# Group: paint - Dataset: paint_ecocyc

## SUMMARY

This report generated on 2024-12-19

  * Associations: 6305
  * Lines in file (incl headers): 6316
  * Lines skipped: 5
## Header From Original Association File

> !gaf-version: 2.2  
> !Created on Thu Nov 21 14:20:13 2024.  
> !generated-by: PANTHER  
> !date-generated: 2024-11-21  
> !PANTHER version: v.19.0.  
> !GO version: 2024-11-03.  

## Contents

[gorule-0000002](#gorule-0000002)

[gorule-0000005](#gorule-0000005)

[gorule-0000006](#gorule-0000006)

[gorule-0000007](#gorule-0000007)

[gorule-0000008](#gorule-0000008)

[gorule-0000011](#gorule-0000011)

[gorule-0000013](#gorule-0000013)

[gorule-0000015](#gorule-0000015)

[gorule-0000016](#gorule-0000016)

[gorule-0000017](#gorule-0000017)

[gorule-0000018](#gorule-0000018)

[gorule-0000020](#gorule-0000020)

[gorule-0000022](#gorule-0000022)

[gorule-0000028](#gorule-0000028)

[gorule-0000029](#gorule-0000029)

[gorule-0000030](#gorule-0000030)

[gorule-0000037](#gorule-0000037)

[gorule-0000039](#gorule-0000039)

[gorule-0000042](#gorule-0000042)

[gorule-0000043](#gorule-0000043)

[gorule-0000046](#gorule-0000046)

[gorule-0000050](#gorule-0000050)

[gorule-0000055](#gorule-0000055)

[gorule-0000058](#gorule-0000058)

[gorule-0000061](#gorule-0000061)

[gorule-0000063](#gorule-0000063)

[gorule-0000064](#gorule-0000064)

[gorule-0000065](#gorule-0000065)

[other](#other)


## MESSAGES

### gorule-0000002

No 'NOT' annotations to binding ; GO:0005488 or 'protein binding ; GO:0005515'

* total: 0
### gorule-0000005

IEA, ISS, ISO, ISM, ISA, IBA, RCA annotations ae not allowed for direct annotations to to 'protein binding ; GO:0005515 or GO:0005488 binding''

* total: 0
### gorule-0000006

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

* total: 0
### gorule-0000007

IPI should not be used with GO:0003824 catalytic activity or descendents

* total: 0
### gorule-0000008

No annotations should be made to uninformative high level terms

* total: 0
### gorule-0000011

ND evidence code should be to root nodes only, and no terms other than root nodes can have the evidence code ND

* total: 0
### gorule-0000013

Taxon-appropriate annotation check

* total: 0
### gorule-0000015

Dual species taxon check

* total: 0
### gorule-0000016

With/From: IC annotations require a With/From GO ID

* total: 0
### gorule-0000017

IDA annotations must not have a With/From entry

* total: 0
### gorule-0000018

IPI annotations require a With/From entry

* total: 0
### gorule-0000020

Automatic repair of annotations to merged or obsoleted terms

* total: 9
#### Messages
* ERROR - Obsolete class with no replacement: Violates GORULE:0000020 (GO:0006288) -- `UniProtKB	P15042	ligA	involved_in	GO:0006288	GO_REF:0000033	IBA	PANTHER:PTN000121726|UniProtKB:P15042	P	DNA ligase	UniProtKB:P15042|PTN000121749	protein	taxon:83333	20170228	GO_Central		
`
* ERROR - Obsolete class with no replacement: Violates GORULE:0000020 (GO:0006880) -- `UniProtKB	P0ABD3	bfr	involved_in	GO:0006880	GO_REF:0000033	IBA	PANTHER:PTN001250766|UniProtKB:Q9HWF9|UniProtKB:Q9HY79	P	Bacterioferritin	UniProtKB:P0ABD3|PTN000767923	protein	taxon:83333	20240731	GO_Central		
`
* ERROR - Obsolete class with no replacement: Violates GORULE:0000020 (GO:0032508) -- `UniProtKB	P15043	recQ	involved_in	GO:0032508	GO_REF:0000033	IBA	PANTHER:PTN000344873|UniProtKB:Q9I920|UniProtKB:Q8I2W7|FB:FBgn0040290|UniProtKB:O94761|UniProtKB:Q8ILG5|SGD:S000004802|UniProtKB:P54132|TAIR:locus:2197555|TAIR:locus:2180255|FB:FBgn0002906|UniProtKB:Q14191|TAIR:locus:2127998	P	ATP-dependent DNA helicase RecQ	UniProtKB:P15043|PTN001009465	protein	taxon:83333	20230110	GO_Central		
`
* ERROR - Obsolete class with no replacement: Violates GORULE:0000020 (GO:0032508) -- `UniProtKB	P27296	dinG	involved_in	GO:0032508	GO_REF:0000033	IBA	PANTHER:PTN002607492|UniProtKB:P27296	P	ATP-dependent DNA helicase DinG	UniProtKB:P27296|PTN000158459	protein	taxon:83333	20200929	GO_Central		
`
* ERROR - Obsolete class with no replacement: Violates GORULE:0000020 (GO:0051103) -- `UniProtKB	P25772	ligB	involved_in	GO:0051103	GO_REF:0000033	IBA	PANTHER:PTN005357116|UniProtKB:P25772	P	DNA ligase B	UniProtKB:P25772|PTN000873992	protein	taxon:83333	20240827	GO_Central		
`
* WARNING - Obsolete class: Violates GORULE:0000020, but was repaired (GO:0006268) -- `UniProtKB	P0AGE0	ssb	involved_in	GO:0006268	GO_REF:0000033	IBA	PANTHER:PTN000033807|FB:FBgn0010438|UniProtKB:Q04837	P	Single-stranded DNA-binding protein	UniProtKB:P0AGE0|PTN000033896	protein	taxon:83333	20240820	GO_Central		
`
* WARNING - Obsolete class: Violates GORULE:0000020, but was repaired (GO:0006268) -- `UniProtKB	P17888	priA	involved_in	GO:0006268	GO_REF:0000033	IBA	PANTHER:PTN000778679|UniProtKB:P17888	P	Primosomal protein N'	UniProtKB:P17888|PTN001255067	protein	taxon:83333	20170228	GO_Central		
`
* WARNING - Obsolete class: Violates GORULE:0000020, but was repaired (GO:0006268) -- `UniProtKB	P0ACB0	dnaB	involved_in	GO:0006268	GO_REF:0000033	IBA	PANTHER:PTN001248911|UniProtKB:P0ACB0	P	Replicative DNA helicase	UniProtKB:P0ACB0|PTN001248936	protein	taxon:83333	20170228	GO_Central		
`
* WARNING - Obsolete class: Violates GORULE:0000020, but was repaired (GO:0046537) -- `UniProtKB	P37689	gpmI	enables	GO:0046537	GO_REF:0000033	IBA	PANTHER:PTN000781248|TAIR:locus:2024357|TAIR:locus:2077793|WB:WBGene00019001|UniProtKB:P37689|UniProtKB:P39773	F	2,3-bisphosphoglycerate-independent phosphoglycerate mutase	UniProtKB:P37689|PTN001293426	protein	taxon:83333	20210905	GO_Central		
`
### gorule-0000022

Check for, and filter, annotations made to retracted publications

* total: 0
### gorule-0000028

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

* total: 0
### gorule-0000029

IEAs should be less than one year old.

* total: 0
### gorule-0000030

Obsolete GO_REFs are not allowed

* total: 0
### gorule-0000037

IBA annotations should ONLY be assigned_by GO_Central and have GO_REF:0000033 as a reference

* total: 0
### gorule-0000039

Protein complexes can not be annotated to GO:0032991 (protein-containing complex) or its descendants

* total: 0
### gorule-0000042

Qualifier: IKR evidence code requires a NOT qualifier

* total: 0
### gorule-0000043

Check for valid combination of evidence code and GO_REF

* total: 0
### 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: 0
### gorule-0000050

Annotations to ISS, ISA and ISO should not be self-referential

* total: 0
### gorule-0000055

References should have only one ID per ID space

* total: 0
### gorule-0000058

Object extensions should conform to the extensions-patterns.yaml file in metadata

* total: 0
### gorule-0000061

Allowed gene product to term relations (gp2term)

* total: 0
### gorule-0000063

Annotations using ISS/ISA/ISO evidence should refer to a gene product (in the 'with' column)

* total: 0
### gorule-0000064

TreeGrafter IEAs should be filtered for GO reference species

* total: 0
### gorule-0000065

Annotations to term that are candidates for obsoletion should be removed

* total: 0
### other

* total: 0