RefGenome Electronic Jamboree 2008-07 GCH1 and HSPD1

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Participants

Name	Group	Organism(s)/Genome(s)	Working on
Ruth Lovering	BHF-UCL	Human
Debby Siegele	EcoliWiki	E. coli
Rachael Huntley	GOA	Human
Victoria Petri	RGD	Rat
David Hill	MGI	mouse
Stacia Engel	SGD	Saccharomyces cerevisiae
Kimberly Van Auken	WormBase	Caenorhabditis elegans	GCH1 = cat-4 = WBGene00000298
Ranjana Kishore	WormBase	C. elegans
Petra Fey	dictyBase	Dictyostelium discoideum	gchA
Tanya Berardini	TAIR	Arabidopsis thaliana
Fiona McCarthy	AgBase	Gallus gallus
Pascale Gaudet	dictyBase	Dictyostelium discoideum	hspA
Susan Tweedie	FlyBase	Drosophila melanogaster
Varsha Khodiyar	BHF-UCL	Human	HSPD1
Emily Dimmer	GOA	Human	GCH1
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GCH1

GCH1_Graph

<ejamb>573c5f77b3a094817c4e1c4a6f9b2c99.0.V4873c8ee0cab7

GCH1</ejamb>

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This figure should automatically update from the table

Group	Organism	gene	Qualifier	GO ID	GO term name	Reference(s)	Evidence Code	with/from	Aspect	Notes	Status
EcoliWiki	E. coli	folE		GO:0003934	GTP cyclohydrolase I activity	PMID:821948^[1]	IDA: Inferred from Direct Assay		F	FolE was purified and assayed for GTP cyclohydrolase I activity.	complete
FlyBase	Drosophila	FBgn0003162		GO:0003934	GTP cyclohydrolase I activity	PMID:16966327^[2]	IDA: Inferred from Direct Assay		F		complete
GOA	Human	GCH1 (P30793-2)	NOT	GO:0003934	GTP cyclohydrolase I activity	PMID:8068008^[3] PMID:11284739^[4]	IDA: Inferred from Direct Assay		F		complete
MGI	Mouse	Gch1		GO:0006729	tetrahydrobiopterin biosynthetic process	PMID:7524491^[5]	IC: Inferred by Curator	GO:0003934	P		required field missing
RGD	Rat	Gch1		GO:0005525	GTP binding	PMID:2557335^[6] PMID:8486153^[7] PMID:8702680^[8]	IDA: Inferred from Direct Assay		F		complete
Sanger GeneDB	S. Pombe										required field missing
SGD	S. cerevisiae	FOL2		GO:0003934	GTP cyclohydrolase I activity	PMID:8573145^[9]	IMP: Inferred from Mutant Phenotype		F		complete
TAIR	Arabidopsis										required field missing
WormBase	C.elegans	cat-4 (WBGene00000298)		GO:0042416	dopamine biosynthetic process	PMID:240872^[10]	IMP: Inferred from Mutant Phenotype	No specific allele given	P		complete
ZFIN	Zebrafish										required field missing
AgBase	Chicken	P50141		GO:0045429	positive regulation of nitric oxide biosynthetic process	PMID:9226880^[11]	IDA: Inferred from Direct Assay		P	with macrophage activating factor (no record)	complete
SGD	S. cerevisiae	FOL2		GO:0009396	folic acid and derivative biosynthetic process	PMID:8573145^[9]	IMP: Inferred from Mutant Phenotype		P		complete
SGD	S. cerevisiae	FOL2		GO:0005737	cytoplasm	PMID:11914276^[12] PMID:14562095^[13]	IDA: Inferred from Direct Assay		C	high-throughput studies	complete
SGD	S. cerevisiae	FOL2		GO:0005634	nucleus	PMID:14562095^[13]	IDA: Inferred from Direct Assay		C	high-throughput study	complete
WormBase	C.elegans	cat-4 (WBGene00000298)		GO:0042427	serotonin biosynthetic process	PMID:3200316^[14]	IMP: Inferred from Mutant Phenotype	No specific allele stated	P		complete
EcoliWiki	E. coli	folE		GO:0005829	cytosol	PMID:821948^[1]	IDA: Inferred from Direct Assay		C	FolE was present in the supernatant after subcellular fractionation.	complete
RGD	Rat	Gch1		GO:0003934	GTP cyclohydrolase I activity	PMID:2557335^[6] PMID:8702680^[8] PMID:9636709^[15] PMID:8486153^[7]	IDA: Inferred from Direct Assay		F		complete
RGD	Rat	Gch1		GO:0030742	GTP-dependent protein binding	PMID:9685352^[16]	IPI: Inferred from Physical Interaction	RGD:1345739	F		complete
RGD	Rat	Gch1		GO:0005509	calcium ion binding	PMID:9636709^[15]	IDA: Inferred from Direct Assay	RGD:1345739	F		complete
RGD	Rat	Gch1		GO:0050662	coenzyme binding	PMID:15448133^[17]	IDA: Inferred from Direct Assay	RGD:1345739	F		complete
RGD	Rat	Gch1		GO:0008270	zinc ion binding	PMID:11818540^[18] PMID:15448133^[17]	IDA: Inferred from Direct Assay	RGD:1345739	F		complete
RGD	Rat	Gch1		GO:0005515	protein binding	PMID:8702680^[8]	IDA: Inferred from Direct Assay		F		complete
MGI	Mouse	Gch1		GO:0003934	GTP cyclohydrolase I activity	PMID:7524491^[5]	IDA: Inferred from Direct Assay		F		complete
MGI	Mouse	Gch1		GO:0003934	GTP cyclohydrolase I activity	J:73065	ISS: Inferred from Sequence or Structural Similarity	UniProtKB:P30793	F		complete
MGI	Mouse	Gch1		GO:0014916	regulation of lung blood pressure	PMID:15824199^[19]	IMP: Inferred from Mutant Phenotype		P		complete
MGI	Mouse	Gch1		GO:0050884	neuromuscular process controlling posture	J:73065	ISS: Inferred from Sequence or Structural Similarity	UniProtKB:P30793	P		required field missing
MGI	Mouse	Gch1		GO:0008217	regulation of blood pressure	PMID:15824199^[19]	IMP: Inferred from Mutant Phenotype		P		complete
EcoliWiki	E. coli	folE		GO:0046656	folic acid biosynthetic process	PMID:821948^[1]	IDA: Inferred from Direct Assay		P	FolE catalyzes the first committed step in folic acid biosynthesis.	complete
RGD	Rat	Gch1		GO:0005515	protein binding	PMID:8702680^[8]	IDA: Inferred from Direct Assay		F		complete
RGD	Rat	Gch1		GO:0051066	dihydrobiopterin metabolic process	PMID:8702680^[8] PMID:2557335^[6] PMID:8486153^[7]	IDA: Inferred from Direct Assay		P		complete
RGD	Rat	Gch1		GO:0006461	protein complex assembly	PMID:11818540^[18] PMID:9685352^[16] PMID:15448133^[17]	IDA: Inferred from Direct Assay		P		complete
RGD	Rat	Gch1		GO:0051291	protein heterooligomerization	PMID:11818540^[18] PMID:9685352^[16] PMID:15448133^[17]	IDA: Inferred from Direct Assay		P		complete
RGD	Rat	Gch1		GO:0051260	protein homooligomerization	PMID:2557335^[6] PMID:9636709^[15]	IDA: Inferred from Direct Assay		P		complete
RGD	Rat	Gch1		GO:0005625	soluble fraction	PMID:8486153^[7] PMID:8702680^[8] PMID:2557335^[6]	IDA: Inferred from Direct Assay		C		complete
RGD	Rat	Gch1		GO:0043234	protein complex	PMID:2298660^[20] PMID:8702680^[8] PMID:15448133^[17]	IDA: Inferred from Direct Assay		C		complete
EcoliWiki	E. coli	folE		GO:0046654	tetrahydrofolate biosynthetic process	PMID:821948^[1]	IDA: Inferred from Direct Assay		P		complete
EcoliWiki	E. coli	folE		GO:0005525	GTP binding	PMID:821948^[1]	IDA: Inferred from Direct Assay		F		complete
WormBase	C.elegans	cat-4 (WBGene00000298)		GO:0046662	regulation of oviposition	PMID:7472454^[21] PMID:9697864^[22] PMID:10757762^[23]	IMP: Inferred from Mutant Phenotype	WB:e1141	P		complete
WormBase	C.elegans	cat-4 (WBGene00000298)		GO:0042427	serotonin biosynthetic process	PMID:3200316^[14] PMID:7472454^[21] PMID:11487610^[24]	IMP: Inferred from Mutant Phenotype	WB:e1141 (for all but first reference)	P		complete
EcoliWiki	E. coli	folE		GO:0008270	zinc ion binding	PMID:12559918^[25]	IDA: Inferred from Direct Assay		F		complete
EcoliWiki	E. coli	folE		GO:0043234	protein complex	PMID:7663943^[26] PMID:821948^[1]	IDA: Inferred from Direct Assay		C	FolE is a homodecamer, based on X-ray crystallography and biochemical characterization.	complete
DictyBase	Dicty	gchA		GO:0003934	GTP cyclohydrolase I activity	PMID:8660315^[27] PMID:8870645^[28] PMID:16527408^[29]	IDA: Inferred from Direct Assay		F		complete
DictyBase	Dicty	gchA		GO:0006729	tetrahydrobiopterin biosynthetic process	PMID:8660315^[27] PMID:8870645^[28] PMID:16527408^[29]	IDA: Inferred from Direct Assay		P		complete
AgBase	Chicken	P50141		GO:0006729	tetrahydrobiopterin biosynthetic process	PMID:9226880^[11]	IMP: Inferred from Mutant Phenotype		P		complete
AgBase	Chicken	P50141		GO:0006729	tetrahydrobiopterin biosynthetic process	PMID:9226880^[11]	IDA: Inferred from Direct Assay		P		complete
AgBase	Chicken	P50141		GO:0003933	GTP cyclohydrolase activity	PMID:9226880^[11]	IDA: Inferred from Direct Assay		F		complete
WormBase	C.elegans	cat-4 (WBGene00000298)		GO:0043051	regulation of pharyngeal pumping	PMID:2181052^[30]	IMP: Inferred from Mutant Phenotype	No allele stated	P		complete
DictyBase	Dicty	gchA		GO:0008277	regulation of G-protein coupled receptor protein signaling pathway	PMID:8619862^[31]	IDA: Inferred from Direct Assay		P	H4dictyopterin and H4biopterin (arising from the GTPCH reaction) regulate the G protein linked signalling pathway	complete
DictyBase	Dicty	gchA		GO:0005625	soluble fraction	PMID:8660315^[27] PMID:16527408^[29]	IDA: Inferred from Direct Assay		C		complete
WormBase	C.elegans	cat-4 (WBGene00000298)		GO:0060179	male mating behavior	PMID:8254383^[32]	IMP: Inferred from Mutant Phenotype	WB:e1141	P		complete
DictyBase	Dicty	gchA		GO:0045335	phagocytic vesicle	PMID:16926386^[33]	IDA: Inferred from Direct Assay		C		complete
WormBase	C.elegans	cat-4 (WBGene00000298)		GO:0046662	regulation of oviposition	PMID:8325482^[34]	IGI: Inferred from Genetic Interaction	WB:WBGene00006767	P		complete
DictyBase	Dicty	gchA		GO:0005624	membrane fraction	PMID:8660315^[27]	IDA: Inferred from Direct Assay		C		complete
WormBase	C.elegans	cat-4 (WBGene00000298)		GO:0032095	regulation of response to food	PMID:10896158^[35]	IMP: Inferred from Mutant Phenotype	WB:e1141	P		complete
TAIR	Arabidopsis	At3g07270		GO:0003934	GTP cyclohydrolase I activity	TAIR:Communication:501714663	ISS: Inferred from Sequence or Structural Similarity	INTERPRO:IPR001474	F	TIGR annotation	complete
TAIR	Arabidopsis	At3g07270		GO:0009058	biosynthetic process	TAIR:Communication:501714663	IEA: Inferred from Electronic Annotation	INTERPRO:IPR001474	P	TIGR annotation	complete
TAIR	Arabidopsis	At3g07270		GO:0005737	cytoplasm	TAIR:AnalysisReference:501721077	IEA: Inferred from Electronic Annotation	INTERPRO:IPR001474	C	INTERPRO2GO mapping, TAIR8 release	complete
TAIR	Arabidopsis	At3g07270		GO:0003934	GTP cyclohydrolase I activity	TAIR:Communication:501714663	ISS: Inferred from Sequence or Structural Similarity	INTERPRO:IPR001474	F	TIGR annotation	complete
TAIR	Arabidopsis	At3g07270		GO:0009058	biosynthetic process	TAIR:Communication:501714663	IEA: Inferred from Electronic Annotation	INTERPRO:IPR001474	P	TIGR annotation	complete
WormBase	C.elegans	cat-4 (WBGene00000298)		GO:0007626	locomotory behavior	PMID:10896158^[35]	IMP: Inferred from Mutant Phenotype	WB:e1141	P		complete
WormBase	C.elegans	cat-4 (WBGene00000298)		GO:0019438	aromatic compound biosynthetic process		IEA: Inferred from Electronic Annotation	InterPro:IPR001474	P		required field missing
WormBase	C.elegans	cat-4 (WBGene00000298)		GO:0005737	cytoplasm		IEA: Inferred from Electronic Annotation	InterPro:IPR001474	C		required field missing
WormBase	C.elegans	cat-4 (WBGene00000298)		GO:0003934	GTP cyclohydrolase I activity		IEA: Inferred from Electronic Annotation	InterPro:IPR001474	F		required field missing
WormBase	C.elegans	cat-4 (WBGene00000298)		GO:0040012	regulation of locomotion	PMID:16759670^[36] PMID:15698479^[37]	IMP: Inferred from Mutant Phenotype	WB:e1141	P		complete
WormBase	C.elegans	cat-4 (WBGene00000298)		GO:0042438	melanin biosynthetic process	PMID:18460651^[38]	IMP: Inferred from Mutant Phenotype	WB:ok342	P		complete
WormBase	C.elegans	cat-4 (WBGene00000298)		GO:0040002	collagen and cuticulin-based cuticle development	PMID:18460651^[38]	IMP: Inferred from Mutant Phenotype	WB:ok342	P		complete
WormBase	C.elegans	cat-4 (WBGene00000298)		GO:0050804	regulation of synaptic transmission	PMID:10677040^[39]	IMP: Inferred from Mutant Phenotype	WB:e1141	P		complete
AgBase	Chicken	P50141		GO:0005737	cytoplasm	PMID:11799145^[40]	IDA: Inferred from Direct Assay		C		complete
FlyBase	Drosophila	FBgn0003162		GO:0048067	cuticle pigmentation	PMID:3115849^[41]	IMP: Inferred from Mutant Phenotype		P		complete
FlyBase	Drosophila	FBgn0003162		GO:0008363	larval chitin-based cuticle development	PMID:3115849^[41]	IMP: Inferred from Mutant Phenotype		P		complete
GOA	Human	GCH1 (P30793)		GO:0042559	pteridine and derivative biosynthetic process	PMID:3753653^[42] PMID:2463916^[43]	IDA: Inferred from Direct Assay		P		complete
GOA	Human	GCH1 (P30793)		GO:0006184	GTP catabolic process	PMID:2463916^[43]	IDA: Inferred from Direct Assay		P		complete
FlyBase	Drosophila	FBgn0003162		GO:0003934	GTP cyclohydrolase I activity	PMID:3080426^[44]	IDA: Inferred from Direct Assay		F		complete
GOA	Human	GCH1 (P30793)		GO:0048265	response to pain	SPTR P22288	ISS: Inferred from Sequence or Structural Similarity		P	Annotation to Rat made from PMID:17057711^[45] and then ISS'ed to Human	required field missing
FlyBase	Drosophila	FBgn0003162		GO:0035185	preblastoderm mitotic cell cycle	PMID:7706401^[46]	IMP: Inferred from Mutant Phenotype		P		complete
GOA	Human	GCH1 (P30793)		GO:0006729	tetrahydrobiopterin biosynthetic process	PMID:7678411^[47] PMID:9445252^[48]	IDA: Inferred from Direct Assay		P		required field missing
FlyBase	Drosophila	FBgn0003162		GO:0006728	pteridine biosynthetic process	PMID:7706401^[46]	IMP: Inferred from Mutant Phenotype		P		complete
GOA	Human	GCH1 (P30793)		GO:0032496	response to lipopolysaccharide	PMID:7678411^[47] PMID:9445252^[48]	IDA: Inferred from Direct Assay		P		required field missing
FlyBase	Drosophila	FBgn0003162		GO:0006728	pteridine biosynthetic process	PMID:16966327^[2]	IDA: Inferred from Direct Assay		P		complete
GOA	Human	GCH1 (P30793)		GO:0034341	response to interferon-gamma	PMID:7678411^[47] PMID:9445252^[48] PMID:12607127^[49]	IDA: Inferred from Direct Assay		P		complete
FlyBase	Drosophila	FBgn0003162		GO:0005737	cytoplasm	PMID:7706401^[46]	IDA: Inferred from Direct Assay		C		complete
GOA	Human	GCH1 (P30793)		GO:0051260	protein homooligomerization	PMID:11087823^[50]	IDA: Inferred from Direct Assay		P		required field missing
FlyBase	Drosophila	FBgn0003162		GO:0007424	open tracheal system development	PMID:17585895^[51]	IMP: Inferred from Mutant Phenotype		P		complete
GOA	Human	GCH1 (P30793)		GO:0006809	nitric oxide biosynthetic process	PMID:9445252^[48]	NAS: Non-traceable Author Statement		P		required field missing
FlyBase	Drosophila	FBgn0003162		GO:0048754	branching morphogenesis of a tube	PMID:17585895^[51]	IMP: Inferred from Mutant Phenotype		P		complete
GOA	Human	GCH1 (P30793)		GO:0051000	positive regulation of nitric-oxide synthase activity	PMID:12176133^[52]	IDA: Inferred from Direct Assay		P		required field missing
FlyBase	Drosophila	FBgn0003162		GO:0030334	regulation of cell migration	PMID:17585895^[51]	IMP: Inferred from Mutant Phenotype		P	Request new term for regulation of tracheal cell migration	complete
GOA	Human	GCH1 (P30793)		GO:0003934	GTP cyclohydrolase I activity	PMID:3753653^[42]	IDA: Inferred from Direct Assay		F		required field missing
FlyBase	Drosophila	FBgn0003162		GO:0042416	dopamine biosynthetic process	PMID:17585895^[51]	IMP: Inferred from Mutant Phenotype		P		complete
GOA	Human	GCH1 (P30793)		GO:0005525	GTP binding	PMID:3753653^[42] PMID:14717702^[53]	IDA: Inferred from Direct Assay		F		required field missing
FlyBase	Drosophila	FBgn0003162		GO:0048072	compound eye pigmentation	PMID:3136053^[54]	IMP: Inferred from Mutant Phenotype		P		complete
GOA	Human	GCH1 (P30793)		GO:0008270	zinc ion binding	PMID:14717702^[53] PMID:11087823^[50]	IDA: Inferred from Direct Assay		F		required field missing
FlyBase	Drosophila	FBgn0003162		GO:0003934	GTP cyclohydrolase I activity	PMID:3136053^[54]	IMP: Inferred from Mutant Phenotype		F		complete
GOA	Human	GCH1 (P30793)		GO:0005829	cytosol	PMID:2463916^[43] PMID:3318829^[55]	IDA: Inferred from Direct Assay		C		required field missing
GOA	Human	GCH1 (P30793)		GO:0031410	cytoplasmic vesicle	PMID:3318829^[55]	IDA: Inferred from Direct Assay		C		required field missing
GOA	Human	GCH1 (P30793)		GO:0005515	protein binding	PMID:16696853^[56]	IPI: Inferred from Physical Interaction	P11142, O95433, Q02447, Q13129, Q96F85, Q9ULW5	F		required field missing
GOA	Human	GCH1 (P30793-1)		GO:0003934	GTP cyclohydrolase I activity	PMID:3753653^[42]	IDA: Inferred from Direct Assay		F		required field missing
GOA	Human	GCH1 (P30793)		GO:0005737	cytoplasm	PMID:10907721^[57]	IDA: Inferred from Direct Assay		C		complete
GOA	Human	GCH1 (P30793)		GO:0005634	nucleus	PMID:16778797^[58]	IDA: Inferred from Direct Assay		C		complete
GOA	Human	GCH1 (P30793-3)	NOT	GO:0003934	GTP cyclohydrolase I activity	PMID:8068008^[3] PMID:11284739^[4]	IDA: Inferred from Direct Assay		F		complete
GOA	Human	GCH1 (P30793-4)	NOT	GO:0003934	GTP cyclohydrolase I activity	PMID:8068008^[3] PMID:11284739^[4]	IDA: Inferred from Direct Assay		F		complete
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GCH1 notes

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Debby-EcoliWiki
- InterPro has several IEA annotations for E. coli FolE that I think are incorrect. Would it be useful to include these in the Jamboree with NOT qualifier? For example, InterPro annotates FolE to GO:0006556 S-adenosylmethionine biosynthetic process. Methionine biosynthesis in E. coli requires 5-methyltetrahydropteroyltri-L-glutamate, which is derived from tetrahydrofolate, but FolE is not directly involved in the biosynthesis of methionine.

Petra DictyBase
- Authors in PMID 8660315 describe their membrane preparation and assay the enzyme function. The dicty gchA gene was originally annotated to GO:0005626 insoluble fraction, and I now found it should be GO:0005624 membrane fraction and changed the annotation. Looking at this, I was surprised to find these two terms as siblings, as I thought 'membrane fraction' should be part of 'insoluble fraction.
- I wonder if those genes that have IDA annotation to GO:0003934, GTP cyclohydrolase I activity, do not have the same experimental annotation to the process GO:0006729, tetrahydrobiopterin biosynthesis because, how were the enzymes assayed? By determining the tetrahydrobiopterin? Just a thought.
  - Debby EcoliWiki: As far as I can tell, E. coli doesn't make tetrahydrobiopterin. The GTP cyclohydrolase I reaction produces 7,8-dihydroneopterin triphosphate which goes into tetrahydrofolate biosynthesis. E. coli makes tyrosine from phenylalanine in a reaction that doesn't use tetrahydrobiopterin as a cofactor.
    - Jim EcoliWiki There's a NAS in a paper showing reconstitution of a tetrahydrobiopterin synthesis pathway in E. coli that says E. coli and most bacteria don't make tetrahydrobiopterin^[59]

Doug-ZFIN
- The PPOD cluster for this gene has the zebrafish gch2 gene, while ZFIN has a gch1 gene which shares conserved synteny with the Human and mouse ortholog. Our gch1 gene was created as a result of manual curation, so currently has no sequence associated with it, and thus does not show up in the PPOD cluster. As a result I guess the next best match, gch2, is included in the cluster. It turns out that gch2 in zebrafish has so far only been used as a marker for pigment cell precursors, so there is no functional data. If there were...should it be curated as part of this cluster?
  - I think gch2 should not be curated as an ortholog if you know there is a gch1 gene. Petra

Becky-Swiss-Prot
- GCH1 N terminus of the protein has a negative regulation activity - should there be a new GO term – for self-regulation when self binding (ST)

GO Terms

Human annotators: Terms requested for 'Response to TNF', 'Protein homodecamerization' and 'Response to laminar shear stress'

HSPD1

HSPD1_Graph <ejamb>573c5f77b3a094817c4e1c4a6f9b2c99.197349.W4873c9d899a70

HSPD1</ejamb>

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This figure should automatically update from the table

Group	Organism	gene	Qualifier	GO ID	GO term name	Reference(s)	Evidence Code	with/from	Aspect	Notes	Status
EcoliWiki	E. coli	groL		GO:0042026	protein refolding	PMID:7902351^[60]	IDA: Inferred from Direct Assay		P	GroEL/GroES can reactivate heat-treated RNA polymerase in vitro.	complete
DictyBase	Dicty	hspA		GO:0005739	mitochondrion	PMID:12952082^[61]	IDA: Inferred from Direct Assay		C		complete
FlyBase	Drosophila	Hsp60 FBgn0015245		GO:0005739	mitochondrion	PMID:8904317^[62]	IDA: Inferred from Direct Assay		C		complete
GOA	Human	HSPD1 (P10809)		GO:0002368	B cell cytokine production	PMID:16148103^[63]	IDA: Inferred from Direct Assay		P		required field missing
Sanger GeneDB	S. Pombe										required field missing
SGD	S. cerevisiae	HSP60		GO:0045041	protein import into mitochondrial intermembrane space	PMID:1347713^[64]	IMP: Inferred from Mutant Phenotype		P		required field missing
TAIR	Arabidopsis	AT3G23990/Hsp60-3b		GO:0005739	mitochondrion	4 different PMIDs	IDA: Inferred from Direct Assay		C	this location has been assayed to death	complete
WormBase	C.elegans	hsp-60(WBGene00002025)		GO:0034514	mitochondrial unfolded protein response	PMID:15280428^[65]	IEP: Inferred from Expression Pattern		P		complete
	Chicken										required field missing
ZFIN	Zebrafish	hspd1		GO:0031101	fin regeneration	PMID:16204379^[66]	IMP: Inferred from Mutant Phenotype	ZFIN:ZDB-GENO-051101-1	P		complete
EcoliWiki	E. coli	groL		GO:0005524	ATP binding	PMID:379350^[67]	IDA: Inferred from Direct Assay		F	Purified GroEL has ATPase activity.	complete
EcoliWiki	E. coli	groL		GO:0051082	unfolded protein binding	PMID:1676490^[68]	IDA: Inferred from Direct Assay		F		complete
EcoliWiki	E. coli	groL		GO:0005515	protein binding				F		required field missing
EcoliWiki	E. coli	groL		GO:0042963	phage assembly	PMID:7015340^[69]	IMP: Inferred from Mutant Phenotype		P		complete
EcoliWiki	E. coli	groL		GO:0016887	ATPase activity	PMID:379350^[67]	IDA: Inferred from Direct Assay		F		complete
EcoliWiki	E. coli	groL		GO:0006986	response to unfolded protein	PMID:2676724^[70]			P		required field missing
EcoliWiki	E. coli	groL		GO:0005737	cytoplasm				C		required field missing
EcoliWiki	E. coli	groL		GO:0006457	protein folding	PMID:1359538^[71]	IGI: Inferred from Genetic Interaction		P	Not sure about evidence code.	complete
DictyBase	Dicty	hspA		GO:0046956	positive phototaxis	PMID:12952082^[61]	IMP: Inferred from Mutant Phenotype		P	unsure about making those P annotations (see email discussion from last week)	complete
DictyBase	Dicty	hspA		GO:0031288	sorocarp morphogenesis	PMID:12952082^[61]	IMP: Inferred from Mutant Phenotype		P	unsure about making those P annotations (see email discussion from last week)	complete
DictyBase	Dicty	hspA		GO:0008283	cell proliferation	PMID:12952082^[61]	IMP: Inferred from Mutant Phenotype		P	unsure about making those P annotations (see email discussion from last week)	complete
SGD	S. cerevisiae	HSP60		GO:0006458	'de novo' protein folding	PMID:1978929^[72]	IMP: Inferred from Mutant Phenotype		P		required field missing
SGD	S. cerevisiae	HSP60		GO:0051604	protein maturation	PMID:8097278^[73]	IMP: Inferred from Mutant Phenotype		P		required field missing
SGD	S. cerevisiae	HSP60		GO:0051131	chaperone-mediated protein complex assembly	PMID:2645524^[74]	IMP: Inferred from Mutant Phenotype		P		required field missing
SGD	S. cerevisiae	HSP60		GO:0016887	ATPase activity	PMID:7902576^[75]	IDA: Inferred from Direct Assay		F		complete
SGD	S. cerevisiae	HSP60		GO:0051082	unfolded protein binding	PMID:1359644^[76]	IMP: Inferred from Mutant Phenotype		F		complete
SGD	S. cerevisiae	HSP60		GO:0042026	protein refolding	PMID:1359644^[76]	IMP: Inferred from Mutant Phenotype		P		complete
SGD	S. cerevisiae	HSP60		GO:0005739	mitochondrion	PMID:8097278^[73]	IDA: Inferred from Direct Assay		C		complete
SGD	S. cerevisiae	HSP60		GO:0050821	protein stabilization	PMID:1359644^[76]	IMP: Inferred from Mutant Phenotype		P		complete
SGD	S. cerevisiae	HSP60		GO:0042645	mitochondrial nucleoid	PMID:10869431^[77]	IDA: Inferred from Direct Assay		C		complete
MGI	Mouse	Hspd1		GO:0044459	plasma membrane part	PMID:15252132^[78]	IDA: Inferred from Direct Assay		C		required field missing
MGI	Mouse	Hspd1		GO:0005739	mitochondrion	PMID:8824711^[79] PMID:1516759^[80] PMID:12931191^[81] PMID:16959573^[82] PMID:14651853^[83]	IDA: Inferred from Direct Assay		C		complete
MGI	Mouse	Hspd1		GO:0030141	secretory granule	PMID:1516759^[80] PMID:8824711^[79]	IDA: Inferred from Direct Assay		C		complete
MGI	Mouse	Hspd1		GO:0043231	intracellular membrane-bounded organelle	PMID:15136728^[84], PMID:16708399^[85]	IDA: Inferred from Direct Assay		C		complete
MGI	Mouse	Hspd1		GO:0005743	mitochondrial inner membrane	PMID:12865426^[86]	IDA: Inferred from Direct Assay		C		complete
MGI	Mouse	Hspd1		GO:0001530	lipopolysaccharide binding	J:73065	ISS: Inferred from Sequence or Structural Similarity	UniProtKB:P10809	F		complete
MGI	Mouse	Hspd1		GO:0042110	T cell activation	J:73065	ISS: Inferred from Sequence or Structural Similarity	UniProtKB:P10809	P		required field missing
MGI	Mouse	Hspd1		GO:0042110	T cell activation	PMID:15371451^[87] PMID:18256040^[88] PMID:17164250^[89]	IDA: Inferred from Direct Assay		P		complete
MGI	Mouse	Hspd1		GO:0042110	T cell activation	PMID:17164250^[89]	IGI: Inferred from Genetic Interaction	MGI:107658	P		required field missing
MGI	Mouse	Hspd1		GO:0032729	positive regulation of interferon-gamma production	PMID:17164250^[89] PMID:15371451^[87]	IDA: Inferred from Direct Assay		P		complete
MGI	Mouse	Hspd1		GO:0032729	positive regulation of interferon-gamma production	PMID:17164250^[89]	IGI: Inferred from Genetic Interaction	MGI:107658	P		required field missing
MGI	Mouse	Hspd1		GO:0032729	positive regulation of interferon-gamma production	J:73065	ISS: Inferred from Sequence or Structural Similarity	UniProtKB:P10809	P		required field missing
MGI	Mouse	Hspd1		GO:0032727	positive regulation of interferon-alpha production	PMID:17164250^[89]	IDA: Inferred from Direct Assay		P		required field missing
RGD	Rat	Hspd1		GO:0009986	cell surface	PMID:7525102^[90]	IDA: Inferred from Direct Assay		C		complete
RGD	Rat	Hspd1		GO:0005737	cytoplasm	PMID:7525102^[90]	IDA: Inferred from Direct Assay		C		complete
RGD	Rat	Hspd1		GO:0045121	membrane raft	PMID:15948182^[91]	IDA: Inferred from Direct Assay		C		complete
RGD	Rat	Hspd1		GO:0030061	mitochondrial crista	PMID:7780001^[92]	IDA: Inferred from Direct Assay		C		complete
RGD	Rat	Hspd1		GO:0005739	mitochondrion	PMID:16579988^[93] PMID:10806118^[94]	IDA: Inferred from Direct Assay		C		complete
RGD	Rat	Hspd1		GO:0005791	rough endoplasmic reticulum	PMID:10806118^[94]	IDA: Inferred from Direct Assay		C		complete
RGD	Rat	Hspd1		GO:0030141	secretory granule	PMID:10806118^[94]	IDA: Inferred from Direct Assay		C		complete
RGD	Rat	Hspd1		GO:0051787	misfolded protein binding	PMID:9811814^[95]	IPI: Inferred from Physical Interaction	RGD:1561359	F		complete
RGD	Rat	Hspd1		GO:0002236	detection of misfolded protein	PMID:9811814^[95]	IDA: Inferred from Direct Assay		P		complete
SGD	S. cerevisiae	HSP60		GO:0016887	ATPase activity	PMID:9256426^[96]	IDA: Inferred from Direct Assay		F		complete
SGD	S. cerevisiae	HSP60		GO:0042026	protein refolding	PMID:9256426^[96]	IDA: Inferred from Direct Assay		P		complete
WormBase	C.elegans	hsp-60(WBGene00002025)		GO:0009792	embryonic development ending in birth or egg hatching	PMID:15280428^[65]	IMP: Inferred from Mutant Phenotype		P	Shown via RNAi; this annotation shows the essential nature of this gene.	complete
WormBase	C.elegans	hsp-60(WBGene00002025)		GO:0002119	nematode larval development	PMID:15280428^[65]	IMP: Inferred from Mutant Phenotype		P	Shown via RNAi;	complete
WormBase	C.elegans	hsp-60(WBGene00002025)		GO:0000302	response to reactive oxygen species	PMID:15280428^[65]	IEP: Inferred from Expression Pattern		P	Use of Paraquat that results in accumulation of reactive oxygen species leads to hsp-60 induction, thus use of IEP.	complete
WormBase	C.elegans	hsp-60(WBGene00002025)		GO:0007005	mitochondrion organization	PMID:16816413^[97]	IMP: Inferred from Mutant Phenotype		P	Shown via RNAi; actually affects morphology of mitochondria (thicker often fragmented mitochondria); chose the term closest to describing this.	complete
WormBase	C.elegans	hsp-60(WBGene00002025)	NOT	GO:0009408	response to heat	PMID:15280428^[65]	IEP: Inferred from Expression Pattern		P	Paper specifically shows that hsp-60 was not activated by heat shock, I think it is worth making the 'NOT' annotation.	complete
WormBase	C.elegans	hsp-60(WBGene00002025)		GO:0051082	unfolded protein binding	PMID:15280428^[65]	ISS: Inferred from Sequence or Structural Similarity		F		complete
WormBase	C.elegans	hsp-60(WBGene00002025)		GO:0008134	transcription factor binding	PMID:17925224^[98]	IPI: Inferred from Physical Interaction		F	hsp-60 binds dve-1 (ortholog of fly defective proventriculus, dve-1 is a homeodomain transcription factor)	complete
RGD	Rat	Hspd1		GO:0051787	misfolded protein binding	PMID:9811814^[95]	IPI: Inferred from Physical Interaction	RGD:1359615	F		complete
RGD	Rat	Hspd1		GO:0005739	mitochondrion	PMID:9811814^[95] PMID:7829528^[99]	IDA: Inferred from Direct Assay	RGD:1359615	C		complete
RGD	Rat	Hspd1		GO:0051085	chaperone cofactor-dependent protein folding	PMID:7829528^[99]	IDA: Inferred from Direct Assay		P		complete
RGD	Rat	Hspd1		GO:0006916	anti-apoptosis	PMID:12070120^[100]	IMP: Inferred from Mutant Phenotype		P		complete
RGD	Rat	Hspd1		GO:0005829	cytosol	PMID:12070120^[100]	IDA: Inferred from Direct Assay		C		complete
EcoliWiki	E. coli	groL		GO:0006458	'de novo' protein folding	PMID:1359538^[71]	IGI: Inferred from Genetic Interaction		P	Unsure about the evidence code to use.	complete
RGD	Rat	Hspd1		GO:0005829	cytosol	PMID:12070120^[100]	IDA: Inferred from Direct Assay		C		complete
EcoliWiki	E. coli	groL		GO:0043234	protein complex	PMID:7770481^[101]	IDA: Inferred from Direct Assay		C		complete
RGD	Rat	Hspd1		GO:0042588	zymogen granule	PMID:8675955^[102]	IDA: Inferred from Direct Assay		C		complete
RGD	Rat	Hspd1		GO:0005791	rough endoplasmic reticulum	PMID:8675955^[102]	IDA: Inferred from Direct Assay		C		complete
RGD	Rat	Hspd1		GO:0005794	Golgi apparatus	PMID:8675955^[102]	IDA: Inferred from Direct Assay		C		complete
RGD	Rat	Hspd1		GO:0006458	'de novo' protein folding	PMID:8675955^[102]	IC: Inferred by Curator	GO:0042588	P		complete
EcoliWiki	E. coli	groL		GO:0009408	response to heat	PMID:149109^[103] PMID:350413^[104]	IEP: Inferred from Expression Pattern		P		complete
ZFIN	Zebrafish	hspd1		GO:0042246	tissue regeneration	PMID:16204379^[66]	IMP: Inferred from Mutant Phenotype	ZFIN:ZDB-GENO-051101-1	P		complete
TAIR	Arabidopsis	AT3G23990/Hsp60-3b		GO:0010583	response to cyclopentenone	PMID:18334669^[105]	IEP: Inferred from Expression Pattern		P	hmmm, not my annotation but based only on microarray data	complete
TAIR	Arabidopsis	AT3G23990/Hsp60-3b		GO:0051082	unfolded protein binding	TAIR:AnalysisReference:501721077	IEA: Inferred from Electronic Annotation	INTERPRO:IPR008950\|INTERPRO:IPR012723	F	INTERPRO2GO mapping, TAIR8 release	complete
TAIR	Arabidopsis	AT3G23990/Hsp60-3b		GO:0005515	protein binding	TAIR:AnalysisReference:501721077	IEA: Inferred from Electronic Annotation	INTERPRO:IPR001844\|INTERPRO:IPR002423	F	INTERPRO2GO mapping, TAIR8 release	complete
TAIR	Arabidopsis	AT3G23990/Hsp60-3b		GO:0005524	ATP binding	TAIR:AnalysisReference:501721077	IEA: Inferred from Electronic Annotation	INTERPRO:IPR001844\|INTERPRO:IPR002423\|INTERPRO:IPR008950\|INTERPRO:IPR012723	F	INTERPRO2GO mapping, TAIR8 release	complete
TAIR	Arabidopsis	AT3G23990/Hsp60-3b		GO:0009408	response to heat	PMID:1349837^[106]	IEP: Inferred from Expression Pattern		P	Northern	complete
TAIR	Arabidopsis	AT3G23990/Hsp60-3b		GO:0005829	cytosol	PMID:17883376^[107]	IEP: Inferred from Expression Pattern		C	Western	complete
TAIR	Arabidopsis	AT3G23990/Hsp60-3b		GO:0005759	mitochondrial matrix	PMID:16407270^[108]	IDA: Inferred from Direct Assay		C	cell fractionation + Western	complete
TAIR	Arabidopsis	At2g33210/Hsp60-2		GO:0051082	unfolded protein binding	TAIR:AnalysisReference:501721077	IEA: Inferred from Electronic Annotation	INTERPRO:IPR008950\|INTERPRO:IPR012723	F	INTERPRO2GO mapping, TAIR8 release	complete
TAIR	Arabidopsis	At2g33210/Hsp60-2		GO:0005515	protein binding	TAIR:AnalysisReference:501721077	IEA: Inferred from Electronic Annotation	INTERPRO:IPR001844\|INTERPRO:IPR002423	F	INTERPRO2GO mapping, TAIR8 release	complete
TAIR	Arabidopsis	At2g33210/Hsp60-2		GO:0005524	ATP binding	TAIR:AnalysisReference:501721077	IEA: Inferred from Electronic Annotation	INTERPRO:IPR008950\|INTERPRO:IPR012723	F	INTERPRO2GO mapping, TAIR8 release	complete
TAIR	Arabidopsis	At2g33210/Hsp60-2		GO:0009651	response to salt stress	PMID:16407270^[108]	IEP: Inferred from Expression Pattern		P	Northern	complete
TAIR	Arabidopsis	At2g33210/Hsp60-2		GO:0005739	mitochondrion	2 different PMIDs	IDA: Inferred from Direct Assay		C		complete
TAIR	Arabidopsis	At2g33210/Hsp60-2		GO:0006954	inflammatory response	TAIR:Communication:501714663	ISS: Inferred from Sequence or Structural Similarity	SWISS-PROT:Q59322	P	TIGR annotation from 2001	complete
other	Chicken	Q5ZL72		GO:0003674	molecular function		ND: No biological Data available		F		required field missing
other	Chicken	Q5ZL72		GO:0008150	biological process		ND: No biological Data available		P		required field missing
other	Chicken	Q5ZL72		GO:0005575	cellular component		ND: No biological Data available		C		required field missing
EcoliWiki	E. coli	groL		GO:0016465	chaperonin ATPase complex				C		required field missing
EcoliWiki	E. coli	groL		GO:0051787	misfolded protein binding	PMID:7902351^[60]	IDA: Inferred from Direct Assay		F		complete
TAIR	Arabidopsis	At3g13860/Hsp60-3a		GO:0051082	unfolded protein binding	TAIR:AnalysisReference:501721077	IEA: Inferred from Electronic Annotation	INTERPRO:IPR008950\|INTERPRO:IPR012723	F	INTERPRO2GO mapping, TAIR8 release	complete
TAIR	Arabidopsis	At3g13860/Hsp60-3a		GO:0005515	protein binding	TAIR:AnalysisReference:501721077	IEA: Inferred from Electronic Annotation	INTERPRO:IPR001844\|INTERPRO:IPR002423	F	INTERPRO2GO mapping, TAIR8 release	complete
TAIR	Arabidopsis	At3g13860/Hsp60-3a		GO:0005524	ATP binding	TAIR:AnalysisReference:501721077	IEA: Inferred from Electronic Annotation	INTERPRO:IPR008950\|INTERPRO:IPR012723	F	INTERPRO2GO mapping, TAIR8 release	complete
TAIR	Arabidopsis	At3g13860/Hsp60-3a		GO:0044267	cellular protein metabolic process	TAIR:AnalysisReference:501721077	IEA: Inferred from Electronic Annotation	INTERPRO:IPR001844\|INTERPRO:IPR002423INTERPRO:IPR001844\|INTERPRO:IPR002423	P	INTERPRO2GO mapping, TAIR8 release	complete
TAIR	Arabidopsis	At3g13860/Hsp60-3a		GO:0006457	protein folding	TAIR:AnalysisReference:501721077	IEA: Inferred from Electronic Annotation	INTERPRO:IPR008950\|INTERPRO:IPR012723	P	INTERPRO2GO mapping, TAIR8 release	complete
TAIR	Arabidopsis	At3g13860/Hsp60-3a		GO:0005739	mitochondrion	PMID:14671022^[109]	IDA: Inferred from Direct Assay		C	protein separation and fragment identification	complete
TAIR	Arabidopsis	At3g13860/Hsp60-3a		GO:0005739	mitochondrion	4 different PMIDs	IDA: Inferred from Direct Assay		C	this location has been assayed to death	required field missing
TAIR	Arabidopsis	At3g13860/Hsp60-3a		GO:0005739	mitochondrion	4 different PMIDs	IDA: Inferred from Direct Assay		C	this location has been assayed to death	required field missing
TAIR	Arabidopsis	At3g13860/Hsp60-3a		GO:0005739	mitochondrion	4 different PMIDs	IDA: Inferred from Direct Assay		C	this location has been assayed to death	required field missing
TAIR	Arabidopsis	At3g13860/Hsp60-3a		GO:0005739	mitochondrion	4 different PMIDs	IDA: Inferred from Direct Assay		C	this location has been assayed to death	required field missing
EcoliWiki	E. coli	groL		GO:0051787	misfolded protein binding	PMID:7902351^[60]	IDA: Inferred from Direct Assay		F		complete
TAIR	Arabidopsis	At3g13860/Hsp60-3a		GO:0005739	mitochondrion	4 different PMIDs	IDA: Inferred from Direct Assay		C	this location has been assayed to death	required field missing
EcoliWiki	E. coli	groL		GO:0016465	chaperonin ATPase complex				C		required field missing
GOA	Human	HSPD1 (P10809)		GO:0002755	MyD88-dependent toll-like receptor signaling pathway	PMID:16148103^[63]	IDA: Inferred from Direct Assay		P		required field missing
GOA	Human	HSPD1 (P10809)		GO:0032733	positive regulation of interleukin-10 production	PMID:16148103^[63]	IDA: Inferred from Direct Assay		P		required field missing
GOA	Human	HSPD1 (P10809)		GO:0032755	positive regulation of interleukin-6 production	PMID:16148103^[63]	IDA: Inferred from Direct Assay		P		required field missing
GOA	Human	HSPD1 (P10809)		GO:0042100	B cell proliferation	PMID:16148103^[63]	IDA: Inferred from Direct Assay		P		required field missing
GOA	Human	HSPD1 (P10809)		GO:0042113	B cell activation	PMID:16148103^[63]	IDA: Inferred from Direct Assay		P		required field missing
GOA	Human	HSPD1 (P10809)		GO:0048291	isotype switching to IgG isotypes	PMID:16148103^[63]	IDA: Inferred from Direct Assay		P		required field missing
GOA	Human	HSPD1 (P10809)		GO:0050870	positive regulation of T cell activation	PMID:16148103^[63]	IDA: Inferred from Direct Assay		P		required field missing
GOA	Human	HSPD1 (P10809)		GO:0050821	protein stabilization	PMID:18086682^[110]	IMP: Inferred from Mutant Phenotype		P		required field missing
GOA	Human	HSPD1 (P10809)		GO:0006919	caspase activation	PMID:17823127^[111]	IDA: Inferred from Direct Assay		P		required field missing
GOA	Human	HSPD1 (P10809)		GO:0043065	positive regulation of apoptosis	PMID:17823127^[111]	IMP: Inferred from Mutant Phenotype		P		required field missing
GOA	Human	HSPD1 (P10809)		GO:0043066	negative regulation of apoptosis	PMID:17823127^[111] PMID:18086682^[110]	IMP: Inferred from Mutant Phenotype		P		required field missing
GOA	Human	HSPD1 (P10809)		GO:0051087	chaperone binding	PMID:10205158^[112]	IPI: Inferred from Physical Interaction	P61604	F		required field missing
GOA	Human	HSPD1 (P10809)		GO:0005515	protein binding	PMID:18086682^[110] PMID:17823127^[111]	IPI: Inferred from Physical Interaction	O15392, P42574	F		required field missing
GOA	Human	HSPD1 (P10809)		GO:0005615	extracellular space	PMID:18229457^[113]	IDA: Inferred from Direct Assay		C		required field missing
GOA	Human	HSPD1 (P10809)		GO:0005739	mitochondrion	PMID:18319262^[114] PMID:17823127^[111]	IDA: Inferred from Direct Assay		C		required field missing
GOA	Human	HSPD1 (P10809)		GO:0005829	cytosol	PMID:18319262^[114] PMID:17823127^[111]	IDA: Inferred from Direct Assay		C		required field missing
GOA	Human	HSPD1 (P10809)									required field missing
FlyBase	Drosophila	Hsp60 FBgn0015245		GO:0005811	lipid particle	PMID:16543254^[115]	IDA: Inferred from Direct Assay		C	HTP proteomics - is this real?	complete
FlyBase	Drosophila	Hsp60 FBgn0015245		GO:0005811	lipid particle	PMID:16979555^[116]	IDA: Inferred from Direct Assay		C	HTP proteomics - is this real?	complete
GOA	Human	HSPD1 (P10809)		GO:0002039	p53 binding	PMID:18086682^[110]	IPI: Inferred from Physical Interaction	P04637	F		required field missing
FlyBase	Drosophila	Hsp60 FBgn0015245	NOT	GO:0009408	response to heat	PMID:10341239^[117]	IDA: Inferred from Direct Assay		P		complete
GOA	Human	HSPD1 (P10809)		GO:0043498	cell surface binding	PMID:11807771^[118]	IDA: Inferred from Direct Assay		F		required field missing
FlyBase	Drosophila	Hsp60 FBgn0015245		GO:0031305	integral to mitochondrial inner membrane	PMID:18549261^[119]	IDA: Inferred from Direct Assay		C		complete
GOA	Human	HSPD1 (P10809)		GO:0009986	cell surface	PMID:9243807^[120] PMID:11807771^[118] PMID:10663613^[121]	IDA: Inferred from Direct Assay		C		required field missing
GOA	Human	HSPD1 (P10809)		GO:0042026	protein refolding	PMID:11050098^[122]	IDA: Inferred from Direct Assay		P		required field missing
GOA	Human	HSPD1 (P10809)		GO:0051082	unfolded protein binding	PMID:11050098^[122]	IC: Inferred by Curator	GO:0042026	F		complete
GOA	Human	HSPD1 (P10809)		GO:0043066	negative regulation of apoptosis	PMID:17823127^[111] PMID:18086682^[110]	IMP: Inferred from Mutant Phenotype		P		required field missing
GOA	Human	HSPD1 (P10809)		GO:0043066	negative regulation of apoptosis	PMID:17823127^[111] PMID:18086682^[110]	IMP: Inferred from Mutant Phenotype		P		required field missing
GOA	Human	HSPD1 (P10809)		GO:0005739	mitochondrion	PMID:18319262^[114] PMID:17823127^[111]	IDA: Inferred from Direct Assay		C		required field missing
GOA	Human	HSPD1 (P10809)		GO:0005829	cytosol	PMID:18319262^[114] PMID:17823127^[111]	IDA: Inferred from Direct Assay		C		required field missing
GOA	Human	HSPD1 (P10809)		GO:0006986	response to unfolded protein	PMID:11050098^[122]	IDA: Inferred from Direct Assay		P		complete
FlyBase	Drosophila	Hsp60 FBgn0015245		GO:0007005	mitochondrion organization	PMID:18549261^[119]	IMP: Inferred from Mutant Phenotype		P		complete
SGD	S. cerevisiae	HSP60		GO:0003688	DNA replication origin binding	PMID:10869431^[77]	IDA: Inferred from Direct Assay		F		complete
SGD	S. cerevisiae	HSP60		GO:0003697	single-stranded DNA binding	PMID:10869431^[77]	IDA: Inferred from Direct Assay		F		complete
edit table

HSPD1 notes

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Dicty hspA

Pascale
In PMID 12952082, they show that Dicty hspA is *not* up-regulated by heat shock. Do we put a NOT annotation?
In PMID 12952082, the use a helix prediction software to assess that the gene is likely mitochondrial; how to annotate that ? ISS? ISM?
- Debby: I would use ISM.

ZFIN hspd1

Doug
In PMID 12416612, they show that expression of zebrafish hspd1, unlike dicty and worm, IS upregulated by heat shock. Should we make an annotation to 'response to heat' by IDA? Worm has a similar "NOT" annotation using IEP.

GO terms

Victoria

GO has 'chaperone activity' as a synonym for 'unfolded protein binding' but not for 'misfolded protein binding' or otherwise damaged/modified/abnormal which the chaperone(s) recognize as well. I had an annotation for 'unfolded protein binding' because I was looking for chaperone activity and the misfolded term was not pulled out. I removed the annotation and replaced it with the 'misfolded' term which is closer to an abnormal state than unfolded; in my case the proteins recognized by the chaperone were modified proteins.

References

Debby

I took commas out of some of the reference entries and put the PMID's on separate lines in order to reduce the width of this column.

Arabidopsis Hsp60

Tanya
- Hsp60 is usually mitochondrial (at 26 and 37 F) but is released to cytosol upon drastic heat shock (50 F). Cells assayed were from a cell culture derived from 14 day old seedlings.
- In PMID: 14730085, the expression of all three genes (Arabidopsis Hsp60-3a, Hsp60-3b, and Hsp6-3c) is affected by rotenone treatment. Rotenone is a mitochondrial electron transport chain inhibitor. Expression levels of all three genes increase about 2 fold with respect to no treatment. The only assay for this is a microarray experiment. There is no follow-up assay of a different sort. I've chosen not to annotate this.
- We also have some TAS annotations (that trace to textbooks) that I haven't entered in the table that I'm eager to get rid of and replace with something better via ISS, if possible.

UK curators

HSPD1 When to annotate to apoptosis? (UK curators)

HSPD1 – should protein stabilization be under ‘regulation of gene expression’ – should be regulation of protein expression.?? There is a qualifier in the definition – but this seems quite artificial. Could the GO term name change, so that protein changes do not appear so much as an after thought? (RL)

e.g. HSPD1 – only a TAS that it is a chaperone, therefore while you could assume it has a protein stability function – currently thinking you could only annotate to ‘regulation of gene expression’.

HSPD1 – is internalized by dendritic cells and then presented to T cells to raise an immune response. – where to annotate the CC term? Should we annotate to cell surface binding and receptor binding? have cell surface receptor binding?? Suggest a child term for eukaryotic cell surface binding.

HSPD1 is thought of as a chaperone protein however only TAS annotations available in many papers; for something that binds to it, can we use the ‘chaperone protein binding’ GO term? (RF)

HSPD1 psychological stress –the level of HSPD1 in plasma in patients, increases when patients are under emotional stress,  do we want  to annotate to ‘response to psychological stress’ term, and therefore what term/where should it go?ant to annotate to response to stress? (RL)

HSPD1 is located by high-throughput experiments as being in lipid particles in serum. Whereas found in mitochondria by in-depth papers. Would this be another reason supporting the addition of the HTP tags to evidence codes, as was concern that function/localization can sometimes be skewed due to HTP data (ST)

References

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[PMID:821948-1] 1.0 ^1.1 ^1.2 ^1.3 ^1.4 ^1.5 Yim, JJ & Brown, GM (1976) Characteristics of guanosine triphosphate cyclohydrolase I purified from Escherichia coli. J. Biol. Chem. 251 5087-94 PubMed GONUTS page

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[PMID:11284739-4] 4.0 ^4.1 ^4.2 Golderer, G et al. (2001) GTP cyclohydrolase I mRNA: novel splice variants in the slime mould Physarum polycephalum and in human monocytes (THP-1) indicate conservation of mRNA processing. Biochem. J. 355 499-507 PubMed GONUTS page

[PMID:7524491-5] 5.0 ^5.1 Gütlich, M et al. (1994) Molecular characterization of HPH-1: a mouse mutant deficient in GTP cyclohydrolase I activity. Biochem. Biophys. Res. Commun. 203 1675-81 PubMed GONUTS page

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RefGenome Electronic Jamboree 2008-07 GCH1 and HSPD1

Contents

Participants

GCH1

GCH1 notes

HSPD1

HSPD1 notes

Dicty hspA

ZFIN hspd1

GO terms

References

Arabidopsis Hsp60

UK curators

References

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