GO Monthly Release Notes for April 2005
========================
Generated on Mon May 16 15:51:30 2005
Files used:
gene_ontology.obo
OLD: version 3.837, 30:03:2005 17:00
NEW: version 3.858, 29:04:2005 13:43
goslim_generic
Key:
|----1----||----2-----||-3--||4||----5----||-----------6-----------|
GO:0009941 GO:0009536 TAIR D SF:575119 chloroplast envelope
(obs)
1. GO ID number
2. GO-slim term(s) that new term was added under or "obs" if the term is obsolete.
Terms with more than one GO-slim parent have further parents listed underneath the first parent.
3. Database that added term
4. indicates the existence of a definition for the term
5. the sourceforge request ID the term was added in response to
6. term name
Columns are tab-delimited and can be imported into Excel for ease of reading.
New terms in biological_process ontology (14 new terms)
GO:0031363 GO:0006464 MAH D 1174044 N-terminal protein amino acid deamination
GO:0031364 GO:0006464 MAH D 1174044 N-terminal protein amino acid deamination, from side chain
GO:0031365 GO:0006464 MAH D 1174044 N-terminal protein amino acid modification
GO:0031366 GO:0006464 MAH D 1174044 N-terminal peptidyl-arginine deamination
GO:0031367 GO:0006464 MAH D 1174044 N-terminal peptidyl-glutamine deamination
GO:0031383 GO:0000003 MAH D 1186286 regulation of mating projection biogenesis
GO:0009628
GO:0009653
GO:0016043
GO:0031384 GO:0000003 MAH D 1186286 regulation of initiation of mating projection growth
GO:0009628
GO:0009653
GO:0016043
GO:0031385 GO:0000003 MAH D 1186286 regulation of termination of mating projection growth
GO:0009628
GO:0009653
GO:0016043
GO:0031388 GO:0008152 MAH D 1187569 organic acid phosphorylation
GO:0031392 GO:0006629 MAH D 1190446 regulation of prostaglandin biosynthesis
GO:0009058
GO:0031393 GO:0006629 MAH 1190446 negative regulation of prostaglandin biosynthesis
GO:0009058
GO:0031394 GO:0006629 MAH D 1190446 positive regulation of prostaglandin biosynthesis
GO:0009058
GO:0048530 GO:0009653 JIC D 1035336 fruit morphogenesis
GO:0048532 GO:0009653 JIC D 1035336 structural organization
Term name changes in biological_process ontology
GO:0009307: DNA restriction --> DNA restriction-modification system
GO:0010154: fruit morphogenesis --> fruit development
GO:0018058: N-terminal protein amino acid deamination --> N-terminal protein amino acid deamination, from amino carbon
GO:0030182: neuron cell differentiation --> neuron differentiation
New definitions for biological_process ontology terms (2 new definitions)
GO:0006657, CDP-choline pathway
GO:0018193, peptidyl-amino acid modification
Term movements in biological_process ontology:
Terms movements under GO Slim term 'development ; GO:0007275'
- GO:0009933, meristem organization
- GO:0009934, regulation of meristem organization
- GO:0010014, meristem initiation
+ GO:0010154, fruit development
Terms movements under GO Slim term 'morphogenesis ; GO:0009653'
+ GO:0009933, meristem organization
+ GO:0009934, regulation of meristem organization
+ GO:0010014, meristem initiation
- GO:0010154, fruit development
New terms in cellular_component ontology (18 new terms)
GO:0031362 GO:0005886 MAH D 1183215 anchored to external side of plasma membrane
GO:0031371 GO:0005622 MAH D 1177939 ubiquitin conjugating enzyme complex
GO:0031372 GO:0005622 MAH D 1035336 UBC13-MMS2 complex
GO:0031373 GO:0005829 MAH D 1181353 cytosolic fatty acid synthase complex
GO:0031374 GO:0005829 MAH D 1181353 cytosolic type I fatty acid synthase complex
GO:0031375 GO:0005737 MAH D 1181353 type II fatty acid synthase complex
GO:0031376 GO:0005829 MAH D 1181353 cytosolic type II fatty acid synthase complex
GO:0031377 GO:0005739 MAH D 1181353 mitochondrial type II fatty acid synthase complex
GO:0031378 GO:0009536 MAH D 1181353 plastid type II fatty acid synthase complex
GO:0031379 GO:0005622 MAH D 1168238 RNA-directed RNA polymerase complex
GO:0031380 GO:0005634 MAH D 1168238 nuclear RNA-directed RNA polymerase complex
GO:0031381 GO:0005622 MAH D 1168238 viral RNA-directed RNA polymerase complex
GO:0031382 GO:0000003 MAH D 1186286 mating projection biogenesis
GO:0009628
GO:0009653
GO:0016043
GO:0031387 GO:0005622 MAH D 1187504 MPF complex
GO:0031389 GO:0005694 MAH D 1185222 Rad17 RFC-like complex
GO:0031390 GO:0005694 MAH D 1185222 Ctf18 RFC-like complex
GO:0031391 GO:0005694 MAH D 1185222 Elg1 RFC-like complex
GO:0031395 GO:0005615 MAH D 1188029 bursicon neuropeptide hormone complex
New obsoletions in cellular_component ontology
GO:0008051, farnesyl-diphosphate farnesyl transferase complex: there is no evidence that this enzyme ever exists as anything other than a monomer.
Term name changes in cellular_component ontology
GO:0005835: fatty-acid synthase complex --> fatty acid synthase complex
New term merges in cellular_component ontology
GO:0031212 has been merged into GO:0017086, 3-methyl-2-oxobutanoate dehydrogenase (lipoamide) complex
Term movements in cellular_component ontology:
Terms movements under GO Slim term 'cytoplasm ; GO:0005737'
+ GO:0005835, fatty acid synthase complex
Terms movements under GO Slim term 'cytosol ; GO:0005829'
- GO:0005835, fatty acid synthase complex
New terms in molecular_function ontology (9 new terms)
GO:0031368 GO:0008233 MAH D 1035336 Pro-X metallocarboxypeptidase activity
GO:0031369 GO:0005515 MAH D 1172579 translation initiation factor binding
GO:0031370 GO:0005515 MAH D 1172579 eukaryotic initiation factor 4G binding
GO:0031386 GO:0003674 MAH D 1186763 protein tag
GO:0043336 GO:0003824 JL D 1035336 site-specific telomere resolvase activity
GO:0043337 GO:0016740 JL D 1035336 CDP-diacylglycerol-phosphatidylglycerol phosphatidyltransferase
GO:0043338 GO:0016740 JL D 1035336 CTP:2,3-di-O-geranylgeranyl-sn-glycero-1-phosphate cytidyltransferase
GO:0048529 GO:0003824 JIC D 1182148 magnesium-protoporphyrin IX monomethyl ester (oxidative) cyclase activity
GO:0048531 GO:0016740 JIC D 1169876 beta-1,3-galactosyltransferase activity
Term name changes in molecular_function ontology
GO:0004188: lysosomal Pro-X carboxypeptidase activity --> serine-type Pro-X carboxypeptidase activity
New definitions for molecular_function ontology terms (7 new definitions)
GO:0008322, Pro-X carboxypeptidase activity
GO:0008639, small protein conjugating enzyme activity
GO:0008641, small protein activating enzyme activity
GO:0008755, O antigen polymerase activity
GO:0016778, diphosphotransferase activity
GO:0016780, phosphotransferase activity, for other substituted phosphate groups
GO:0016781, phosphotransferase activity, paired acceptors
New term merges in molecular_function ontology
GO:0004469 has been merged into GO:0003841, 1-acylglycerol-3-phosphate O-acyltransferase activity
Term movements in molecular_function ontology:
Terms movements under GO Slim term 'catalytic activity ; GO:0003824'
- GO:0008755, O antigen polymerase activity
- GO:0009392, N-acetyl-anhydromuramoyl-L-alanine amidase activity
Terms movements under GO Slim term 'transferase activity ; GO:0016740'
+ GO:0008755, O antigen polymerase activity
Terms movements under GO Slim term 'hydrolase activity ; GO:0016787'
+ GO:0009392, N-acetyl-anhydromuramoyl-L-alanine amidase activity
SourceForge items closed this month:
SF id Resolution SF item title GO ids added, if any
1002494 Accepted maintenance of identity [none]
1151142 Works For Me tubercle [none]
1153590 Works For Me ntr: protein amino acid N-linked mannosylation [none]
1159147 Accepted farnesyl diphosphate farnesyltransferase complex [none]
1163592 Accepted gametophyte development term [none]
1168238 Accepted ntr: RNA-directed RNA polymerase complex GO:0031379-31381
1168242 Fixed quer: function in process? DNA restriction [none]
1169253 Accepted synonyms for EC2.5.1.29 (farnesyltranstransferase activity) [none]
1169876 Accepted beta-1,3-galactosyltransferase activity ; GO:NEW GO:0048531
1172579 Accepted eIF4E binding GO:0031369-31370
1174044 Accepted N-terminal protein amino acid deamination GO:0031363-31367
1174323 Works For Me query parent:endopolyphosphatase activity [none]
1177939 Accepted NTR: UBC13-MMS2 complex GO:0031371
1177940 Works For Me GO:0008054 cyclin catabolism [none]
1177958 Fixed cycle in GO:0007041 : lysosomal transport [none]
1177972 Fixed component in function? lysosomal Pro-X carboxypeptidase [none]
1179429 Accepted Anaphase-promoting complex definition [none]
1181353 Accepted parent fatty-acid synthase complex GO:0031373-31378
1182148 Accepted EC 1.14.13.81 - term required GO:0048529
1182474 Accepted synonym of GO:0005657replication fork [none]
1183215 Works For Me query anchored to plasma membrane GO:0031362
1183977 Fixed typo in definition GO:0006364 [none]
1185222 Accepted GO:0005663 DNA replication factor C comple GO:0031389-31391
1185261 Works For Me Merge CDP-choline pathway?? [none]
1186039 Accepted fruit morphogenesis -?-
1186151 Accepted synonym for FACT complex [none]
1186177 Fixed definition for mito. organization and biogenesis ( [none]
1186286 Accepted NTR: mating projection biogenesis and related terms GO:0031382-31385
1186673 Fixed missing parents 'regulation of cellualar process' GO:0031338
1186763 Accepted ntr: protein modifier (function term!)+ GO:0031386
1187504 Accepted ntr: MPF complex GO:0031387
1187569 Accepted ntr: organic acid phosphorylation GO:0031388
1187709 Wont Fix mRNA catabolism question [none]
1188029 Accepted ntr:bursicon neuropeptide hormone complex GO:0031395
1188056 Accepted missing parent: Cdc73/Paf1 complex [none]
1188087 Fixed sulfate is not a cation [none]
1188625 Fixed Lysophosphatidate acyltransferase [none]
1190446 Accepted Regulation Terms for GO:0001516 GO:0031392-31394
1190459 Accepted query centric heterochromatin [none]
1190991 Duplicate ntr:protein amino acid N-linked mannosylation [none]
965693 Accepted maintenance of 'x' identity [none]
Statistics:
biological_process: 9614 terms, 96.9% defined (9319 terms defined)
cellular_component: 1634 terms, 94.5% defined (1544 terms defined)
molecular_function: 7487 terms, 90.6% defined (6784 terms defined)
Total: 18735 terms, 94.2% defined (17647 terms defined)
Term errors
none