Blog Archives

Hot Topics: Crystal structures of human AT2 reveal molecular mechanism for lack of desensitization and internalization

The intracellular signal transduction processes activated by the angiotensin AT2 receptor, are atypical for a GPCR and different from the AT1 receptor. Although the classic motifs a GPCR are present in AT2 receptor; it fails to demonstrate classic features of

Posted in Hot Topics

Hot Topics: Structural insights into adiponectin receptors suggest ceramidase activity

Adiponectin receptors, divided into Adipo1 and Adipo2, were initially classed as GPCR on the basis of hydropathy analysis suggesting seven transmembrane domains.  However, they appear to be present in the cell membrane in a topology inverted compared to the 7TM

Posted in Hot Topics

GtoImmuPdb: technical update March 2017

The 4th alpha-release (v4.0) of the Guide to IMMUNOPHARMACOLOGY was released on 23rd March 2017. This blog post summarises some of the main features of the release and other developments as we moved toward our first public, beta-release in Spring

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Posted in Guide to Immunopharmacology, Technical

Database release 2017.2

Our 2nd database release of 2017 was published on 23rd March 2017. It now includes 15019 interactions between 2809 targets and 8832 ligands. For full release statistics see the About the Guide to PHARMACOLOGY page. Target updates The major part

Posted in Concise Guide to Pharmacology, Database updates, Technical

Recent IUPHAR reviews on Ang(1-7) coupling with GPCRs, treating systemic autoimmune diseases, and small molecule modulators of adenylyl cyclases

The latest ‘state of the field’ IUPHAR reviews are out in the British Journal of Pharmacology: Karnik SS, Khuraijam D, Tirupula K, Unal H. (2017) Significance of Ang(1-7) coupling with MAS1 and other GPCRs to the Renin-Angiotensin System: IUPHAR Review

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Posted in Publications

Hot Topics: Structural Basis of Substrate Recognition by the Multidrug Resistance Protein MRP1

Despite a flurry of mammalian ATP binding cassette (ABC) transporter structures in the last 2 years the Holy Grail has still been to determine how these diverse proteins interact with their transport substrates. Jue Chen and colleagues at the Rockefeller

Posted in Hot Topics

GtoImmuPdb: technical update February 2017

The 3rd alpha-release (v3.0) of the Guide to IMMUNOPHARMACOLOGY was released on 30th January 2017. This blog post summarises some of the main features of the release and other developments as we moved toward our first public, beta-release in Spring

Posted in Guide to Immunopharmacology, Technical

Citation profiles for our NAR and Concise Guide papers

Posted in Publications

Database release 2017.1

We are pleased to announce our first database release of 2017 on 26th Jan 2017. While there are no major updates in this release, it includes several bug fixes and new ligands of relevance to immunopharmacology. Our new portal, the

Posted in Database updates, Technical

IUPHAR review 100 in Pharm Revs and review 21 in BJP

NC-IUPHAR has just published its 100th review in Pharmacological Reviews

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Posted in Publications

Hot topics: The orphan GPR139 receptor is activated by peptides

GPR139 is an orphan class A G protein-coupled receptor found mainly in the central nervous system. It has its highest expression in the striatum and hypothalamus, regions regulating locomotion and metabolism, respectively, and it has therefore been suggested as a

Posted in Hot Topics

Hot topics: X-ray crystallographic study defines binding domains for Ca2+ antagonist drugs and their molecular mechanism of action

This year witnessed a tremendous progress in our understanding of the structure-function relationship of voltage-gated Ca2+ channels. This is based on the cryo-electron microscopy structure of the rabbit Cav1.1 Ca2+ channel complex at a nominal resolution of 3.6 Å ([1]

Posted in Hot Topics

GtoImmuPdb: technical update December 2016

Our final technical update for 2016 covers our v2.0 alpha-release, presentation at Pharmacology 2016 and future plans.

Posted in Guide to Immunopharmacology, Technical

Hot topics: Will the real splice variants please stand up?

The number of alternative mRNA splice forms that map to human protein coding loci has increased to the point that nearly all proteins have such associated database records. This gives rise to the paradox that the gene build pipeline from

Posted in Hot Topics

GtoImmuPdb: technical update November 2016

During October we have made the first alpha-release (v1.0) of the Guide to IMMUNOPHARMACOLOGY. This blog post summarises some of the main features of the release and work on the documentation. This first release marks an important step towards the

Posted in Technical

GtoPdb Ligands in PubChem

GtoPdb and  its precursor IUPHAR-DB have been capturing the structures of pharmacologically relevant ligands since 2005.  The fig.1. snapshot below  shows the approved drug section of our eight-category ligand classification As an active collaboration with the  PubChem team, we have

Posted in Uncategorized

Hot topics: X-ray structure of the endothelin ETB receptor

Endothelin is a peptide that acts via two G-protein coupled receptors. ETA mainly causes vasoconstriction. In contrast ETB  predominantly acts as a beneficial clearing receptor and by the release of endothelium derived relaxing factors, vasodilatation [1,2]. This paper  describes for

Posted in Hot Topics

Hot topics: Synthesis and SAR for depsipeptide natural products as selective G protein inhibitors

A team including the Gloriam Group at the University of Copenhagen (also the home of GPCRDB) have paper out in Nature Chemistry reporting the first total synthesis of YM-254890 and FR900359 [1] . These are related cyclic depsipeptide natural products that

Posted in Hot Topics

Hot topics: X-ray structure of P2X3 receptor

Extracellular ATP is able to activate two families of cell-surface receptors, one of which is the ligand-gated ion channel family of P2X receptors. This family of cation channels is distinct from the remainder of the ligand-gated ion channels, as they

Posted in Hot Topics

GtoPdb database release 2016.4

We are pleased to announce our fourth database release of 2016. Version 2016.4 was published on 13th October 2016. The database is available through the Guide to Pharmacology website, download pages and web-services.

Posted in Database updates

Why Data Citation Is a Computational Problem

By Peter Buneman The database development team encouraged me to write this off-topic blog on data citation, as it may be of interest to people involved with the IUPHAR/BPS Guide to Pharmacology (GtoPdb). It must be almost ten years ago

Posted in Uncategorized

SynPharm: A New Annexe to the Guide to PHARMACOLOGY

We have created a new sister database to the main Guide to PHARMACOLOGY (GtoPdb) – SynPharm, a database of drug-responsive protein sequences. Each sequence in SynPharm is derived from a GtoPdb interaction. In each case we have identified the continuous

Posted in Technical

GtoImmuPdb: technical update September 2016

The focus of development in the last month has been on preparing the GtoImmuPdb portal for alpha-release and building landing-pages for process and cell type association lists.

Posted in Guide to Immunopharmacology, Technical

Hot topics: High resolution structure of the voltage-gated skeletal muscle Ca2+ channel complex

In a recent article in Nature [1], Wu et al. present the cryo-electron microscopy structure of the rabbit Cav1.1 complex at a nominal resolution of 3.6 Å.

Posted in Hot Topics

Hot topics: Allosteric Modulation of Receptor Function and Regulation

Changeux and Christopoulos have recently described in Cell [1] how common mechanisms link the allosteric sites of activation and response within the four major receptor families of ligand- and voltage-gated ion channels, G-protein-coupled receptors, nuclear hormone receptors, and receptor tyrosine kinases. As

Posted in Hot Topics

Hot topics: Analysis of protein-coding genetic variation in humans

Leck et al. in Nature, describes a tour de force largest scale reference data set of high-quality protein-coding variation generated via the Exome Aggregation Consortium (ExAC)

Posted in Hot Topics

Hot Topics: Discovery of opioid analgesics with reduced side effects

Manglik et al., writing in Nature, believe they may have found a new form of painkiller that works just as well as morphine but lacks its potentially lethal side effect.

Posted in Hot Topics

GtoImmuPdb: technical update August 2016

The major developmental extension to GtoImmuPdb has been incorporation of cell type associations and web-app development to display both process and cell type data.

Posted in Guide to Immunopharmacology, Technical

GtoPdb database release 2016.3

We are pleased to announce our third database release of 2016. Version 2016.3 was published on 21st July 2016. The database is available through the Guide to Pharmacology website, download pages and web-services. In this release, our curators have added comments to all approved

Posted in Database updates

FREE – Concise Guide to Pharmacology 2015/2016

The Concise Guide to PHARMACOLOGY 2015/2016 provides concise overviews of the key properties of over 1750 human drug targets with their pharmacology, plus links to the open access knowledgebase of drug targets and their ligands (www.guidetopharmacology.org), which provides more detailed

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Posted in Concise Guide to Pharmacology

Hot Topics: Linking chemistry to papers

The key value of our curation is the extraction of chemistry-activity-target data from papers.

Posted in Hot Topics

GtoImmuPdb: technical update May 2016

Development of the Guide to Immunopharmacology (GtoImmuPdb) continues and this is an update of progress since our last update in February 2016. Since then, the GtoImmuPdb April Meeting was held in Edinburgh, where a detailed update on the status of

Posted in Guide to Immunopharmacology, Technical

Recent DrugBank Changes

The DrugBank database has just announced (09 May 2016) more restrictive access conditions including user registration. Not unexpectedly, this has prompted discussion on Twitter and elsewhere (e.g. ThinkLab. including some from the DrugBank team).  We enjoy long-standing contacts with the

Posted in Uncategorized

GtoPdb database release 2016.2

The latest update of the database, version 2016.2, has been released (30th March 2016). The summary of the main updates is below. Database content in various formats can be downloaded from our download pages and accessed via web services. This

Posted in Database updates

Assessment of GtoPdb in-links

A valuable aspect of biological databases in general and the IUPHAR/BPS Guide to PHARMACOLOGY (GtoPdb) in particular, are out-links to and in-links from, other relevant resources.

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GtoImmuPdb: technical update Feb 2016

Technical update from database and curation team behind The Guide to Immunopharmacology

Posted in Guide to Immunopharmacology, Technical

GtoPdb database release 2016.1

Database release 2016.1, now features 14249 curated interactions.

Posted in Database updates

GtoPdb database release 2015.3

Our total number of curated interactions now stands at 13859. New BLAST tool for sequence-based searching of targets available at http://www.guidetopharmacology.org/blast/.

Posted in Database updates

New project to develop “The Guide to Immunopharmacology”

We are very pleased to announce a new initiative (from 1st Nov 2015) to establish “The Guide to Immunopharmacology: Integration of targets, diseases and therapies into an expert-driven database”. This project will be supported by a 3-year grant awarded to

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Posted in Guide to Immunopharmacology

Database Release August 2015

The first version of our REST web services is now available for beta testing

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Posted in Database updates, Technical

Curating PDB links between proteins and 3D chemical structures

We know users find our curated PDB links of high value, particularly where the ligand co-crystalised within the target protein is an activity-mapped approved drug, clinical candidate or key metabolite. The comparative SAR insights these can provide are substantial, especially

Posted in Uncategorized

Database Update March 2015

The first release of 2015 includes major updates in several areas. More than 420 new ligands were added.

Posted in Database updates

21 years of NC-IUPHAR reviews and general publication updates

Update, 12 March.  Inspired by the propitious event described below we have taken the opportunity to update all our publication links. This covers not only IUPHAR reviews but also papers arising from the database and additional recent pubublications co-authored by

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Posted in Publications

Exploiting the new pharmacology and application to drug discovery – Abstract extension to 23 Feb

We look forward to meeting with database users, collaborators and contacts at the BPS Focused meeting 20th-21st April 2015, Edinburgh. Note that abstracts and registration are still open and bursaries for presenters available. IUPHAR/BPS Guide to Pharmacology Team members have

Posted in Events

The drug class of 2014

Around this time of year there is much interest and comment from the pundits concerning the previous year’s drug approvals. Team member Chris Southan has a history of picking out aspects of the PubChem entries on his own blog and

Posted in Uncategorized

MySQL relational database and other options for download

As mentioned in various places (including our FAQ) we welcome the downloading of our content in various slices and formats (listed here). Please contact us if you do this, not only out of professional courtesy but also so we can

Posted in Technical

Proteases in the latest GtoPdb release

The team have surfaced more fruits of our labour in release  2014.3 of GtoPdb (this is now our official acronym for the database).   This post will highlight protease expansion during this curation cycle (see page 10 in our newsletter for an introduction to our

Posted in Drug targets

Retrospective entity linking from the literature: IUPHAR allostery review

Many of you will have noticed a gradual blurring of the distinction between publications and databases. One manifestation of this is “live linking” where entities within the text of an open access manuscript connect directly to the URL of an

Posted in Technical

A Pharmacologists’ Guide to Resolving Chemical Structures and their Protein Targets from the Literature

This is an introduction to resolving bioactive ligands and their protein targets from the literature. It includes their conversion to standardised molecular identifiers so these can be communicated  to the Guide to PHARMACOLOGY (GtoPdb) team. (n.b. identifying what is already

Posted in Chemical curation, Drug targets, Technical

New content and features: November 2014 update

The latest database version (2014.3) was released on 5th November and includes many content updates and new website enhancements. The current release now covers 7220 distinct ligands interacting at 2708 protein targets (see full statistics on our About page). This

Posted in Database updates