Protein Ontology

Usefulness / Support for RDF/XML Data Format

Started at: 2025-03-27 07:09:33 UTC
Finished at: 2025-03-27 07:09:39 UTC

The endpoint does not support content negotiation for application/rdf+xml

An URI found by SPARQL query.

Elapsed time		0.556 [s]
Request	Method	`POST`
	URL	`https://sparql.proconsortium.org/virtuoso/sparql`
	Headers	`User-Agent: Umaka-Crawler/1.0.0 by DBCLS (umakadata@dbcls.jp) Accept: application/sparql-results+json, application/sparql-results+xml, text/boolean, text/tab-separated-values;q=0.8, text/csv;q=0.2, /;q=0.1 Content-Type: application/x-www-form-urlencoded`
	Body	`query=SELECT+%3Fs+WHERE+%7B+GRAPH+%3Fg+%7B+%3Fs+%3Fp+%3Fo+.+FILTER%28STRSTARTS%28STR%28%3Fs%29%2C+%22http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FPR_%22%29%29+%7D+%7D+LIMIT+1`
Response	URL	`https://sparql.proconsortium.org/virtuoso/sparql`
	Status	`200`
	Headers	`Date: Thu, 27 Mar 2025 07:09:26 GMT Server: Virtuoso/07.20.3240 (Linux) x86_64-pc-linux-gnu Accept-Ranges: bytes Content-Disposition: filename=sparql_2025-03-27_07-09-26Z.json Content-Type: application/sparql-results+json Vary: Accept-Encoding Access-Control-Allow-Origin: * Content-Length: 198 Connection: close Content-Language: en`
	Body	`{ "head": { "link": [], "vars": ["s"] }, "results": { "distinct": false, "ordered": true, "bindings": [ { "s": { "type": "uri", "value": "http://purl.obolibrary.org/obo/PR_000048676" }} ] } }`

http://purl.obolibrary.org/obo/PR_000048676 returns 'Content-Type: ' for content negotiation by 'Accept: application/rdf+xml' in request header.

Elapsed time		5.065 [s]
Request	Method	`GET`
	URL	`http://purl.obolibrary.org/obo/PR_000048676`
	Headers	`User-Agent: Umaka-Crawler/1.0.0 by DBCLS (umakadata@dbcls.jp) Accept: application/rdf+xml`
	Body
Response	URL	`https://proconsortium.org/cgi-bin/entry_pro?id=PR_000048676`
	Status	`200`
	Headers	`Date: Thu, 27 Mar 2025 07:09:34 GMT Server: Apache/2.4.63 (Unix) OpenSSL/3.2.2 mod_wsgi/5.0.2 Python/3.9 PHP/8.4.5 X-Frame-Options: SAMEORIGIN Upgrade: h2,h2c Connection: Upgrade, Keep-Alive Strict-Transport-Security: max-age=31536000 Keep-Alive: timeout=1500, max=100 Transfer-Encoding: chunked`
	Body	<!DOCTYPE HTML PUBLIC '-//W3C//DTD HTML 4.01 Transitional//EN'> <HTML> <HEAD><TITLE>Protein Ontology </TITLE> <LINK href='/styles.css' type='text/css' rel='stylesheet'> </HEAD> <BODY bgColor='#cccccc' background='/images/temp/bg02.gif' leftMargin='0' topMargin='0' marginwidth='0' marginheight='0' > <table border='0' cellspacing='0' cellpadding='0' width=100%> <tr><td> <TABLE cellSpacing=0 cellPadding=0 width=100% background=/bannerBg.png border=0 > <TR><TD colspan=8><img src='/images/empty_line.GIF' width='1' height='9'></TD></TR> <TR><td bgcolor=#EEEEEE colspan=8 height=1 nowrap><img src='/images/empty_line.GIF' width='1' height='3'></td></TR> <tr> <td><img src='/images/empty_line.GIF' width='8' height='76'></td> <td align=center nowrap><img src='/images/empty_line.GIF' width='1' height='3'><br><img src='/images/empty_line.GIF' width='3' height='1'><a href=/pro.shtml><img alt='back to PRO homepage' src='/PROlogofinalEDGclear.png' width=140 heightxx=42 border=0></a><img src='/images/empty_line.GIF' width='3' height='1'><br><img src='/images/empty_line.GIF' width='1' height='2'></td> <td width=80% > <TABLE border=0 cellPadding=0 cellSpacing=0 class=PRO_banner1> <TR> <td><img src='/images/empty_line.GIF' width='15'></td> <td><img src='/hm.png' width='18'> </td> <TD align='center' nowrap><a href='/pro.shtml' class='ProMenu'>Home</a></td> <td><img src='/images/empty_line.GIF' width='5'>\|<img src='/images/empty_line.GIF' width='5'></td> <td><img src='/sparql.png' width='18'> </td> <td align='center' nowrap><a href='http://lod.proconsortium.org' class='ProMenu'>Linked Open Data</a></td><td> <td><img src='/images/empty_line.GIF' width='5'>\|<img src='/images/empty_line.GIF' width='5'></td> <td><img src='/browse.png' width='18'> </td> <td align='center' nowrap><a href='/pro_browse.shtml' class='ProMenu'>Browse</a></td><td> <td><img src='/images/empty_line.GIF' width='5'>\|<img src='/images/empty_line.GIF' width='5'></td> <td><img src='/search.png' width='18'> </td> <td align='center' nowrap><img src='/images/empty_line.GIF' width='1' height=10><br><a href='/pro_search.shtml' class='ProMenu'><font class='ProMenu'><font color=#FF9933>Search</font></a><br><img src='/images/empty_line.GIF' width='1' height=5><br><img src='/thisOne.png'></td> <td><img src='/images/empty_line.GIF' width='5'>\|<img src='/images/empty_line.GIF' width='5'></td> <td><img src='/sta.png' width='18'> </td> <td align='center' nowrap><a href='/cgi-bin/sta_pro' class='ProMenu'>Statistics</a></td><td> <td><img src='/images/empty_line.GIF' width='5'>\|<img src='/images/empty_line.GIF' width='5'></td> <td><img src='/download.png' width='18'> </td> <td align='center' nowrap><a href='/pro_download.shtml' class='ProMenu'>Download</a></td> <td><img src='/images/empty_line.GIF' width='15'></td> </TR> </TABLE> </td> <td align=center> <TABLE border=0 cellPadding=3 cellSpacing=3 class=nrm02> <TR> <form name=prosearch method=get action=/cgi-bin/textsearch_pro> <TD nowrap><input type=text name=query0 size=30 class=nrm11 placeholder='PR:000025934, smad'> <td><input type=image name='search' src='/searchWhite.png'><input type=hidden name=field0 value='ALLFLDS'></td> <td><img src='/images/empty_line.GIF' width='4'></td> </form> </TR> </TABLE> </td> <td bgcolor=#EEEEEE><img src='/images/empty_line.GIF' width='3' height='1'></td> <td> <TABLE border=0 cellPadding=3 cellSpacing=3 class=PRO_banner2 > <TR><td></td> <TD nowrap><IMG src='/whiteDot.gif'> <a href='/cgi-bin/race_pro'>RACE-PRO</a> <br><IMG src='/whiteDot.gif'> <a href='http://purl.obolibrary.org/obo/pr/tracker' target=_b>PRO tracker</a> <br><IMG src='/whiteDot.gif'> <a href='/pro_comm_home.shtml'>Community</a></TD> <TD><img src='/images/empty_line.GIF' width='5'></TD> </TR> </TABLE> </td> <td bgcolor=#EEEEEE><img src='/images/empty_line.GIF' width='3' height='1'></td> <td align=right> <TABLE border=0 cellPadding=3 cellSpacing=3 class=PRO_banner2 > <TR><td></td> <TD nowrap><IMG src='/whiteDot.gif'> <a href='/pro_cst.shtml'>PRO Consortium</a> <br><IMG src='/whiteDot.gif'> <a href='/pro_pub.shtml'>Publications</a> <br><IMG src='/whiteDot.gif'> <a href='/pro_dcmtt.shtml'>Documentation</a></TD> <TD><img src='/images/empty_line.GIF' width='15'></TD> </TR> </TABLE> </td> </tr> <TR><td bgcolor=#EEEEEE colspan=8 height=1 nowrap><img src='/images/empty_line.GIF' width='1' height='3'></TD></TR> <TR><td colspan=8><img src='/images/empty_line.GIF' width='1' height='9'></TD></TR> </table> </td> </tr> <tr><td> <TABLE cellSpacing=0 cellPadding=0 width=100% bgColor=#ffffff border=0> <TR vAlign=top> <TD background='/images/temp/bg02.gif'><img src='/images/spacer.gif' width='20' height='1' alt=''></TD> <TD align=left nowrap bgcolor='#ffffff' width=100%> <TABLE cellSpacing=0 cellPadding=0 border=0 width=100% bgcolor='#ffffff' class=nrm03> <TR><TD> <!-- ######### MAIN content page specific --> <FORM name=mainForm method=get style="margin-top:0;" action='/cgi-bin/entry_pro'> <style> #container { width:auto; margin:auto; height:auto; } #hover-itemS { position:relative; cursor:pointer; } #hover-itemS span { display:none; position:absolute; top:15; left:-120px; z-index:1; padding:10px; border:single; border-radius:5px; background-color:#EFFCF0; box-shadow:4px 4px 4px #999; font-size:100%; color:black; } #hover-itemS:hover span { display:block; } #cyctoscape { position: fixed; bottom:50px; right: 5px; cursor:pointer; } #backToTop { position: fixed; bottom: 200px; right: -4px; cursor:pointer; } </style><SCRIPT LANGUAGE="JavaScript" type="text/javascript"> var checkflag = "true" function check(field) { if (checkflag == false) { for (i = 0; i < field.length; i++) { field[i].checked = true } if (i == 0) { field.checked = true } checkflag = true } else { for (i = 0; i < field.length; i++) { field[i].checked = false } if (i == 0) { field.checked = false } checkflag = false } return false } function current_sel(id,all) { var all_checked=true var sel_num=0 for(var x=0; x<id.length; x++) { if (id[x].checked==true) { sel_num++ } else { all_checked=false } } if (x == 0) { if (id.checked==true) { sel_num++ } else { all_checked=false } } if (all_checked==true) { all.checked=true } else { all.checked=false } return false } </script><table border=0 cellspacing=0 cellpadding=0 width=1200><tr><td><table cellpadding=6 border=0 width=100% cellspacing=0 class=nrm12 bgcolor='#FFFFFF'><tr><td width=100%> <img src='/images/spacer.gif' width=1 height=17 border=0><br> <table border=0 width=100% cellspadding=0 cellspacing=0 class=nrm04> <tr> <td width=95% nowrap valign=bottom><b>Protein Ontology report - prolyl 4-hydroxylase subunit alpha-1, signal peptide removed form (human)</b></td></tr> <tr> <td width=95% nowrap valign=bottom>PR:000048676 - <a href=http://purl.obolibrary.org/obo/PR_000048676 target=_>http://purl.obolibrary.org/obo/PR_000048676</a></td></tr> <tr><td nowrap></td> <td valign=top></td> <td nowrap></td><td width=95% nowrap> </td></tr> <tr><td colspan=2 align=right><table border=0 cellspadding=0 cellspacing=0 class=nrm12> <tr> <td><img border=0 src=/images/spacer.gif width=30 height=1></td></tr></table></td></tr> <tr><td colspan=2 align=right><img src=/images/spacer.gif width=1 height=1 border=0></td></tr> </table> <table width=100% border=0 cellspacing=0 cellpadding=0 class=nrm12 ><tr><td align=right> <table border=0 cellspacing=0 cellpadding=0><tr align=right class=nrm02> <td>      </td></tr></table></td></tr></table><table width=100% class=resultTable border=1 cellspacing=0 cellpadding=6 bordercolordark=#ffffff bordercolorlight=#929292 > <tr class=tableTitle2> <td colspan=2><table border=0 cellspacing=0 cellpadding=0 class=nrm12 width=100%> <tr><td class=tableTitle2 align=left nowrap>Ontology Information</td> <td width=90% class=nrm02 align=right><a href=entry_pro?stanza_id=PR:000048676 target=_>Show OBO stanza</a></td> <td><img border=0 src=/images/spacer.gif width=16 height=2></td></tr></table></td></tr> <tr><td class=tableLeft2 >  PRO ID<br><img border=0 src=/images/spacer.gif width=204 height=1></td> <td width=90%><table border=0 width=100% cellspacing=0 cellpadding=0 class=nrm12><tr><td width=90%>PR:000048676    </td></tr></table></td></tr> <tr><td class=tableLeft2>  PRO name</td><td class=nrm12 width=90%>prolyl 4-hydroxylase subunit alpha-1, signal peptide removed form (human) </td></tr><tr><td class=tableLeft2>  Synonyms </td><td class=nrm12 align=left><table border=0 class=nrm11 ><tr valign=top><td align=right nowrap><i><b><u> PRO-Short-label</u>:</b></i> </td><td align=right width=20>EXACT:</td><td>hP4HA1/SigPep-</td></tr> <tr valign=top><td align=right nowrap><i><b><u>PRO-proteoform-std</u>:</b></i> </td><td align=right width=20>EXACT:</td><td><a href=https://purl.uniprot.org/uniprot/P13674 target=_>UniProtKB:P13674</a>, 18-534</td> </tr> <tr valign=top><td align=right nowrap><i><b><u>PRO-proteoform-ftid</u>:</b></i> </td><td align=right width=20>EXACT:</td><td>PRO_0000022723</td> </tr> </table> </td></tr><tr><td class=tableLeft2>  Definition</td><td class=nrm12>"A prolyl 4-hydroxylase subunit alpha-1 (huma… [Trailing bodies are truncated]

An URI found by SPARQL query.

Elapsed time		0.701 [s]
Request	Method	`POST`
	URL	`https://sparql.proconsortium.org/virtuoso/sparql`
	Headers	`User-Agent: Umaka-Crawler/1.0.0 by DBCLS (umakadata@dbcls.jp) Accept: application/sparql-results+json, application/sparql-results+xml, text/boolean, text/tab-separated-values;q=0.8, text/csv;q=0.2, /;q=0.1 Content-Type: application/x-www-form-urlencoded`
	Body	`query=SELECT+%3Fs+WHERE+%7B+GRAPH+%3Fg+%7B+%3Fs+%3Fp+%3Fo+.+FILTER%28STRSTARTS%28STR%28%3Fs%29%2C+%22https%3A%2F%2Fproconsortium.org%2Fpr_extra%23%22%29%29+%7D+%7D+LIMIT+1`
Response	URL	`https://sparql.proconsortium.org/virtuoso/sparql`
	Status	`200`
	Headers	`Date: Thu, 27 Mar 2025 07:09:33 GMT Server: Virtuoso/07.20.3240 (Linux) x86_64-pc-linux-gnu Accept-Ranges: bytes Content-Disposition: filename=sparql_2025-03-27_07-09-33Z.json Content-Type: application/sparql-results+json Vary: Accept-Encoding Access-Control-Allow-Origin: * Content-Length: 210 Connection: close Content-Language: en`
	Body	`{ "head": { "link": [], "vars": ["s"] }, "results": { "distinct": false, "ordered": true, "bindings": [ { "s": { "type": "uri", "value": "https://proconsortium.org/pr_extra#hasOrthoModifiedForm" }} ] } }`

https://proconsortium.org/pr_extra#hasOrthoModifiedForm returns 404 Not Found

Elapsed time		0.73 [s]
Request	Method	`GET`
	URL	`https://proconsortium.org/pr_extra`
	Headers	`User-Agent: Umaka-Crawler/1.0.0 by DBCLS (umakadata@dbcls.jp) Accept: application/rdf+xml`
	Body
Response	URL	`https://proconsortium.org/pr_extra`
	Status	`404`
	Headers	`Date: Thu, 27 Mar 2025 07:09:39 GMT Server: Apache/2.4.63 (Unix) OpenSSL/3.2.2 mod_wsgi/5.0.2 Python/3.9 PHP/8.4.5 X-Frame-Options: SAMEORIGIN Content-Length: 328 Keep-Alive: timeout=1500, max=100 Connection: Keep-Alive Content-Type: text/html; charset=iso-8859-1`
	Body	`<!DOCTYPE HTML PUBLIC "-//IETF//DTD HTML 2.0//EN"> <html><head> <title>404 Not Found</title> </head><body> <h1>Not Found</h1> <p>The requested URL was not found on this server.</p> <hr> <address>Apache/2.4.63 (Unix) OpenSSL/3.2.2 mod_wsgi/5.0.2 Python/3.9 PHP/8.4.5 Server at proconsortium.org Port 443</address> </body></html>`