[Go-diff] GO update 06/13/2008

Fri Jun 13 21:30:46 PDT 2008

OBODIFF of gene_ontology_write.obo version 1.106 by 1.108

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0034510
* Created object of type obo:TERM with id GO:0034511
* Created object of type obo:TERM with id GO:0034512
* Created object of type obo:TERM with id GO:0034513
* Created object of type obo:TERM with id GO:0034514
* Populated new object GO:0034510 (macro)
  * Changed name of GO:0034510 from "<new term>" to "centromere separation"
  * Set definition of GO:0034510 to "The cell cycle process whereby centromeres are physically detached from each other during chromosome separation."
  * Added definition dbxref GOC:mah to GO:0034510
  * Copied GO:0034510 to GO:0051304 with type part_of
  * Copied GO:0034510 to GO:0022402 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034510
* Populated new object GO:0034511 (macro)
  * Changed name of GO:0034511 from "<new term>" to "U3 snoRNA binding"
  * Set definition of GO:0034511 to "Interacting selectively with U3 small nucleolar RNA."
  * Added definition dbxref GOC:mah to GO:0034511
  * Copied GO:0034511 to GO:0030515 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0034511
* Populated new object GO:0034512 (macro)
  * Changed name of GO:0034512 from "<new term>" to "box C/D snoRNA binding"
  * Set definition of GO:0034512 to "Interacting selectively with box C/D small nucleolar RNA."
  * Added definition dbxref GOC:mah to GO:0034512
  * Copied GO:0034512 to GO:0030515 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0034512
* Populated new object GO:0034513 (macro)
  * Changed name of GO:0034513 from "<new term>" to "box H/ACA snoRNA binding"
  * Set definition of GO:0034513 to "Interacting selectively with box H/ACA small nucleolar RNA."
  * Added definition dbxref GOC:mah to GO:0034513
  * Copied GO:0034513 to GO:0030515 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0034513
* Populated new object GO:0034514 (macro)
  * Changed name of GO:0034514 from "<new term>" to "mitochondrial unfolded protein response"
  * Set definition of GO:0034514 to "The series of molecular signals generated as a consequence of the presence of unfolded proteins in the mitochondrial matrix; results in transcriptional upregulation of nuclear genes encoding mitochondrial stress proteins."
  * Added definition dbxref GOC:mah to GO:0034514
  * Added definition dbxref PMID:17849004 to GO:0034514
  * Added synonym "mtUPR" to GO:0034514
  * Changed synonym scope of GO:0034514 from "Related" to "Exact"
  * Copied GO:0034514 to GO:0006986 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034514
* Changed definition of GO:0000148 from "The complex that catalyzes the transfer of a glucose moiety from UDP-glucose to a 1,3-beta-D-glucan chain." to "A protein complex that catalyzes the transfer of a glucose moiety from UDP-glucose to a 1,3-beta-D-glucan chain."
* Deleted GO:0000243 --OBO_REL:is_a--> GO:0043234
* Copied GO:0000243 to GO:0030529 with type OBO_REL:is_a
* Deleted definition dbxref IUPHAR:2.1 from GO:0001584
* Added definition dbxref IUPHAR_GPCR:1505 to GO:0001584
* Deleted definition dbxref IUPHAR:2.1 DA 5 from GO:0001589
* Added definition dbxref IUPHAR_RECEPTOR:2260 to GO:0001589
* Deleted definition dbxref IUPHAR:21. DA 1 from GO:0001590
* Added definition dbxref IUPHAR_RECEPTOR:2252 to GO:0001590
* Deleted definition dbxref IUPHAR:2.1 DA 3 from GO:0001592
* Added definition dbxref IUPHAR_RECEPTOR:2256 to GO:0001592
* Deleted definition dbxref IUPHAR:2.1 DA 4 from GO:0001593
* Added definition dbxref IUPHAR_RECEPTOR:2258 to GO:0001593
* Deleted definition dbxref IUPHAR:2.1 ET ETA from GO:0001599
* Added definition dbxref IUPHAR_RECEPTOR:2263 to GO:0001599
* Deleted definition dbxref IUPHAR:2.1 ET ETAB from GO:0001600
* Added definition dbxref IUPHAR_RECEPTOR:2265 to GO:0001600
* Deleted definition dbxref IUPHAR:2.1.NUCT from GO:0001608
* Added definition dbxref IUPHAR_GPCR:1294 to GO:0001608
* Deleted definition dbxref IUPHAR:2.2 from GO:0001633
* Added definition dbxref IUPHAR_GPCR:1506 to GO:0001633
* Deleted definition dbxref IUPHAR:2.1 DA 2 from GO:0001670
* Added definition dbxref IUPHAR_RECEPTOR:2254 to GO:0001670
* Deleted definition dbxref IUPHAR:2.0 from GO:0004930
* Added definition dbxref http://www.iuphar-db.org to GO:0004930
* Deleted definition dbxref IUPHAR:2.1.CBD from GO:0004949
* Added definition dbxref IUPHAR_GPCR:1279 to GO:0004949
* Deleted definition dbxref IUPHAR:2.1 CHK from GO:0004950
* Added definition dbxref IUPHAR_GPCR:1280 to GO:0004950
* Deleted definition dbxref IUPHAR:2.1 DA from GO:0004952
* Added definition dbxref IUPHAR_GPCR:1282 to GO:0004952
* Deleted definition dbxref IUPHAR:2.1 ET from GO:0004962
* Added definition dbxref IUPHAR_GPCR:1283 to GO:0004962
* Deleted definition dbxref IUPHAR:2.3 GLU from GO:0004965
* Added definition dbxref IUPHAR_RECEPTOR:1276 to GO:0004965
* Deleted GO:0005656 --OBO_REL:is_a--> GO:0043234
* Copied GO:0005656 to GO:0032993 with type OBO_REL:is_a
* Deleted definition dbxref IUPHAR:2.3 GLU from GO:0008067
* Added definition dbxref IUPHAR_GPCR:1285 to GO:0008067
* Changed definition of GO:0009377 from "A protein complex that possesses ATP-dependent protease activity; as characterized in E. coli, the complex contains six identical subunits of both ClpY and ClpQ that self-assemble into an oligomeric ring, and two rings of each subunit, two ClpQ rings surrounded by single ClpY rings, to form a dumbbell shape complex." to "Catalysis of the ATP-dependent hydrolysis of peptide bonds in substrates including E. coli SulA and misfolded proteins."
* Deleted definition dbxref PMID:12670962 from GO:0009377
* Added definition dbxref PMID:10368141 to GO:0009377
* Deleted GO:0015935 --OBO_REL:is_a--> GO:0043234
* Set definition of GO:0015985 to "The transport of protons across a membrane to generate an electrochemical gradient (proton-motive force) that provides energy for the synthesis of ATP or GTP."
* Added definition dbxref GOC:mah to GO:0015985
* Copied GO:0015985 to GO:0034220 with type OBO_REL:is_a
* Set definition of GO:0015988 to "The transport of protons against an electrochemical gradient, using energy from a source such as ATP hydrolysis, light, or electron transport."
* Added definition dbxref GOC:mah to GO:0015988
* Set definition of GO:0015989 to "The transport of protons against an electrochemical gradient, using energy from light."
* Added definition dbxref GOC:mah to GO:0015989
* Set definition of GO:0015990 to "The transport of protons against an electrochemical gradient, using energy from electron transport."
* Added definition dbxref GOC:mah to GO:0015990
* Set definition of GO:0015991 to "The transport of protons against an electrochemical gradient, using energy from ATP hydrolysis."
* Added definition dbxref GOC:mah to GO:0015991
* Deleted GO:0016282 --OBO_REL:is_a--> GO:0043234
* Copied GO:0016282 to GO:0030529 with type OBO_REL:is_a
* Changed definition of GO:0030386 from "Complex that possesses ferredoxin:thioredoxin reductase activity." to "A protein complex that possesses ferredoxin:thioredoxin reductase activity."
* Deleted GO:0030894 --OBO_REL:is_a--> GO:0043234
* Copied GO:0030894 to GO:0032993 with type OBO_REL:is_a
* Changed name of GO:0030968 from "unfolded protein response" to "endoplasmic reticulum unfolded protein response"
* Deleted synonym "UPR" from GO:0030968
* Added synonym "ER unfolded protein response" to GO:0030968
* Changed synonym scope of GO:0030968 from "Related" to "Exact"
* Added synonym "erUPR" to GO:0030968
* Changed synonym scope of GO:0030968 from "Related" to "Exact"
* Deleted GO:0031261 --OBO_REL:is_a--> GO:0043234
* Copied GO:0031261 to GO:0032993 with type OBO_REL:is_a
* Deleted GO:0031421 --OBO_REL:is_a--> GO:0043234
* Copied GO:0031421 to GO:0032993 with type OBO_REL:is_a
* Deleted GO:0033290 --OBO_REL:is_a--> GO:0043234
* Copied GO:0033290 to GO:0030529 with type OBO_REL:is_a
* Deleted GO:0033291 --OBO_REL:is_a--> GO:0043234
* Copied GO:0033291 to GO:0030529 with type OBO_REL:is_a
* Changed definition of GO:0034220 from "The process whereby an ion is transported from one side of a membrane to the other." to "A process whereby an ion is transported from one side of a membrane to the other."
* Deleted GO:0034500 --OBO_REL:is_a--> GO:0051304
* Copied GO:0034500 to GO:0051304 with type part_of
* Copied GO:0034500 to GO:0022402 with type OBO_REL:is_a
* Changed definition of GO:0043234 from "Any protein group composed of two or more subunits, which may or may not be identical. Protein complexes may have other associated non-protein prosthetic groups, such as nucleic acids, metal ions or carbohydrate groups." to "Any macromolecular complex composed of two or more polypeptide subunits, which may or may not be identical. Protein complexes may have other associated non-protein prosthetic groups, such as nucleotides, metal ions or carbohydrate groups."
* Added synonym "protein-protein complex" to GO:0043234
* Changed synonym scope of GO:0043234 from "Related" to "Exact"
* Deleted GO:0043614 --OBO_REL:is_a--> GO:0043234
* Copied GO:0043614 to GO:0030529 with type OBO_REL:is_a
* Changed name of GO:0043769 from "telomere binding complex" to "Tpg-containing telomere binding complex"
* Changed definition of GO:0043769 from "A complex composed of four polypeptides: a telomere-protecting terminal protein (Tpg), a telomere-associated protein (Tap), DNA polymerase (PolA) and topoisomerase I (TopA) that functions in the replication of the telomeric regions of linear chromosomes, plasmids and circular replicons of some bacterial species." to "A complex composed of four polypeptides, a telomere-protecting terminal protein (Tpg), a telomere-associated protein (Tap), DNA polymerase (PolA) and topoisomerase I (TopA), that functions in the replication of the telomeric regions of linear chromosomes, plasmids and circular replicons of some bacterial species."
* Changed synonym scope of GO:0043769 from "Exact" to "Broad"
* Deleted GO:0043769 --OBO_REL:is_a--> GO:0044427
* Copied GO:0043769 to GO:0000782 with type OBO_REL:is_a
* Changed name of GO:0043845 from "DNA polymerase III, proof-reading complex" to "DNA polymerase III, proofreading complex"
* Added synonym "DNA polymerase III, proof-reading complex" to GO:0043845
* Changed synonym scope of GO:0043845 from "Related" to "Exact"
* Deleted general dbxref EC:4.1.3 from GO:0043904
* Added general dbxref EC:4.1.3.- to GO:0043904
* Deleted GO:0051756 --OBO_REL:is_a--> GO:0022402
* Copied GO:0051756 to GO:0034510 with type OBO_REL:is_a