[Go-diff] GO update 05/07/2008

Wed May 7 21:30:46 PDT 2008

OBODIFF of gene_ontology_write.obo version 1.55 by 1.58

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0010576
* Created object of type obo:TERM with id GO:0010577
* Created object of type obo:TERM with id GO:0010578
* Created object of type obo:TERM with id GO:0010579
* Created object of type obo:TERM with id GO:0010580
* Created object of type obo:TERM with id GO:0034430
* Created object of type obo:TERM with id GO:0034431
* Created object of type obo:TERM with id GO:0034432
* Created object of type obo:TERM with id GO:0055120
* Populated new object GO:0010576 (macro)
  * Changed name of GO:0010576 from "<new term>" to "metalloenzyme regulator activity"
  * Set definition of GO:0010576 to "Modulates the activity of a metalloenzyme. A metalloenzyme is any enzyme that contains metal."
  * Added definition dbxref GOC:dph to GO:0010576
  * Added definition dbxref GOC:tb to GO:0010576
  * Copied GO:0010576 to GO:0030234 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0010576
* Populated new object GO:0010577 (macro)
  * Changed name of GO:0010577 from "<new term>" to "metalloenzyme activitor activity"
  * Set definition of GO:0010577 to "Increases the activity of a metalloenzyme. A metalloenzyme is any enzyme that contains metal."
  * Added definition dbxref GOC:dph to GO:0010577
  * Added definition dbxref GOC:tb to GO:0010577
  * Copied GO:0010577 to GO:0010576 with type OBO_REL:is_a
  * Copied GO:0010577 to GO:0008047 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0010577
* Populated new object GO:0010578 (macro)
  * Changed name of GO:0010578 from "<new term>" to "regulation of adenylate cyclase activity involved in G-protein signaling"
  * Set definition of GO:0010578 to "Any process that modulates the frequency, rate or extent of adenylate cyclase activity that is an integral part of the series of molecular signals generated as a consequence of a G-protein coupled receptor binding to its physiological ligand, resulting in a subsequent change in the concentration of cyclic AMP."
  * Added definition dbxref GOC:dph to GO:0010578
  * Added definition dbxref GOC:tb to GO:0010578
  * Copied GO:0010578 to GO:0007188 with type part_of
  * Copied GO:0010578 to GO:0045761 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010578
* Populated new object GO:0010579 (macro)
  * Changed name of GO:0010579 from "<new term>" to "positive regulation of adenylate cyclase activity involved in G-protein signaling"
  * Set definition of GO:0010579 to "Any process that increases the frequency, rate or extent of adenylate cyclase activity that is an integral part of the series of molecular signals generated as a consequence of a G-protein coupled receptor binding to its physiological ligand, resulting in a subsequent change in the concentration of cyclic AMP."
  * Added definition dbxref GOC:dph to GO:0010579
  * Added definition dbxref GOC:tb to GO:0010579
  * Copied GO:0010579 to GO:0010578 with type OBO_REL:is_a
  * Copied GO:0010579 to GO:0045762 with type OBO_REL:is_a
  * Copied GO:0010579 to GO:0007189 with type part_of
  * Assigned namespace "biological_process" to GO:0010579
* Populated new object GO:0010580 (macro)
  * Changed name of GO:0010580 from "<new term>" to "activation of adenylate cyclase activity involved in G-protein signaling"
  * Set definition of GO:0010580 to "Any process that initiates the activity of an inactive adenylate cyclase that is an integral part of the series of molecular signals generated as a consequence of a G-protein coupled receptor binding to its physiological ligand, resulting in a subsequent change in the concentration of cyclic AMP."
  * Added definition dbxref GOC:dph to GO:0010580
  * Added definition dbxref GOC:tb to GO:0010580
  * Copied GO:0010580 to GO:0010579 with type OBO_REL:is_a
  * Copied GO:0010580 to GO:0007190 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010580
* Populated new object GO:0034430 (macro)
  * Changed name of GO:0034430 from "<new term>" to "monolayer-surrounded lipid storage body outer lipid monolayer"
  * Set definition of GO:0034430 to "The single layer of phopholipids surrounding a lipid storage
body."
  * Added definition dbxref GOC:rph to GO:0034430
  * Added synonym "lipid droplet outer lipid monolayer" to GO:0034430
  * Added synonym "lipid storage body surface lipid monolayer" to GO:0034430
  * Changed synonym scope of GO:0034430 from "Related" to "Exact"
  * Added synonym "oil body outer lipid monolayer" to GO:0034430
  * Changed synonym scope of GO:0034430 from "Related" to "Exact"
  * Added synonym "oleosome outer lipid monolayer" to GO:0034430
  * Changed synonym scope of GO:0034430 from "Related" to "Exact"
  * Added synonym "spherosome outer lipid monolayer" to GO:0034430
  * Changed synonym scope of GO:0034430 from "Related" to "Exact"
  * Copied GO:0034430 to GO:0044446 with type OBO_REL:is_a
  * Copied GO:0034430 to GO:0012511 with type part_of
  * Assigned namespace "cellular_component" to GO:0034430
* Populated new object GO:0034431 (macro)
  * Changed name of GO:0034431 from "<new term>" to "bis(5'-adenosyl)-hexaphosphatase activity"
  * Set definition of GO:0034431 to "Catalysis of the reaction: P1-P6-bis(5'-adenosyl) hexaphosphate + H2O = AMP + adenosine 5'-pentaphosphate."
  * Added definition dbxref PMID:10085096 to GO:0034431
  * Added definition dbxref PMID:9450008 to GO:0034431
  * Added synonym "AP(6)A hydrolase activity" to GO:0034431
  * Changed synonym scope of GO:0034431 from "Related" to "Exact"
  * Added synonym "AP-6-A hydrolase activity" to GO:0034431
  * Changed synonym scope of GO:0034431 from "Related" to "Exact"
  * Added synonym "AP6A hydrolase activity" to GO:0034431
  * Changed synonym scope of GO:0034431 from "Related" to "Exact"
  * Added synonym "diadenosine 5',5'''-P1,P6-hexaphosphate hydrolase activity" to GO:0034431
  * Changed synonym scope of GO:0034431 from "Related" to "Exact"
  * Copied GO:0034431 to GO:0004551 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0034431
* Populated new object GO:0034432 (macro)
  * Changed name of GO:0034432 from "<new term>" to "bis(5'-adenosyl)-pentaphosphatase activity"
  * Set definition of GO:0034432 to "Catalysis of the reaction: P1-P6-bis(5'-adenosyl) pentaphosphate + H2O = AMP + adenosine 5'-tetraphosphate."
  * Added definition dbxref PMID:10085096 to GO:0034432
  * Added definition dbxref PMID:9450008 to GO:0034432
  * Added synonym "AP(5)A hydrolase activity" to GO:0034432
  * Changed synonym scope of GO:0034432 from "Related" to "Exact"
  * Added synonym "AP-5-A hydrolase activity" to GO:0034432
  * Changed synonym scope of GO:0034432 from "Related" to "Exact"
  * Added synonym "AP5A hydrolase activity" to GO:0034432
  * Changed synonym scope of GO:0034432 from "Related" to "Exact"
  * Added synonym "diadenosine 5',5'''-P1,P6-pentaphosphate hydrolase activity" to GO:0034432
  * Changed synonym scope of GO:0034432 from "Related" to "Exact"
  * Copied GO:0034432 to GO:0004551 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0034432
* Populated new object GO:0055120 (macro)
  * Changed name of GO:0055120 from "<new term>" to "striated muscle dense body"
  * Set definition of GO:0055120 to "A vinculin-containing myofibril attachment structure of striated muscle that connects sarcomeres to the extracellular matrix. In nematode body wall muscle, the dense body performs the dual role of Z-disk and costamere."
  * Added definition dbxref GOC:kmva to GO:0055120
  * Added definition dbxref PMID:17492481 to GO:0055120
  * Copied GO:0055120 to GO:0044449 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0055120
* Deleted GO:0000348 --part_of--> GO:0000398
* Deleted GO:0000349 --part_of--> GO:0000398
* Deleted GO:0000350 --part_of--> GO:0000398
* Deleted GO:0000351 --part_of--> GO:0000398
* Deleted GO:0000354 --part_of--> GO:0000398
* Deleted GO:0000355 --part_of--> GO:0000398
* Deleted GO:0000389 --part_of--> GO:0000398
* Deleted GO:0000395 --part_of--> GO:0000398
* Deleted GO:0007088 --OBO_REL:is_a--> GO:0051726
* Copied GO:0007088 to GO:0007346 with type OBO_REL:is_a
* Deleted GO:0007190 --part_of--> GO:0007189
* Deleted synonym "diadenosine 5',5'''-P1,P6-hexaphosphate hydrolase" from GO:0008486
* Changed name of GO:0009275 from "20-80nm peptidoglycan-based cell wall" to "Gram-positive-bacterium-type cell wall"
* Added synonym "20-80nm peptidoglycan-based cell wall" to GO:0009275
* Changed synonym scope of GO:0009275 from "Related" to "Exact"
* Changed name of GO:0009276 from "1-2nm peptidoglycan-based cell wall" to "Gram-negative-bacterium-type cell wall"
* Added synonym "1-2nm peptidoglycan-based cell wall" to GO:0009276
* Changed synonym scope of GO:0009276 from "Related" to "Exact"
* Changed name of GO:0009505 from "cellulose and pectin-containing cell wall" to "plant-type cell wall"
* Added synonym "cellulose and pectin-containing cell wall" to GO:0009505
* Changed synonym scope of GO:0009505 from "Related" to "Exact"
* Changed name of GO:0009664 from "cellulose and pectin-containing cell wall organization and biogenesis" to "plant-type cell wall organization and biogenesis"
* Added synonym "cellulose and pectin-containing cell wall organization and biogenesis" to GO:0009664
* Changed synonym scope of GO:0009664 from "Related" to "Exact"
* Changed name of GO:0009827 from "cellulose and pectin-containing cell wall modification" to "plant-type cell wall modification"
* Added synonym "cellulose and pectin-containing cell wall modification" to GO:0009827
* Changed synonym scope of GO:0009827 from "Related" to "Exact"
* Changed name of GO:0009828 from "cellulose and pectin-containing cell wall loosening" to "plant-type cell wall loosening"
* Added synonym "cellulose and pectin-containing cell wall loosening" to GO:0009828
* Changed synonym scope of GO:0009828 from "Related" to "Exact"
* Changed name of GO:0009831 from "cellulose and pectin-containing cell wall modification during multidimensional cell growth" to "plant-type cell wall modification during multidimensional cell growth"
* Added synonym "cellulose and pectin-containing cell wall modification during multidimensional cell growth" to GO:0009831
* Changed synonym scope of GO:0009831 from "Related" to "Exact"
* Changed name of GO:0009832 from "cellulose and pectin-containing cell wall biogenesis" to "plant-type cell wall biogenesis"
* Added synonym "cellulose and pectin-containing cell wall biogenesis" to GO:0009832
* Changed synonym scope of GO:0009832 from "Related" to "Exact"
* Changed name of GO:0009833 from "cellulose and pectin-containing primary cell wall biogenesis" to "plant-type primary cell wall biogenesis"
* Added synonym "cellulose and pectin-containing primary cell wall biogenesis" to GO:0009833
* Changed synonym scope of GO:0009833 from "Related" to "Exact"
* Changed name of GO:0009834 from "cellulose and pectin-containing secondary cell wall biogenesis" to "plant-type secondary cell wall biogenesis"
* Added synonym "cellulose and pectin-containing secondary cell wall biogenesis" to GO:0009834
* Changed synonym scope of GO:0009834 from "Related" to "Exact"
* Changed name of GO:0009920 from "cell plate formation involved in cellulose and pectin-containing cell wall biogenesis" to "cell plate formation involved in plant-type cell wall biogenesis"
* Added synonym "cell plate formation involved in cellulose and pectin-containing cell wall biogenesis" to GO:0009920
* Changed synonym scope of GO:0009920 from "Related" to "Exact"
* Deleted GO:0012511 --OBO_REL:is_a--> GO:0043231
* Copied GO:0012511 to GO:0043229 with type OBO_REL:is_a
* Added comment "Note that this term should be used for annotating gene products with caution: it should be used only to annotate gene products demonstrated to reside and function normally in the autophagic vacuole lumen, not for molecules that are temporarily found in the lumen prior to degradation."
* Deleted GO:0040020 --OBO_REL:is_a--> GO:0051726
* Copied GO:0040020 to GO:0051445 with type OBO_REL:is_a
* Changed name of GO:0043164 from "1-2nm peptidoglycan-based cell wall biogenesis" to "Gram-negative-bacterium-type cell wall biogenesis"
* Added synonym "1-2nm peptidoglycan-based cell wall biogenesis" to GO:0043164
* Changed synonym scope of GO:0043164 from "Related" to "Exact"
* Deleted GO:0045761 --part_of--> GO:0007188
* Copied GO:0048551 to GO:0010576 with type OBO_REL:is_a
* Deleted GO:0051457 --OBO_REL:is_a--> GO:0045185
* Changed name of GO:0052541 from "cellulose and pectin-containing cell wall cellulose metabolic process" to "plant-type cell wall cellulose metabolic process"
* Added synonym "cellulose and pectin-containing cell wall cellulose metabolic process" to GO:0052541
* Changed synonym scope of GO:0052541 from "Related" to "Exact"
* Changed name of GO:0052546 from "cellulose and pectin-containing cell wall pectin metabolic process" to "plant-type cell wall pectin metabolic process"
* Added synonym "cellulose and pectin-containing cell wall pectin metabolic process" to GO:0052546
* Changed synonym scope of GO:0052546 from "Related" to "Exact"