[Go-diff] GO update 05/09/2008

[Remote CVS for Gene Ontology]

OBODIFF of gene_ontology_write.obo version 1.59 by 1.61

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0034433
* Created object of type obo:TERM with id GO:0034434
* Created object of type obo:TERM with id GO:0034435
* Created object of type obo:TERM with id GO:0043899
* Populated new object GO:0034433 (macro)
  * Changed name of GO:0034433 from "<new term>" to "steroid esterification"
  * Set definition of GO:0034433 to "A lipid modification process in which a steroid ester is formed by the combination of a carboxylic acid (often a fatty acid) and a steroid molecule
(e.g. cholesterol)."
  * Added definition dbxref GOC:mah to GO:0034433
  * Added definition dbxref GOC:pde to GO:0034433
  * Added definition dbxref GOC:rl to GO:0034433
  * Copied GO:0034433 to GO:0008202 with type OBO_REL:is_a
  * Copied GO:0034433 to GO:0030258 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034433
* Populated new object GO:0034434 (macro)
  * Changed name of GO:0034434 from "<new term>" to "sterol esterification"
  * Set definition of GO:0034434 to "A lipid modification process in which a sterol ester is formed by the combination of a carboxylic acid (often a fatty acid) and a sterol molecule
(e.g. cholesterol)."
  * Added definition dbxref GOC:mah to GO:0034434
  * Added definition dbxref GOC:pde to GO:0034434
  * Added definition dbxref GOC:rl to GO:0034434
  * Copied GO:0034434 to GO:0034433 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034434
* Populated new object GO:0034435 (macro)
  * Changed name of GO:0034435 from "<new term>" to "cholesterol esterification"
  * Set definition of GO:0034435 to "A lipid modification process in which a sterol ester is formed by the combination of a carboxylic acid (often a fatty acid) and cholesterol. In the blood this process is associated with the conversion of free cholesterol into cholesteryl ester, which is then sequestered into the core of a lipoprotein particle."
  * Added definition dbxref GOC:mah to GO:0034435
  * Added definition dbxref GOC:pde to GO:0034435
  * Added definition dbxref GOC:rl to GO:0034435
  * Copied GO:0034435 to GO:0034434 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034435
* Populated new object GO:0043899 (macro)
  * Changed name of GO:0043899 from "<new term>" to "phosphoserine:homoserine phosphotransferase activity"
  * Set definition of GO:0043899 to "Catalysis of the transfer of a phosphoryl group from phosphoserine to homoserine to form phosphohomoserine."
  * Added definition dbxref GOC:jl to GO:0043899
  * Added definition dbxref PMID:14699121 to GO:0043899
  * Added general dbxref EC:2.7.1 to GO:0043899
  * Added general dbxref IMG:02616 to GO:0043899
  * Added GO:0043899 to category gosubset_prok
  * Added synonym "thrH" to GO:0043899
  * Copied GO:0043899 to GO:0016773 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0043899
* Copied GO:0000046 to GO:0006944 with type OBO_REL:is_a
* Changed comment from "Note that the enzyme DNA (cytosine-5-)-methyltransferase also has the activity represented by the molecular function term 'site-specific DNA-methyltransferase (cytosine-specific) activity ; GO:0008326'." to "Note that EC:2.1.1.73 was deleted from EC as the reaction is performed by DNA (cytosine-5-)-methyltransferase (EC:2.1.1.37)."
* added secondary id GO:0008326 to GO:0003886
* Added general dbxref MetaCyc:2.1.1.73-RXN to GO:0003886
* Added synonym "site-specific DNA-methyltransferase (cytosine-specific) activity" to GO:0003886
* Added general dbxref 2.1.1.73 (EC:<new dbxref>) to synonym site-specific DNA-methyltransferase (cytosine-specific) activity of GO:0003886
* Changed synonym scope of GO:0003886 from "Related" to "Narrow"
* Deleted definition dbxref EC:4.3.1.8 from GO:0004418
* Added definition dbxref EC:2.5.1.61 to GO:0004418
* Deleted definition dbxref EC:4.2.1.16 from GO:0004794
* Added definition dbxref EC:4.3.1.19 to GO:0004794
* Deleted synonym "4.2.1.16" from GO:0004794
* Deleted definition dbxref EC:2.7.1.123 from GO:0005954
* Added definition dbxref EC:2.7.11.17 to GO:0005954
* Copied GO:0006906 to GO:0048284 with type OBO_REL:is_a
* Copied GO:0008053 to GO:0006944 with type OBO_REL:is_a
* Deleted GO:0008326 --OBO_REL:is_a--> GO:0003886
* Destroyed object GO:0008326
* Deleted general dbxref UM-BBD_enzymeID:e0029 from GO:0008959
* Copied GO:0016189 to GO:0048284 with type OBO_REL:is_a
* Copied GO:0016320 to GO:0048284 with type OBO_REL:is_a
* Deleted general dbxref UM-BBD_enzymeID:e04 from GO:0018459
* Added general dbxref UM-BBD_enzymeID:e0446 to GO:0018459
* Changed definition of GO:0018467 from "Catalysis of the reaction: formaldehyde + NAD+ + H2O = formate + NADH + H+. Unlike EC:1.2.1.1 formaldehyde dehydrogenase (glutathione), this enzyme does not need reduced glutathione." to "Catalysis of the reaction: formaldehyde + NAD+ + H2O = formate + NADH + H+. This enzyme does not need reduced glutathione."
* Deleted general dbxref UM-BBD_enzymeID:e0027 from GO:0018478
* Set definition of GO:0018538 to "Catalysis of the reaction: ring opening and carboxylation of an epoxide; the reaction requires CO2 as a cosubstrate and forms a beta-keto acid as a products. An example of such a reaction is: epoxypropane + CO2 + NAD+ + NADPH = acetoacetate + NADH + NADP+."
* Added definition dbxref PMID:9555888 to GO:0018538
* Deleted general dbxref UM-BBD_enzymeID:e0040 from GO:0018538
* Deleted definition dbxref UM-BBD_enzymeID:e0405 from GO:0018591
* Added definition dbxref UM-BBD_reactionID:r1023 to GO:0018591
* Deleted general dbxref UM-BBD_enzymeID:e0405 from GO:0018591
* Deleted definition dbxref UM-BBD_enzymeID:e0406 from GO:0018594
* Added definition dbxref UM-BBD_reactionID:r0615 to GO:0018594
* Deleted general dbxref UM-BBD_enzymeID:e0406 from GO:0018594
* Deleted general dbxref UM-BBD_enzymeID:e0193 from GO:0018671
* Deleted definition dbxref UM-BBD_enzymeID:e0386 from GO:0018710
* Added definition dbxref EC:6.4.1.6 to GO:0018710
* Deleted general dbxref UM-BBD_enzymeID:e0386 from GO:0018710
* Set definition of GO:0018755 to "2-chloro-4-hydroxy-6-amino-1,3,5-triazine + OH- = 2,4-dihydroxy-6-amino-1,3,5-triazine + Cl-."
* Added definition dbxref UM-BBD_reactionID:r1414 to GO:0018755
* Deleted general dbxref UM-BBD_enzymeID:e0099 from GO:0018755
* Deleted general dbxref UM-BBD_enzymeID:e0096 from GO:0018756
* Deleted definition dbxref UM-BBD_enzymeID:e0361 from GO:0018777
* Added definition dbxref PMID:10464214 to GO:0018777
* Deleted general dbxref UM-BBD_enzymeID:e0361 from GO:0018777
* Set definition of GO:0018781 to "Catalysis of the reaction: 1-halo or 1-pseudohalo-S-triazine -> 1-hydroxy-S-triazine."
* Added definition dbxref UM-BBD_ruleID:bt0330 to GO:0018781
* Set definition of GO:0018783 to "Catalysis of the reaction: deisopropyldeethylatrazine + H2O = 2-chloro-4-hydroxy-6-amino-1,3,5-triazine + NH3."
* Added definition dbxref UM-BBD_reactionID:0129 to GO:0018783
* Deleted general dbxref UM-BBD_enzymeID:e0095 from GO:0018783
* Deleted definition dbxref UM-BBD_enzymeID:e0183 from GO:0018812
* Added definition dbxref UM-BBD_ruleID:bt0291 to GO:0018812
* Deleted general dbxref UM-BBD_enzymeID:e0183 from GO:0018812
* Deleted GO:0030259 --OBO_REL:is_a--> GO:0043413
* Added general dbxref UM-BBD_enzymeID:e0709 to GO:0051903