[Go-diff] GO update 08/26/2008

Remote CVS for Gene Ontology gocvs at genome.stanford.edu
Tue Aug 26 21:30:47 PDT 2008 

OBODIFF of gene_ontology_write.obo version 1.181 by 1.183

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0002116
* Created object of type obo:TERM with id GO:0034710
* Created object of type obo:TERM with id GO:0034711
* Created object of type obo:TERM with id GO:0034712
* Created object of type obo:TERM with id GO:0034713
* Created object of type obo:TERM with id GO:0034714
* Created object of type obo:TERM with id GO:0034715
* Created object of type obo:TERM with id GO:0034716
* Created object of type obo:TERM with id GO:0034717
* Created object of type obo:TERM with id GO:0034718
* Created object of type obo:TERM with id GO:0034719
* Populated new object GO:0002116 (macro)
  * Changed name of GO:0002116 from "<new term>" to "semaphorin receptor complex"
  * Set definition of GO:0002116 to "A stable binary complex of a neurophilin and a plexin, together forming a functional semaphorin receptor."
  * Added definition dbxref GOC:hjd to GO:0002116
  * Added definition dbxref PMID:10934324 to GO:0002116
  * Added definition dbxref PMID:12367632 to GO:0002116
  * Added definition dbxref PMID:12613544 to GO:0002116
  * Added synonym "plexin-neurophilin complex" to GO:0002116
  * Changed synonym scope of GO:0002116 from "Related" to "Exact"
  * Copied GO:0002116 to GO:0043234 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0002116
* Populated new object GO:0034710 (macro)
  * Changed name of GO:0034710 from "<new term>" to "inhibin complex binding"
  * Set definition of GO:0034710 to "Interacting selectively with an inhibin complex, a dimer of one inhibin-alpha subunit and one inhibin-beta subunit."
  * Added definition dbxref GOC:mah to GO:0034710
  * Copied GO:0034710 to GO:0032403 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0034710
* Populated new object GO:0034711 (macro)
  * Changed name of GO:0034711 from "<new term>" to "inhibin binding"
  * Set definition of GO:0034711 to "Interacting selectively with an inhibin monomer, any of the polypeptides that combine to form activin and inhibin dimers."
  * Added definition dbxref GOC:mah to GO:0034711
  * Added synonym "inhibin monomer binding" to GO:0034711
  * Changed synonym scope of GO:0034711 from "Related" to "Exact"
  * Copied GO:0034711 to GO:0005515 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0034711
* Populated new object GO:0034712 (macro)
  * Changed name of GO:0034712 from "<new term>" to "inhibin alpha binding"
  * Set definition of GO:0034712 to "Interacting selectively with inhibin alpha."
  * Added definition dbxref GOC:mah to GO:0034712
  * Copied GO:0034712 to GO:0034711 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0034712
* Populated new object GO:0034713 (macro)
  * Changed name of GO:0034713 from "<new term>" to "type I transforming growth factor beta receptor binding"
  * added secondary id GO:0005103 to GO:0034713
  * added secondary id GO:0005116 to GO:0034713
  * added secondary id GO:0005120 to GO:0034713
  * Set definition of GO:0034713 to "Interacting selectively with a type I transforming growth factor beta receptor."
  * Added definition dbxref GOC:mah to GO:0034713
  * Added synonym "babo binding" to GO:0034713
  * Changed synonym scope of GO:0034713 from "Related" to "Narrow"
  * Added synonym "babo ligand" to GO:0034713
  * Changed synonym scope of GO:0034713 from "Related" to "Narrow"
  * Added synonym "baboon binding" to GO:0034713
  * Changed synonym scope of GO:0034713 from "Related" to "Narrow"
  * Added synonym "baboon ligand" to GO:0034713
  * Changed synonym scope of GO:0034713 from "Related" to "Narrow"
  * Added synonym "baboon receptor ligand" to GO:0034713
  * Changed synonym scope of GO:0034713 from "Related" to "Narrow"
  * Added synonym "sax binding" to GO:0034713
  * Changed synonym scope of GO:0034713 from "Related" to "Narrow"
  * Added synonym "sax ligand" to GO:0034713
  * Changed synonym scope of GO:0034713 from "Related" to "Narrow"
  * Added synonym "saxophone binding" to GO:0034713
  * Changed synonym scope of GO:0034713 from "Related" to "Narrow"
  * Added synonym "saxophone ligand" to GO:0034713
  * Changed synonym scope of GO:0034713 from "Related" to "Narrow"
  * Added synonym "TGF-beta type I binding" to GO:0034713
  * Changed synonym scope of GO:0034713 from "Related" to "Exact"
  * Added synonym "thickveins binding" to GO:0034713
  * Changed synonym scope of GO:0034713 from "Related" to "Narrow"
  * Added synonym "thickveins ligand" to GO:0034713
  * Changed synonym scope of GO:0034713 from "Related" to "Narrow"
  * Added synonym "tkv binding" to GO:0034713
  * Changed synonym scope of GO:0034713 from "Related" to "Narrow"
  * Added synonym "tkv ligand" to GO:0034713
  * Changed synonym scope of GO:0034713 from "Related" to "Narrow"
  * Added synonym "transforming growth factor beta ligand binding to type I receptor" to GO:0034713
  * Added synonym "transforming growth factor beta receptor type I binding" to GO:0034713
  * Changed synonym scope of GO:0034713 from "Related" to "Exact"
  * Added synonym "type I TGF-beta binding" to GO:0034713
  * Changed synonym scope of GO:0034713 from "Related" to "Exact"
  * Copied GO:0034713 to GO:0005160 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0034713
* Populated new object GO:0034714 (macro)
  * Changed name of GO:0034714 from "<new term>" to "type III transforming growth factor beta receptor binding"
  * Set definition of GO:0034714 to "Interacting selectively with a type III transforming growth factor beta receptor."
  * Added definition dbxref GOC:mah to GO:0034714
  * Added synonym "betaglycan binding" to GO:0034714
  * Added synonym "TGF-beta type III binding" to GO:0034714
  * Changed synonym scope of GO:0034714 from "Related" to "Exact"
  * Added synonym "transforming growth factor beta ligand binding to type III receptor" to GO:0034714
  * Added synonym "transforming growth factor beta receptor type III binding" to GO:0034714
  * Changed synonym scope of GO:0034714 from "Related" to "Exact"
  * Added synonym "type IIII TGF-beta binding" to GO:0034714
  * Changed synonym scope of GO:0034714 from "Related" to "Exact"
  * Copied GO:0034714 to GO:0005160 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0034714
* Populated new object GO:0034715 (macro)
  * Changed name of GO:0034715 from "<new term>" to "pICln-Sm protein complex"
  * Set definition of GO:0034715 to "A protein complex that contains pICln (CLNS1A) and several Sm proteins, including SmD1, SmD2, SmE, SmF, and SmG."
  * Added definition dbxref GOC:mah to GO:0034715
  * Added definition dbxref PMID:11713266 to GO:0034715
  * Added synonym "6S pICln complex" to GO:0034715
  * Changed synonym scope of GO:0034715 from "Related" to "Exact"
  * Copied GO:0034715 to GO:0044444 with type OBO_REL:is_a
  * Copied GO:0034715 to GO:0043234 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0034715
* Populated new object GO:0034716 (macro)
  * Changed name of GO:0034716 from "<new term>" to "Gemin3-Gemin4-Gemin5 complex"
  * Set definition of GO:0034716 to "A protein complex that contains Gemin3 (DDX20), Gemin4, and Gemin5, and can bind to snRNAs; may be an intermediate in SMN complex assembly."
  * Added definition dbxref GOC:mah to GO:0034716
  * Added definition dbxref PMID:17640873 to GO:0034716
  * Copied GO:0034716 to GO:0043234 with type OBO_REL:is_a
  * Copied GO:0034716 to GO:0044424 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0034716
* Populated new object GO:0034717 (macro)
  * Changed name of GO:0034717 from "<new term>" to "Gemin6-Gemin7-unrip complex"
  * Set definition of GO:0034717 to "A protein complex that contains Gemin6, Gemin7, and unrip (STRAP), and can bind to snRNAs; may play a role in snRNP assembly."
  * Added definition dbxref GOC:mah to GO:0034717
  * Added definition dbxref PMID:17640873 to GO:0034717
  * Copied GO:0034717 to GO:0043234 with type OBO_REL:is_a
  * Copied GO:0034717 to GO:0044424 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0034717
* Populated new object GO:0034718 (macro)
  * Changed name of GO:0034718 from "<new term>" to "SMN-Gemin2 complex"
  * Set definition of GO:0034718 to "A protein complex that contains the survival motor neuron (SMN) protein and Gemin2; may form the stable core of the larger SMN complex."
  * Added definition dbxref GOC:mah to GO:0034718
  * Added definition dbxref PMID:17640873 to GO:0034718
  * Copied GO:0034718 to GO:0044424 with type OBO_REL:is_a
  * Copied GO:0034718 to GO:0043234 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0034718
* Populated new object GO:0034719 (macro)
  * Changed name of GO:0034719 from "<new term>" to "SMN-Sm protein complex"
  * Set definition of GO:0034719 to "A protein complex formed by the association of several methylated Sm proteins with the SMN complex; the latter contains the survival motor neuron (SMN) protein and at least eight additional integral components, including the Gemin2-8 and unrip proteins. The SMN-Sm complex is involved in spliceosomal snRNP assembly in the cytoplasm."
  * Added definition dbxref PMID:17401408 to GO:0034719
  * Copied GO:0034719 to GO:0043234 with type OBO_REL:is_a
  * Copied GO:0034719 to GO:0044444 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0034719
* Deleted GO:0005103 --OBO_REL:is_a--> GO:0005160
* Destroyed object GO:0005103
* Changed name of GO:0005114 from "punt binding" to "type II transforming growth factor beta receptor binding"
* Changed definition of GO:0005114 from "Interacting selectively with the punt protein, a type II transforming growth factor beta receptor." to "Interacting selectively with a type II transforming growth factor beta receptor."
* Deleted definition dbxref GOC:bf from GO:0005114
* Added definition dbxref GOC:ceb to GO:0005114
* Added definition dbxref GOC:mah to GO:0005114
* Added definition dbxref PMID:11252892 to GO:0005114
* Deleted synonym "put binding" from GO:0005114
* Deleted synonym "put ligand" from GO:0005114
* Added synonym "punt binding" to GO:0005114
* Changed synonym scope of GO:0005114 from "Related" to "Narrow"
* Added synonym "TGF-beta type II binding" to GO:0005114
* Changed synonym scope of GO:0005114 from "Related" to "Exact"
* Added synonym "transforming growth factor beta ligand binding to type II receptor" to GO:0005114
* Added synonym "transforming growth factor beta receptor type II binding" to GO:0005114
* Changed synonym scope of GO:0005114 from "Related" to "Exact"
* Added synonym "type II TGF-beta binding" to GO:0005114
* Changed synonym scope of GO:0005114 from "Related" to "Exact"
* Deleted GO:0005116 --OBO_REL:is_a--> GO:0005160
* Destroyed object GO:0005116
* Deleted GO:0005120 --OBO_REL:is_a--> GO:0005160
* Destroyed object GO:0005120
* Added comment "Note that this term refers to a projection from a single cell, and should not be confused with 'microvillus' as used to refer to a multicellular structure such as that found in the placenta."
* Deleted GO:0008097 --OBO_REL:is_a--> GO:0003723
* Copied GO:0008097 to GO:0019843 with type OBO_REL:is_a
* Deleted GO:0015643 --OBO_REL:is_a--> GO:0003823
* Copied GO:0015643 to GO:0005488 with type OBO_REL:is_a
* Changed definition of GO:0034709 from "A large (20 S) protein complex that possesses protein arginine methyltransferase activity and modifies specific arginines to dimethylarginines in the arginine- and glycine-rich domains of several spliceosomal Sm proteins, thereby targeting these proteins to the survival of motor neurons (SMN) complex for assembly into small nuclear ribonucleoprotein (snRNP) core particles. Proteins found in the methylosome include the methyltransferase JBP1 (PRMT5), pICln (CLNS1A), MEP50 (WDR77), and SM proteins that have RG domains." to "A large (20 S) protein complex that possesses protein arginine methyltransferase activity and modifies specific arginines to dimethylarginines in the arginine- and glycine-rich domains of several spliceosomal Sm proteins, thereby targeting these proteins to the survival of motor neurons (SMN) complex for assembly into small nuclear ribonucleoprotein (snRNP) core particles. Proteins found in the methylosome include the methyltransferase JBP1 (PRMT5), pICln (CLNS1A), MEP50 (WDR77), and unmethylated forms of SM proteins that have RG domains."
* added secondary id GO:0042606 to GO:0042605
* added secondary id GO:0042607 to GO:0042605
* Added synonym "endogenous peptide antigen binding" to GO:0042605
* Changed synonym scope of GO:0042605 from "Related" to "Narrow"
* Added synonym "exogenous peptide antigen binding" to GO:0042605
* Changed synonym scope of GO:0042605 from "Related" to "Narrow"
* Deleted GO:0042606 --OBO_REL:is_a--> GO:0042605
* Destroyed object GO:0042606
* Deleted GO:0042607 --OBO_REL:is_a--> GO:0042605
* Destroyed object GO:0042607
* Changed definition of GO:0048184 from "Interacting selectively with follistatin." to "Interacting selectively with the peptide hormone follistatin."
* Added definition dbxref GOC:mah to GO:0048184
* Changed definition of GO:0048185 from "Interacting selectively with activin." to "Interacting selectively with activin, a dimer of inhibin-beta subunits."
* Added definition dbxref GOC:mah to GO:0048185
* Deleted GO:0048185 --OBO_REL:is_a--> GO:0005515
* Copied GO:0048185 to GO:0032403 with type OBO_REL:is_a
* Deleted GO:0048186 --OBO_REL:is_a--> GO:0048184
* Deleted GO:0048186 --OBO_REL:is_a--> GO:0048185
* Copied GO:0048186 to GO:0034711 with type OBO_REL:is_a
* Deleted GO:0048187 --OBO_REL:is_a--> GO:0048184
* Deleted GO:0048187 --OBO_REL:is_a--> GO:0048185
* Copied GO:0048187 to GO:0034711 with type OBO_REL:is_a
* Changed definition of GO:0060280 from "Any process that stops, prevents or reduces the frequency, rate or extent
of ovulation, the release of a mature ovum/oocyte from an ovary." to "Any process that stops, prevents or reduces the frequency, rate or extent of ovulation, the release of a mature ovum/oocyte from an ovary."

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