[go-diff] GO update 02/11/2008

[Remote CVS for Gene Ontology]

OBODIFF of gene_ontology_edit.obo version 5.685 by 5.687

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0010540
* Created object of type obo:TERM with id GO:0010541
* Populated new object GO:0010540 (macro)
  * Changed name of GO:0010540 from "<new term>" to "basipetal auxin transport"
  * Set definition of GO:0010540 to "The unidirectional movement of auxin from the apex to base of an organ, including the shoot, leaf, primary root, or lateral root."
  * Added definition dbxref PMID:10677441 to GO:0010540
  * Copied GO:0010540 to GO:0009926 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010540
* Populated new object GO:0010541 (macro)
  * Changed name of GO:0010541 from "<new term>" to "acropetal auxin transport"
  * Set definition of GO:0010541 to "The unidirectional movement of auxin from the base towards the apex of an organ, including the shoot, leaf, primary root, or lateral root."
  * Added definition dbxref PMID:10677441 to GO:0010541
  * Copied GO:0010541 to GO:0009926 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010541
* Deleted GO:0000158 --OBO_REL:is_a--> GO:0004722
* Destroyed object GO:0000158
* Deleted GO:0000163 --OBO_REL:is_a--> GO:0004722
* Deleted GO:0017018 --OBO_REL:is_a--> GO:0000163
* Destroyed object GO:0000163
* Set definition of GO:0001609 to "Combining with adenosine and transmitting the signal to a heterotrimeric G-protein complex to initiate a change in cell activity."
* Added definition dbxref GOC:mah to GO:0001609
* Added definition dbxref PMID:9755289 to GO:0001609
* Set definition of GO:0001614 to "Combining with a purine nucleotide to initiate a change in cell activity."
* Added definition dbxref GOC:mah to GO:0001614
* Changed synonym scope of GO:0001614 from "Exact" to "Broad"
* Added synonym "purinoreceptor" to GO:0001614
* Changed synonym scope of GO:0001614 from "Related" to "Broad"
* Changed definition of GO:0003916 from "Catalysis of a topological transformation in double-stranded DNA by a covalent or non-covalent mechanism." to "Catalysis of the transient cleavage and passage of individual DNA strands or double helices through one another, resulting a topological transformation in double-stranded DNA."
* Added definition dbxref PMID:8811192 to GO:0003916
* added secondary id GO:0000158 to GO:0004722
* added secondary id GO:0000163 to GO:0004722
* added secondary id GO:0008598 to GO:0004722
* added secondary id GO:0008600 to GO:0004722
* added secondary id GO:0015071 to GO:0004722
* added secondary id GO:0030357 to GO:0004722
* added secondary id GO:0030358 to GO:0004722
* added secondary id GO:0030360 to GO:0004722
* added secondary id GO:0030361 to GO:0004722
* Added general dbxref Reactome:21718 to GO:0004722
* Added synonym "calcineurin" to GO:0004722
* Changed synonym scope of GO:0004722 from "Related" to "Narrow"
* Added synonym "protein phosphatase type 1 activity" to GO:0004722
* Changed synonym scope of GO:0004722 from "Related" to "Narrow"
* Added synonym "protein phosphatase type 1, intrinsic catalyst activity" to GO:0004722
* Changed synonym scope of GO:0004722 from "Related" to "Narrow"
* Added synonym "protein phosphatase type 2A activity" to GO:0004722
* Changed synonym scope of GO:0004722 from "Related" to "Narrow"
* Added synonym "protein phosphatase type 2A, intrinsic catalyst activity" to GO:0004722
* Changed synonym scope of GO:0004722 from "Related" to "Narrow"
* Added synonym "protein phosphatase type 2B activity" to GO:0004722
* Changed synonym scope of GO:0004722 from "Related" to "Narrow"
* Added synonym "protein phosphatase type 2B, intrinsic catalyst activity" to GO:0004722
* Changed synonym scope of GO:0004722 from "Related" to "Narrow"
* Added synonym "protein phosphatase type 2C activity" to GO:0004722
* Changed synonym scope of GO:0004722 from "Related" to "Narrow"
* Added synonym "protein phosphatase type 4 activity" to GO:0004722
* Changed synonym scope of GO:0004722 from "Related" to "Narrow"
* Added synonym "protein phosphatase type 4, intrinsic catalyst activity" to GO:0004722
* Changed synonym scope of GO:0004722 from "Related" to "Narrow"
* Added synonym "protein phosphatase X" to GO:0004722
* Changed synonym scope of GO:0004722 from "Related" to "Narrow"
* Set definition of GO:0004931 to "Catalysis of the transmembrane transfer of an ion by a channel that opens when extracellular ATP has been bound by the channel complex or one of its constituent parts."
* Added definition dbxref GOC:mah to GO:0004931
* Added definition dbxref PMID:9755289 to GO:0004931
* Changed synonym scope of GO:0004931 from "Broad" to "Related"
* Changed synonym scope of GO:0004931 from "Narrow" to "Broad"
* Added synonym "purinoceptor" to GO:0004931
* Changed synonym scope of GO:0004931 from "Related" to "Broad"
* Changed definition of GO:0005945 from "A allosteric homotetrameric molecule with glycolytic activity." to "A protein complex that possesses 6-phosphofructokinase activity; homodimeric and allosteric homotetrameric forms are known."
* Added definition dbxref GOC:mah to GO:0005945
* Deleted GO:0015071 --OBO_REL:is_a--> GO:0004722
* Destroyed object GO:0015071
* Deleted GO:0017018 --OBO_REL:is_a--> GO:0000163
* Copied GO:0017018 to GO:0004722 with type OBO_REL:is_a
* Set definition of GO:0019546 to "The chemical reactions and pathways resulting in the breakdown of arginine into other compounds, including ornithine and CO2, using the enzyme arginine deiminase."
* Added definition dbxref GOC:mah to GO:0019546
* Added definition dbxref MetaCyc:ARGDEGRAD-PWY to GO:0019546
* Set definition of GO:0019561 to "The chemical reactions and pathways resulting in the breakdown of phenylalanine under anaerobic conditions; occurs via the intermediates phenylpyruvate and phenylacetaldehyde."
* Added definition dbxref GOC:mah to GO:0019561
* Added definition dbxref MetaCyc:ANAPHENOXI-PWY to GO:0019561
* Deleted GO:0019613 --OBO_REL:is_a--> GO:0008206
* Destroyed object GO:0019613
* Deleted GO:0030357 --OBO_REL:is_a--> GO:0004722
* Destroyed object GO:0030357
* Deleted GO:0030360 --OBO_REL:is_a--> GO:0004722
* Destroyed object GO:0030360
* added secondary id GO:0019613 to GO:0030573
* Added general dbxref MetaCyc:7ALPHADEHYDROX-PWY to GO:0030573
* Added synonym "bile acid 7alpha-dehydroxylation pathway" to GO:0030573
* Changed synonym scope of GO:0030573 from "Related" to "Narrow"
* Added synonym "cholate catabolic process" to GO:0030573
* Changed synonym scope of GO:0030573 from "Related" to "Narrow"
* Changed synonym scope of GO:0033920 from "Broad" to "Exact"
* Changed definition of GO:0034245 from "A DNA-directed RNA polymerase complex located in the mitochondrion. Mitochondrial RNA polymerase is composed of two subunits, a catalytic core, which resembles the enzymes from bacteriophage T7 and T3, and a
specificity factor required for promoter recognition, which is similar to members of the eubacterial sigma factor family. In S. cerevisiae, these are encoded by the nuclear genes RPO41 and MTF1 and the specificity factor, required for promoter recognition and initiation, is not present in the elongating form." to "A DNA-directed RNA polymerase complex located in the mitochondrion. Mitochondrial RNA polymerase is composed of two subunits, a catalytic core, which resembles the enzymes from bacteriophage T7 and T3, and a specificity factor required for promoter recognition, which is similar to members of the eubacterial sigma factor family. In S. cerevisiae, these are encoded by the nuclear genes RPO41 and MTF1 and the specificity factor, required for promoter recognition and initiation, is not present in the elongating form."
* Deleted synonym "itochondrial RNA polymerase holoenzyme complex" from GO:0034245
* Added synonym "mitochondrial RNA polymerase holoenzyme complex" to GO:0034245
* Changed synonym scope of GO:0034245 from "Related" to "Exact"
* Set definition of GO:0045028 to "Combining with a purine nucleotide and transmitting the signal to a heterotrimeric G-protein complex to initiate a change in cell activity."
* Added definition dbxref GOC:mah to GO:0045028
* Added definition dbxref PMID:9755289 to GO:0045028
* Changed synonym scope of GO:0045028 from "Exact" to "Related"
* Set definition of GO:0065001 to "The pattern specification process by which the polarity of a body or organ axis is established and maintained."
* Added definition dbxref GOC:mah to GO:0065001