User talk:A2-33

PDB links
Hi! Thanks for your edit to the Infobox enzyme template. Definitely an improvement. Concerning your edit to PBB/3043 that you subsequently undid, I also thought this was a very useful edit and I had thoughts of doing something similar. What was the problem of the URLs? If we can find a good solution, we could modify the GNF_Protein_box template so that up to date PBD links could be applied to all Gene Wiki articles. Your links were based on the human UniProt accession number. An even better solution would be to link to the HomoloGene accession number so that structures of orthologs would also be included, but unfortunately it does not appear that the external structure databases support this type of query. Boghog (talk) 21:15, 20 January 2012 (UTC)

Hi, thanks for your message. I really like the enzyme browser that I've modified the link for. It would be good to modify the infobox for pfam similarly to go to PDBe's browser ebi.ac.uk/pdbe-srv/PDBeXplore/pfam/?pfam= but the template is protected so I can't edit it.

Yes the problem with PBB/3043 was the links. I can get a search term encoded in the URL at PDBe, but not from the RCSB site, and I want to be fair to both. RCSBs search results have some kind of session ID as the URL and I've no idea how to code the search in the link from wikipedia. (though the Pfam infobox manages it) Would be excellent to apply that to all the Genewiki articles if we can sort out the search URL to have uptodate PDB info from the different PDB sites. Uniprot ID isn't ideal, but until there's a homologene search I guess its better than a long list of four letter codes. I'll do some digging and see if I can work out the RCSB's URL issue.

A2-33 (talk) 21:48, 20 January 2012 (UTC)

Hi, sorry not 100% what input you want to provide for RCSB, if it is Pfam IDs that would work like this: http://www.rcsb.org/pdb/search/smartSubquery.do?smartSearchSubtype=PfamIdQuery&pfamID=PF00104. Let me know what else you need... --Andreas (talk) 00:53, 21 January 2012 (UTC)
 * Thanks, what is the format for a UniProt ID? A2-33 (talk) 00:59, 21 January 2012 (UTC)
 * Would http://www.rcsb.org/pdb/search/smartSubquery.do?smartSearchSubtype=UpAccessionIdQuery&accessionIdList=P50225 work for you? --Andreas (talk) 05:25, 21 January 2012 (UTC)


 * (edit conflict) To query the RCSB PDB for structures by UniProt accession number, the following works, but it is somewhat verbose:
 * http://www.rcsb.org/pdb/search/smart.do?smartComparator=and&smartSearchSubtype_0=UpAccessionIdQuery&target=Current&accessionIdList_0=P68871
 * This returns all the structures for a given protein from one organism (in this example, human). Even better search would be based on the HomoloGene accession number (e.g., ) that would return structures for the human protein plus homologs in other species (e.g., mouse, rat, etc.), but unfortunately the RCSB PDB does not seem to support that type of query.  The pfam query is appropriate for the Infobox protein family template but too broad for the GNF_Protein_box. Boghog (talk) 06:01, 21 January 2012 (UTC)
 * Thanks Andreas, your link is more compact. I have included it in the PBB/3043 template (see diff). Boghog (talk) 06:11, 21 January 2012 (UTC)
 * Couple of things about that: You could request human and mouse hits by providing the correct uniprot IDs for both. Homologene (or Ensembl Compara) cross links is an interesting comment, but probably not easy to implement. There is also a sequence clustering available as part of rcsb pdb.  Here you can see sequence neighbours for one of the sulfotransferases. With a bit of scripting those could be retrieved via this URL but I guess this might be getting too technically advanced for WP...? --Andreas (talk) 06:32, 21 January 2012 (UTC)
 * Thanks for pointing out that UniProt IDs can be concatenated in RCSB PDB queries. It would be possible to create a WP template that would return a list of UniProt IDs using a HomoloGene ID as an argument (similar to Pfam2PDBsum which by the way is now depreciated since it is now possible to directly query PDBsum with Pfam IDs).  However even after restricting the list to those that include a human ortholog, the size of such a template is likely to be enormous and may exceed WP limits.  Another disadvantage is someone would need to maintain the template. I will try to create such a template and see how it works. Boghog (talk) 11:48, 21 January 2012 (UTC)

Disambiguation link notification
Hi. When you recently edited Pii nitrogen regulatory proteins, you added a link pointing to the disambiguation page ATP (check to confirm | fix with Dab solver). Such links are almost always unintended, since a disambiguation page is merely a list of "Did you mean..." article titles. Read the FAQ* Join us at the DPL WikiProject.

It's OK to remove this message. Also, to stop receiving these messages, follow these opt-out instructions. Thanks, DPL bot (talk) 10:29, 7 February 2012 (UTC)

Disambiguation link notification
Hi. When you recently edited Alkylmercury lyase, you added a link pointing to the disambiguation page Mercury (check to confirm | fix with Dab solver). Such links are almost always unintended, since a disambiguation page is merely a list of "Did you mean..." article titles. Read the FAQ* Join us at the DPL WikiProject.

It's OK to remove this message. Also, to stop receiving these messages, follow these opt-out instructions. Thanks, DPL bot (talk) 10:15, 20 February 2012 (UTC)

Incorrect PDB structures
Hey there. I checked in to the source of ProteinBoxBot's inaccuracies regarding PDB structures. It seems that it was pulling the info from Ensembl, which did indeed have a very outdated structure for the protein you pointed out. I've corrected it to retrieve the structures from rcsb instead, which should be as up-to-date as possible. Please let me know if you note any further inaccuracies, and thanks for your help. Pleiotrope (talk) 20:51, 12 March 2012 (UTC)


 * Hi there. There is a lot of discussion about this on the GNFProteinBox page. We have a new server implemented to provide data for addition to the box. Can you also have a look at the discussion and check the server mentioned e.g http://wwwdev.ebi.ac.uk/pdbe-apps/jsonizer/mappings/Q01524/. The discussion also decided on adding images for "best structure" which the server provides. Let me know if this requires any changes. I am assuming that you will have to change of bot to accomodate these changes. A2-25 (talk) 20:08, 13 March 2012 (UTC)

Thanks for the changes, glad the bot is now pulling uptodate infomation. As A2-25 says, there has been much discussion about the best way to handle PDB data in the PBB boxes which I'm sure you've seen. Hope the bot is able to accomodate the forthcoming improvements.A2-33 (talk) 21:28, 14 March 2012 (UTC)

Ways to improve Eric Newton (art critic)
Hi, I'm Kudpung. A2-33, thanks for creating Eric Newton (art critic)!

I've just tagged the page, using our page curation tools, as having some issues to fix. Please add reliable sources as soon as possible

The tags can be removed by you or another editor once the issues they mention are addressed. If you have questions, you can leave a comment on my talk page. Or, for more editing help, talk to the volunteers at the Teahouse. Kudpung กุดผึ้ง (talk) 20:39, 7 November 2013 (UTC)

--Hi, Several references now added and tag therefore removed. More work to be done on this page still.

Welcome to The Wikipedia Adventure!

 * Hi! We're so happy you wanted to play to learn, as a friendly and fun way to get into our community and mission.  I think these links might be helpful to you as you get started.
 * The Wikipedia Adventure Start Page
 * The Wikipedia Adventure Lounge
 * The Teahouse new editor help space
 * Wikipedia Help pages

--

December 2013
Hello, I'm BracketBot. I have automatically detected that [//en.wikipedia.org/w/index.php?diff=585112328 your edit] to Semliki Forest virus may have broken the syntax by modifying 1 "{}"s. If you have, don't worry: just [ edit the page] again to fix it. If I misunderstood what happened, or if you have any questions, you can leave a message on [//en.wikipedia.org/w/index.php?action=edit&preload=User:A930913/BBpreload&editintro=User:A930913/BBeditintro&minor=&title=User_talk:A930913&preloadtitle=BracketBot%20–%20&section=new my operator's talk page].
 * List of unpaired brackets remaining on the page:

Thanks, BracketBot (talk) 11:35, 8 December 2013 (UTC)
 * immunodeficient]] and had been exposed to large amounts of virus in the laboratory.

January 2014
Hello, I'm BracketBot. I have automatically detected that [//en.wikipedia.org/w/index.php?diff=590400650 your edit] to Parham, Suffolk may have broken the syntax by modifying 1 ""s. If you have, don't worry: just [ edit the page] again to fix it. If I misunderstood what happened, or if you have any questions, you can leave a message on [//en.wikipedia.org/w/index.php?action=edit&preload=User:A930913/BBpreload&editintro=User:A930913/BBeditintro&minor=&title=User_talk:A930913&preloadtitle=BracketBot%20–%20&section=new my operator's talk page].
 * List of unpaired brackets remaining on the page:

Thanks, BracketBot (talk) 19:49, 12 January 2014 (UTC) Hello, I'm BracketBot. I have automatically detected that [//en.wikipedia.org/w/index.php?diff=591770668 your edit] to YcaO may have broken the syntax by modifying 2 "[]"s. If you have, don't worry: just [ edit the page] again to fix it. If I misunderstood what happened, or if you have any questions, you can leave a message on [//en.wikipedia.org/w/index.php?action=edit&preload=User:A930913/BBpreload&editintro=User:A930913/BBeditintro&minor=&title=User_talk:A930913&preloadtitle=BracketBot%20–%20&section=new my operator's talk page].
 * The aviator Ray Hanna is buried in the churchyard.
 * List of unpaired brackets remaining on the page:

Thanks, BracketBot (talk) 21:18, 21 January 2014 (UTC)
 * = Structure of the heterocyclase TruD. A YcaO-like protein from Prochloron sp. 06037A PDB entry

I have unreviewed a page you curated
Hi, I'm Kudpung. I wanted to let you know that I saw the page you reviewed, Ken Lewis (cricketer), and have un-reviewed it again. If you have any questions, please ask them on my talk page. Thank you. Kudpung กุดผึ้ง (talk) 09:10, 18 January 2014 (UTC)

February 2014
Hello, I'm BracketBot. I have automatically detected that [//en.wikipedia.org/w/index.php?diff=596240433 your edit] to St Martin's Church, Bole may have broken the syntax by modifying 1 "[]"s. If you have, don't worry: just [ edit the page] again to fix it. If I misunderstood what happened, or if you have any questions, you can leave a message on [//en.wikipedia.org/w/index.php?action=edit&preload=User:A930913/BBpreload&editintro=User:A930913/BBeditintro&minor=&title=User_talk:A930913&preloadtitle=BracketBot%20–%20&section=new my operator's talk page].
 * List of unpaired brackets remaining on the page:

It's OK to remove this message. Also, to stop receiving these messages, follow these opt-out instructions. Thanks, BracketBot (talk) 21:28, 19 February 2014 (UTC)
 * | class="wikitable"
 * the church that was given to a vicar in the Second World War, that showed a clock face on the south side of the tower.

DYK for Ernest O. Wollan
Thank you from the DYK project and me Victuallers (talk) 16:02, 2 March 2014 (UTC)

Cobalamin adenosyltransferase
Thanks for your edit to this page (with respect its presence in humans). I am a complete novice where this enzyme in concerned and where I have seen discussion to its presence in humans I have not been able to find good references, or indications of the cells/organs in which it occurs.

Are you aware of any research that might allow a fuller more understandable article content concerning humans, or allow us to explicitly state this it is present in humans? — Preceding unsigned comment added by Leopardtail (talk • contribs) 11:48, 11 March 2014 (UTC)


 * Hi Leopardtail.
 * Looking at the literature, many papers seem to take it for granted that the enzyme is present in humans. See for instance the MMAB page, which is specifically for the human enzyme, from where you'll find a good number of links, eg to the Uniprot entry with lots of useful references, including to the crystal structure. I deleted the line from the Cob(I)yrinic acid a,c-diamide adenosyltransferase saying that the enzyme wasn't found in eukaryotes as I'd added a structure image of the human enzyme. The review article from Appl. Microbiol. Biotechnol. which Boghog added (currently reference 2) and refs therein might also be useful. It says "Cells from all domains of life synthesize ACA enzymes" and the enzyme is mitochondrial in eukaryotes. The interpro page  however says that synthesis (of AdoCbl) is unique to certain prokaryotes, which seems to contradict the literature, unless the sentence is badly written and its referring to cobalamin synthesis.  I'll contact Interpro and ask them to clarify.  Hope that helps A2-33 (talk) 19:07, 11 March 2014 (UTC)

Hi, sorry, this is the very first time I'm creating an article here. This was not intended to go online yet, that happened by accident. I haven't figured out how to create articles in the user space, sandbox and all that stuff yet. Goldratte (talk) 19:53, 9 April 2014 (UTC)

April 2014
Hello, I'm BracketBot. I have automatically detected that [//en.wikipedia.org/w/index.php?diff=603651475 your edit] to Petar Raković may have broken the syntax by modifying 2 "[]"s and 2 "{}"s likely mistaking one for another. If you have, don't worry: just [ edit the page] again to fix it. If I misunderstood what happened, or if you have any questions, you can leave a message on [//en.wikipedia.org/w/index.php?action=edit&preload=User:A930913/BBpreload&editintro=User:A930913/BBeditintro&minor=&title=User_talk:A930913&preloadtitle=BracketBot%20–%20&section=new my operator's talk page].
 * List of unpaired brackets remaining on the page:

It's OK to remove this message. Also, to stop receiving these messages, follow these opt-out instructions. Thanks, BracketBot (talk) 21:08, 10 April 2014 (UTC)
 * a national letter of intent to St. John's University, New York , USA, in May 2005. He was a member of the 2006 St.John's University men's soccer team that

May 2014 disambig contest: let's do it again!
Greetings fellow disambiguator! Remember back in February when we made history by clearing the board for the first time ever, for the monthly disambiguation contest? Let's do it again in May! I personally will be aiming to lead the board next month, but for anyone who thinks they can put in a better effort, I will give a $10 Amazon gift card to any editor who scores more disambiguation points in May. Also, I will be setting up a one-day contest later in the month, and will try to set up more prizes and other ways to make this a fun and productive month. Cheers! bd2412 T 18:46, 28 April 2014 (UTC)

ArbCom elections are now open!
Hi, You appear to be eligible to vote in the current Arbitration Committee election. The Arbitration Committee is the panel of editors responsible for conducting the Wikipedia arbitration process. It has the authority to enact binding solutions for disputes between editors, primarily related to serious behavioural issues that the community has been unable to resolve. This includes the ability to impose site bans, topic bans, editing restrictions, and other measures needed to maintain our editing environment. The arbitration policy describes the Committee's roles and responsibilities in greater detail. If you wish to participate, you are welcome to review the candidates' statements and submit your choices on the voting page. For the Election committee, MediaWiki message delivery (talk) 16:49, 24 November 2015 (UTC)

October 2018
Hello, I'm Zackmann08. Thank you for your recent contributions to Golimumab. I noticed that when you added the image to the infobox, you added it as a thumbnail. In the future, please do not use thumbnails when adding images to an infobox (see WP:INFOBOXIMAGE). What does this mean? Well in the infobox, when you specify the image you wish to use, instead of doing it like this:

SomeImage.jpg

Instead just supply the name of the image. So in this case you can simply do:

SomeImage.jpg.

There will then be a separate parameter for the image caption such as Some image caption. Please note that this is a generic form message I am leaving on your page because you recently added a thumbnail to an infobox. The specific parameters for the image and caption may be different for the infobox you are using! Please consult the Template page for the infobox being used to see better documentation. Thanks!  Zack mann  (Talk to me/What I been doing) 05:33, 21 October 2018 (UTC)

Nomination for deletion of Template:Homologene2PDBe
Template:Homologene2PDBe has been nominated for deletion. You are invited to comment on the discussion at the entry on the Templates for discussion page. Gonnym (talk) 14:07, 7 December 2021 (UTC)