • EDIA
  • HyPPI
  • METALizer
  • PoseView
  • Protoss
  • SIENA
  • StructureProfiler

Maintainers


  • person_outline Matthias Rarey
  • person_outline PoseView Team

Additional information


http://proteinsplus.zbh.uni-hamburg.de/help/index

Publications for ProteinsPlus

ProteinsPlus citations

 (59)
library_books

A Computational Approach Using Bioinformatics to Screening Drug Targets for Leishmania infantum Species

2018
PMCID: 5896251
PMID: 29785196
DOI: 10.1155/2018/6813467

[…] The active sites in the evaluated tertiary structures of selected proteins were identified by using the DoGSiteScorer server [], in which the druggability of a pocket can be automatically predicted through the analyses of its size, shape, and chemical features. Considering all descriptors, the DoGSiteSc […]

library_books

Molecular Insights into Function and Competitive Inhibition of Pseudomonas aeruginosa Multiple Virulence Factor Regulator

2018
MBio
PMCID: 5770554
PMID: 29339431
DOI: 10.1128/mBio.02158-17

[…] en donor and acceptor atoms, a specific hydrogen bond with a 2.99-Å distance between M64 and an oxygen atom in the side chain of Gln194 was identified with well-defined electron density. In addition, PoseView analysis revealed that the phenoxy group of M64 forms a pi interaction with the side chain of Tyr258 (). Both the hydrogen bond and the pi interaction were not observed between MvfR and the n […]

library_books

Kallikrein related peptidase 7 is a potential target for the treatment of pancreatic cancer

2018
Oncotarget
PMCID: 5849182
PMID: 29560118
DOI: 10.18632/oncotarget.24132

[…] ning experiments were then performed using a two-step protocol by the combination of GOLD and CLC Drug Discovery Workbench screening programs. The druggable regions of KLK7 were firstly identified by DoGSiteScorer, and the docking step was then carried out using GOLD (GA runs = 30; Fitness & Search option was CHEMPLP; GA Setting was Automatic-searching efficiency: 30%; Active site: CMK, 10Å) to ge […]

call_split

Investigation and identification of functional post translational modification sites associated with drug binding and protein protein interactions

2017
BMC Syst Biol
PMCID: 5763307
PMID: 29322920
DOI: 10.1186/s12918-017-0506-1
call_split See protocol

[…] bitor,” “agonist” or “antagonist” and have drug annotations in the DrugBank []. A total of 34,555 PDB structures and 4803 small drug molecules which have DrugBank annotations were obtained. Then, the PoseView [] method was employed to check the binding sites of each drug in the target proteins. PoseView provides a two-dimensional (2D) diagram showing how the drug ligand and the amino acid residues […]

library_books

Targeted metatranscriptomics of compost derived consortia reveals a GH11 exerting an unusual exo 1,4 β xylanase activity

2017
Biotechnol Biofuels
PMCID: 5667448
PMID: 29118851
DOI: 10.1186/s13068-017-0944-4

[…] round sugarcane bagasse was hydrated for 24 h prior analysis; a drop was directly applied to the sample pedestal and dried at room temperature for 12 h. After drying, samples were gold coated using a metalizer model MED 020 (Bal-tec, Liechtenstein). Images were obtained under vacuum. At least 10 images per sample were acquired from different areas to certify the reproducibility of the results. […]

library_books

Molecular Docking and Screening Studies of New Natural Sortase A Inhibitors

2017
Int J Mol Sci
PMCID: 5666896
PMID: 29065551
DOI: 10.3390/ijms18102217

[…] The three-dimensional structure file of the S. aureus SrtA was downloaded from the RCSB PDB database and was prepared by adding missing polar hydrogen atoms using the Protoss tool provided by the Proteins Plus server []. All water molecules were removed and Gasteiger charges were assigned to the protein structure. The ligands’ chemical structures were retrieved fro […]

Citations

Looking to check out a full list of citations?

ProteinsPlus institution(s)
Universitat Hamburg, ZBH-Center for Bioinformatics, Hamburg, Germany; Institute of Physiology, Charite-Universitatsmedizin Berlin, Berlin, Germany
ProteinsPlus funding source(s)
Supported by de.NBI (in part) and German Federal Ministry of Education and Research [031L0105].

ProteinsPlus reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review ProteinsPlus