# GORULE violations assigned by DisProt

## SUMMARY

This report generated on 2024-12-19

## Contents

[gorule-0000006](#gorule-0000006)[IEP and HEP usage is restricted to terms from the Biological Process ontology, except when assigned by GOC]{}

[gorule-0000020](#gorule-0000020)[Automatic repair of annotations to merged or obsoleted terms]{}

[gorule-0000027](#gorule-0000027)[Each identifier in GAF is valid]{}

[gorule-0000028](#gorule-0000028)[GO aspect should match the term's namespace; otherwise it is repaired to the appropriate aspect]{}

[gorule-0000046](#gorule-0000046)[The ‘with’ field (GAF column 8) must be the same as the gene product (GAF column 2) when annotating to ‘self-binding’ terms.]{}

[gorule-0000061](#gorule-0000061)[Allowed gene product to term relations (gp2term)]{}

## MESSAGES

###gorule-0000006

IEP and HEP usage is restricted to terms from the Biological Process ontology, except when assigned by GOC

* total: 11
#### Messages
* ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`MGI	MGI:97769	Prnp	enables	GO:0140677	PMID:28945221	IEP		F	Major prion protein		protein	taxon:10090	20220228	DisProt		
`
* ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB	O14672	ADAM10	enables	GO:0042803	PMID:25349418	IEP		F	Disintegrin and metalloproteinase domain-containing protein 10	ADAM10|KUZ|MADM	protein	taxon:9606	20220228	DisProt	has_input(UniProtKB:O14672)	UniProtKB:O14672
`
* ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB	P01106	MYC	enables	GO:0140537	PMID:8755740	IEP		F	Myc proto-oncogene protein	MYC|BHLHE39	protein	taxon:9606	20220228	DisProt		UniProtKB:P01106
`
* ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB	P18564	ITGB6	enables	GO:0140677	PMID:11821050	IEP		F	Integrin beta-6	ITGB6	protein	taxon:9606	20220228	DisProt		UniProtKB:P18564
`
* ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB	P40337	VHL	enables	GO:0003714	PMID:11641274	IEP		F	von Hippel-Lindau disease tumor suppressor	VHL	protein	taxon:9606	20220228	DisProt		UniProtKB:P40337
`
* ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB	P46379	BAG6	enables	GO:0140677	PMID:25713138	IEP		F	Large proline-rich protein BAG6	BAG6|BAT3|G3	protein	taxon:9606	20220228	DisProt		UniProtKB:P46379
`
* ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB	Q06787	FMR1	enables	GO:0008143	PMID:10496225	IEP		F	Fragile X messenger ribonucleoprotein 1	FMR1	protein	taxon:9606	20220228	DisProt		UniProtKB:Q06787
`
* ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB	Q06787	FMR1	enables	GO:0008266	PMID:10496225	IEP		F	Fragile X messenger ribonucleoprotein 1	FMR1	protein	taxon:9606	20220228	DisProt		UniProtKB:Q06787
`
* ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB	Q06787	FMR1	enables	GO:0034046	PMID:10496225	IEP		F	Fragile X messenger ribonucleoprotein 1	FMR1	protein	taxon:9606	20220228	DisProt		UniProtKB:Q06787
`
* ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB	Q16236	NFE2L2	enables	GO:0031625	PMID:16888629	IEP		F	Nuclear factor erythroid 2-related factor 2	NFE2L2|NRF2	protein	taxon:9606	20220228	DisProt	has_input(UniProtKB:Q14145)	UniProtKB:Q16236
`
* ERROR - Violates GO Rule:GORULE:0000006: IEP and HEP usage is restricted to terms from the Biological Process ontology--`UniProtKB	P06836	GAP43	enables	GO:0008289	PMID:1826685	IEP		F	Neuromodulin	GAP43	protein	taxon:9913	20220228	DisProt		UniProtKB:P06836
`

###gorule-0000020

Automatic repair of annotations to merged or obsoleted terms

* total: 6
#### Messages
* ERROR - Obsolete class with no replacement:Violates GORULE:0000020--`UniProtKB	Q8TEA8	DTD1	involved_in	GO:0032508	PMID:17264083	EXP		P	D-aminoacyl-tRNA deacylase 1	DTD1|C20orf88|DUEB|HARS2	protein	taxon:9606	20220228	DisProt		UniProtKB:Q8TEA8
`
* ERROR - Obsolete class with no replacement:Violates GORULE:0000020--`UniProtKB	P53999	SUB1	involved_in	GO:1905463	PMID:16605275	IDA		P	Activated RNA polymerase II transcriptional coactivator p15	SUB1|PC4|RPO2TC1	protein	taxon:9606	20220228	DisProt		UniProtKB:P53999
`
* WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`UniProtKB	Q14457	BECN1	involved_in	GO:0039521	PMID:18797192	IDA		P	Beclin-1	BECN1|GT197	protein	taxon:9606	20220228	DisProt		UniProtKB:Q14457
`
* WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`UniProtKB	P04554	PRM2	involved_in	GO:0051238	PMID:2243113	EXP		P	Protamine-2	PRM2	protein	taxon:9606	20220228	DisProt		UniProtKB:P04554
`
* WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`UniProtKB	P80303	NUCB2	involved_in	GO:0051238	PMID:32184136	EXP		P	Nucleobindin-2	NUCB2|NEFA	protein	taxon:9606	20220228	DisProt		UniProtKB:P80303
`
* WARNING - Obsolete class:Violates GORULE:0000020, but was repaired--`UniProtKB	Q02297	NRG1	involved_in	GO:0051238	PMID:25944317	EXP		P	Pro-neuregulin-1, membrane-bound isoform	NRG1|GGF|HGL|HRGA|NDF|SMDF	protein	taxon:9606	20220228	DisProt		UniProtKB:Q02297-10
`

###gorule-0000027

Each identifier in GAF is valid

* total: 16
#### Messages
* WARNING - Invalid identifier:GORULE:0000027: ChEBI not found in list of database names in dbxrefs--`UniProtKB	O60568	PLOD3	enables	GO:0036094	PMID:30089812	EXP		F	Multifunctional procollagen lysine hydroxylase and glycosyltransferase LH3	PLOD3	protein	taxon:9606	20220228	DisProt	has_input(ChEBI:17659)	UniProtKB:O60568
`
* WARNING - Invalid identifier:GORULE:0000027: ChEBI not found in list of database names in dbxrefs--`UniProtKB	O60568	PLOD3	enables	GO:0046872	PMID:30089812	EXP		F	Multifunctional procollagen lysine hydroxylase and glycosyltransferase LH3	PLOD3	protein	taxon:9606	20220228	DisProt	has_input(ChEBI:29033),has_input(ChEBI:29035)	UniProtKB:O60568
`
* WARNING - Invalid identifier:GORULE:0000027: ChEBI not found in list of database names in dbxrefs--`MGI	MGI:97769	Prnp	enables	GO:0046872	PMID:11438695	EXP		F	Major prion protein		protein	taxon:10090	20220228	DisProt	has_input(ChEBI:29036),has_input(ChEBI:49786),has_input(ChEBI:29105),has_input(ChEBI:29035)	
`
* WARNING - Invalid identifier:GORULE:0000027: ChEBI not found in list of database names in dbxrefs--`UniProtKB	O60568	PLOD3	enables	GO:0046872	PMID:30089812	EXP		F	Multifunctional procollagen lysine hydroxylase and glycosyltransferase LH3	PLOD3	protein	taxon:9606	20220228	DisProt	has_input(ChEBI:29033),has_input(ChEBI:29035)	UniProtKB:O60568
`
* WARNING - Invalid identifier:GORULE:0000027: ChEBI not found in list of database names in dbxrefs--`MGI	MGI:97769	Prnp	enables	GO:0046872	PMID:11438695	EXP		F	Major prion protein		protein	taxon:10090	20220228	DisProt	has_input(ChEBI:29036),has_input(ChEBI:49786),has_input(ChEBI:29105),has_input(ChEBI:29035)	
`
* WARNING - Invalid identifier:GORULE:0000027: ChEBI not found in list of database names in dbxrefs--`MGI	MGI:97769	Prnp	enables	GO:0046872	PMID:11438695	IDA		F	Major prion protein		protein	taxon:10090	20220228	DisProt	has_input(ChEBI:29036),has_input(ChEBI:49787)	
`
* WARNING - Invalid identifier:GORULE:0000027: ChEBI not found in list of database names in dbxrefs--`MGI	MGI:97769	Prnp	enables	GO:0046872	PMID:11438695	EXP		F	Major prion protein		protein	taxon:10090	20220228	DisProt	has_input(ChEBI:29036),has_input(ChEBI:49786),has_input(ChEBI:29105),has_input(ChEBI:29035)	
`
* WARNING - Invalid identifier:GORULE:0000027: ChEBI not found in list of database names in dbxrefs--`UniProtKB	A0A1D5PXA5	TRPV4	enables	GO:0008289	PMID:37443299	IPI	ChEBI:34080,ChEBI:73001	F	Transient receptor potential cation channel subfamily V member 4	TRPV4	protein	taxon:9031	20220228	DisProt		UniProtKB:A0A1D5PXA5
`
* WARNING - Invalid identifier:GORULE:0000027: ChEBI not found in list of database names in dbxrefs--`MGI	MGI:97769	Prnp	enables	GO:0046872	PMID:11438695	EXP		F	Major prion protein		protein	taxon:10090	20220228	DisProt	has_input(ChEBI:29036),has_input(ChEBI:49786),has_input(ChEBI:29105),has_input(ChEBI:29035)	
`
* WARNING - Invalid identifier:GORULE:0000027: ChEBI not found in list of database names in dbxrefs--`MGI	MGI:97769	Prnp	enables	GO:0046872	PMID:11438695	IDA		F	Major prion protein		protein	taxon:10090	20220228	DisProt	has_input(ChEBI:29036),has_input(ChEBI:49787)	
`
* WARNING - Invalid identifier:GORULE:0000027: ChEBI not found in list of database names in dbxrefs--`UniProtKB	P10912	GHR	enables	GO:0008289	PMID:25846210	EXP		F	Growth hormone receptor	GHR	protein	taxon:9606	20220228	DisProt	has_input(ChEBI:74909),has_input(ChEBI:73001)	UniProtKB:P10912
`
* WARNING - Invalid identifier:GORULE:0000027: ChEBI not found in list of database names in dbxrefs--`UniProtKB	A0A1D5PXA5	TRPV4	enables	GO:0008289	PMID:37443299	IPI	ChEBI:34080,ChEBI:73001	F	Transient receptor potential cation channel subfamily V member 4	TRPV4	protein	taxon:9031	20220228	DisProt		UniProtKB:A0A1D5PXA5
`
* WARNING - Invalid identifier:GORULE:0000027: ChEBI not found in list of database names in dbxrefs--`UniProtKB	P10912	GHR	enables	GO:0008289	PMID:25846210	EXP		F	Growth hormone receptor	GHR	protein	taxon:9606	20220228	DisProt	has_input(ChEBI:74909),has_input(ChEBI:73001)	UniProtKB:P10912
`
* WARNING - Invalid identifier:GORULE:0000027: ChEBI not found in list of database names in dbxrefs--`UniProtKB	O00499	BIN1	enables	GO:0008289	PMID:18658220	EXP		F	Myc box-dependent-interacting protein 1	BIN1|AMPHL	protein	taxon:9606	20220228	DisProt	has_input(ChEBI:78018)	UniProtKB:O00499
`
* WARNING - Invalid identifier:GORULE:0000027: ChEBI not found in list of database names in dbxrefs--`UniProtKB	P01730	CD4	enables	GO:0008289	PMID:19781520	EXP		F	T-cell surface glycoprotein CD4	CD4	protein	taxon:9606	20220228	DisProt	has_input(ChEBI:78018)	UniProtKB:P01730
`
* WARNING - Invalid identifier:GORULE:0000027: ChEBI not found in list of database names in dbxrefs--`UniProtKB	P05455	SSB	enables	GO:0008266	PMID:12842046	IPI	ChEBI:8758	F	Lupus La protein	SSB	protein	taxon:9606	20220228	DisProt		UniProtKB:P05455
`

###gorule-0000028

GO aspect should match the term's namespace; otherwise it is repaired to the appropriate aspect

* total: 3
#### Messages
* WARNING - Violates GO Rule:GORULE:0000028: Found violation of: `Aspect can only be one of C, P, F` but was repaired--`UniProtKB	P04554	PRM2	involved_in	GO:0051238	PMID:2243113	EXP		P	Protamine-2	PRM2	protein	taxon:9606	20220228	DisProt		UniProtKB:P04554
`
* WARNING - Violates GO Rule:GORULE:0000028: Found violation of: `Aspect can only be one of C, P, F` but was repaired--`UniProtKB	P80303	NUCB2	involved_in	GO:0051238	PMID:32184136	EXP		P	Nucleobindin-2	NUCB2|NEFA	protein	taxon:9606	20220228	DisProt		UniProtKB:P80303
`
* WARNING - Violates GO Rule:GORULE:0000028: Found violation of: `Aspect can only be one of C, P, F` but was repaired--`UniProtKB	Q02297	NRG1	involved_in	GO:0051238	PMID:25944317	EXP		P	Pro-neuregulin-1, membrane-bound isoform	NRG1|GGF|HGL|HRGA|NDF|SMDF	protein	taxon:9606	20220228	DisProt		UniProtKB:Q02297-10
`

###gorule-0000046

The ‘with’ field (GAF column 8) must be the same as the gene product (GAF column 2) when annotating to ‘self-binding’ terms.

* total: 4
#### Messages
* WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`MGI	MGI:107376	Msi1	enables	GO:0042803	PMID:32225071	IDA		F	RNA-binding protein Musashi homolog 1		protein	taxon:10090	20220228	DisProt	has_input(UniProtKB:Q61474)	
`
* WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`MGI	MGI:1925662	Cyren	involved_in	GO:0051260	PMID:30017584	EXP		P	Cell cycle regulator of non-homologous end joining		protein	taxon:10090	20220228	DisProt		
`
* WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`MGI	MGI:1929258	Kcnip3	enables	GO:0042803	PMID:15746104	EXP		F	Calsenilin		protein	taxon:10090	20220228	DisProt	has_input(UniProtKB:Q9QXT8)	
`
* WARNING - Violates GO Rule:GORULE:0000046: The ‘with’ field (GAF column 8) must be the same as the gene product (GAF colummn 2) when annotating to ‘self-binding’ terms--`UniProtKB	P80723	BASP1	involved_in	GO:0051260	PMID:32750402	IDA		P	Brain acid soluble protein 1	BASP1|NAP22	protein	taxon:9606	20220228	DisProt		UniProtKB:P80723
`

###gorule-0000061

Allowed gene product to term relations (gp2term)

* total: 8
#### Messages
* WARNING - Violates GO Rule:GORULE:0000061: Found violation of: `Only certain gene product to term relations are allowed for a given GO term` but was repaired: RO:0002432 should be one of BFO:0000050. Repaired to BFO:0000050--`MGI	MGI:1925662	Cyren	is_active_in	GO:1990391	PMID:30017584	IPI	UniProtKB:P23475,UniProtKB:P70388,UniProtKB:P97313,UniProtKB:Q3KNJ2,UniProtKB:Q61216,UniProtKB:Q62388,UniProtKB:Q8K0Y7,UniProtKB:Q9R207	C	Cell cycle regulator of non-homologous end joining		protein	taxon:10090	20220228	DisProt		
`
* WARNING - Violates GO Rule:GORULE:0000061: Found violation of: `Only certain gene product to term relations are allowed for a given GO term` but was repaired: RO:0002432 should be one of BFO:0000050. Repaired to BFO:0000050--`UniProtKB	O43561	LAT	is_active_in	GO:0036398	PMID:33080222	IDA		C	Linker for activation of T-cells family member 1	LAT	protein	taxon:9606	20220228	DisProt		UniProtKB:O43561-2
`
* WARNING - Violates GO Rule:GORULE:0000061: Found violation of: `Only certain gene product to term relations are allowed for a given GO term` but was repaired: RO:0002331 should be one of RO:0002326, RO:0002327. Repaired to RO:0002327--`UniProtKB	P04554	PRM2	involved_in	GO:0051238	PMID:2243113	EXP		P	Protamine-2	PRM2	protein	taxon:9606	20220228	DisProt		UniProtKB:P04554
`
* WARNING - Violates GO Rule:GORULE:0000061: Found violation of: `Only certain gene product to term relations are allowed for a given GO term` but was repaired: RO:0002432 should be one of BFO:0000050. Repaired to BFO:0000050--`UniProtKB	P38936	CDKN1A	is_active_in	GO:0070557	PMID:11463845	IPI	UniProtKB:P12004	C	Cyclin-dependent kinase inhibitor 1	CDKN1A|CAP20|CDKN1|CIP1|MDA6|PIC1|SDI1|WAF1	protein	taxon:9606	20220228	DisProt		UniProtKB:P38936
`
* WARNING - Violates GO Rule:GORULE:0000061: Found violation of: `Only certain gene product to term relations are allowed for a given GO term` but was repaired: RO:0002331 should be one of RO:0002326, RO:0002327. Repaired to RO:0002327--`UniProtKB	P80303	NUCB2	involved_in	GO:0051238	PMID:32184136	EXP		P	Nucleobindin-2	NUCB2|NEFA	protein	taxon:9606	20220228	DisProt		UniProtKB:P80303
`
* WARNING - Violates GO Rule:GORULE:0000061: Found violation of: `Only certain gene product to term relations are allowed for a given GO term` but was repaired: RO:0002331 should be one of RO:0002326, RO:0002327. Repaired to RO:0002327--`UniProtKB	Q02297	NRG1	involved_in	GO:0051238	PMID:25944317	EXP		P	Pro-neuregulin-1, membrane-bound isoform	NRG1|GGF|HGL|HRGA|NDF|SMDF	protein	taxon:9606	20220228	DisProt		UniProtKB:Q02297-10
`
* WARNING - Violates GO Rule:GORULE:0000061: Found violation of: `Only certain gene product to term relations are allowed for a given GO term` but was repaired: RO:0002432 should be one of BFO:0000050. Repaired to BFO:0000050--`UniProtKB	Q16236	NFE2L2	is_active_in	GO:0016592	PMID:32727915	EXP		C	Nuclear factor erythroid 2-related factor 2	NFE2L2|NRF2	protein	taxon:9606	20220228	DisProt		UniProtKB:Q16236
`
* WARNING - Violates GO Rule:GORULE:0000061: Found violation of: `Only certain gene product to term relations are allowed for a given GO term` but was repaired: RO:0002432 should be one of BFO:0000050. Repaired to BFO:0000050--`UniProtKB	Q92574	TSC1	is_active_in	GO:0033596	PMID:26893383	EXP		C	Hamartin	TSC1|KIAA0243|TSC	protein	taxon:9606	20220228	DisProt		UniProtKB:Q92574
`