Q7NUH2

Existing Annotations Review

GO Term	Evidence	Action	Reason
GO:0003677 DNA binding	IEA GO_REF:0000104	ACCEPT	Summary: IEA annotation from UniRule transfer based on shared sequence features (UniRule UR000415606). CV_2726 contains a full-length HTH marR-type domain spanning the entire 147-residue protein, which is the hallmark DNA-binding domain of MarR family transcriptional regulators. The winged helix-turn-helix fold in MarR proteins contacts both the major and minor groove of palindromic DNA operators. This annotation is well supported by domain architecture and family-wide structural and biochemical evidence. Reason: DNA binding is the defining activity of MarR family proteins. The complete HTH marR-type domain (IPR000835) spanning the full protein provides strong evidence for DNA-binding capability.
GO:0003700 DNA-binding transcription factor activity	IEA GO_REF:0000002	ACCEPT	Summary: IEA annotation from InterPro2GO mapping based on IPR000835 (HTH_MarR-typ) and IPR039422 (MarR/SlyA-like). MarR family proteins are well-established transcription factors that regulate gene expression by binding DNA operator sequences and modulating transcription of target genes. This is the core molecular function of the MarR family and the annotation is strongly supported by the conserved domain architecture. Reason: DNA-binding transcription factor activity is the primary molecular function of MarR family proteins. The InterPro domain assignments IPR000835 and IPR039422 strongly support this annotation. This represents the most informative molecular function annotation for this protein.
GO:0006351 DNA-templated transcription	IEA GO_REF:0000104	MARK AS OVER ANNOTATED	Summary: IEA annotation from UniRule transfer. As a MarR family transcription factor, CV_2726 is directly involved in DNA-templated transcription by binding DNA operator regions and modulating RNA polymerase access. However, GO:0006351 (DNA-templated transcription) describes the core transcription process itself, while MarR proteins are regulators of transcription rather than components of the basal transcription machinery. GO:0006355 (regulation of DNA-templated transcription) is already annotated and is the more appropriate biological process term for a transcriptional regulator. Reason: MarR family proteins regulate transcription but are not part of the basal transcription machinery. Annotating to GO:0006351 (DNA-templated transcription) is an over-annotation for a transcriptional regulator. The more appropriate annotation GO:0006355 (regulation of DNA-templated transcription) is already present.
GO:0006355 regulation of DNA-templated transcription	IEA GO_REF:0000120	ACCEPT	Summary: IEA annotation from combined automated methods (ARBA, InterPro, PANTHER, UniRule). Regulation of DNA-templated transcription is the defining biological process of MarR family proteins. These regulators bind palindromic operator sequences near promoters to repress or activate transcription of target genes, with DNA-binding affinity modulated by small molecule ligands or oxidative signals. This is well supported by the MarR domain architecture and extensive family-wide evidence. Reason: Regulation of transcription is the core biological process for MarR family transcriptional regulators. This annotation is well supported by multiple independent electronic inference methods and is consistent with the conserved domain structure and family-wide functional characterization.
GO:0006950 response to stress	IEA GO_REF:0000118	UNDECIDED	Summary: IEA annotation from TreeGrafter phylogenetic inference (PANTHER PTN002109393). Many MarR family regulators are involved in stress responses, including oxidative stress, antibiotic resistance, and environmental adaptation. In C. violaceum, the experimentally characterized MarR paralog OhrR regulates organic hydroperoxide defense and virulence-related traits. However, specific stress response roles for CV_2726 have not been experimentally determined, and not all MarR family members regulate stress-responsive genes. Some regulate metabolic or biosynthetic pathways. The TreeGrafter phylogenetic placement suggests stress response involvement for this particular MarR subfamily. Reason: While many MarR family regulators are involved in stress responses, this is not universal for the family. Without experimental evidence or knowledge of the specific regulon controlled by CV_2726, it is uncertain whether this particular MarR protein regulates stress-responsive genes. The TreeGrafter phylogenetic inference provides some support, but the breadth of MarR family functions (stress, metabolism, virulence, biosynthesis) makes this annotation uncertain for this specific uncharacterized member.

GO Term

Evidence

Action

Reason

IEA
GO_REF:0000104

Summary: IEA annotation from UniRule transfer based on shared sequence features (UniRule UR000415606). CV_2726 contains a full-length HTH marR-type domain spanning the entire 147-residue protein, which is the hallmark DNA-binding domain of MarR family transcriptional regulators. The winged helix-turn-helix fold in MarR proteins contacts both the major and minor groove of palindromic DNA operators. This annotation is well supported by domain architecture and family-wide structural and biochemical evidence.

Reason: DNA binding is the defining activity of MarR family proteins. The complete HTH marR-type domain (IPR000835) spanning the full protein provides strong evidence for DNA-binding capability.

GO:0003700 DNA-binding transcription factor activity

IEA
GO_REF:0000002

Summary: IEA annotation from InterPro2GO mapping based on IPR000835 (HTH_MarR-typ) and IPR039422 (MarR/SlyA-like). MarR family proteins are well-established transcription factors that regulate gene expression by binding DNA operator sequences and modulating transcription of target genes. This is the core molecular function of the MarR family and the annotation is strongly supported by the conserved domain architecture.

Reason: DNA-binding transcription factor activity is the primary molecular function of MarR family proteins. The InterPro domain assignments IPR000835 and IPR039422 strongly support this annotation. This represents the most informative molecular function annotation for this protein.

GO:0006351 DNA-templated transcription

IEA
GO_REF:0000104

MARK AS OVER ANNOTATED

Summary: IEA annotation from UniRule transfer. As a MarR family transcription factor, CV_2726 is directly involved in DNA-templated transcription by binding DNA operator regions and modulating RNA polymerase access. However, GO:0006351 (DNA-templated transcription) describes the core transcription process itself, while MarR proteins are regulators of transcription rather than components of the basal transcription machinery. GO:0006355 (regulation of DNA-templated transcription) is already annotated and is the more appropriate biological process term for a transcriptional regulator.

Reason: MarR family proteins regulate transcription but are not part of the basal transcription machinery. Annotating to GO:0006351 (DNA-templated transcription) is an over-annotation for a transcriptional regulator. The more appropriate annotation GO:0006355 (regulation of DNA-templated transcription) is already present.

GO:0006355 regulation of DNA-templated transcription

IEA
GO_REF:0000120

Summary: IEA annotation from combined automated methods (ARBA, InterPro, PANTHER, UniRule). Regulation of DNA-templated transcription is the defining biological process of MarR family proteins. These regulators bind palindromic operator sequences near promoters to repress or activate transcription of target genes, with DNA-binding affinity modulated by small molecule ligands or oxidative signals. This is well supported by the MarR domain architecture and extensive family-wide evidence.

Reason: Regulation of transcription is the core biological process for MarR family transcriptional regulators. This annotation is well supported by multiple independent electronic inference methods and is consistent with the conserved domain structure and family-wide functional characterization.

GO:0006950 response to stress

IEA
GO_REF:0000118

UNDECIDED

Summary: IEA annotation from TreeGrafter phylogenetic inference (PANTHER PTN002109393). Many MarR family regulators are involved in stress responses, including oxidative stress, antibiotic resistance, and environmental adaptation. In C. violaceum, the experimentally characterized MarR paralog OhrR regulates organic hydroperoxide defense and virulence-related traits. However, specific stress response roles for CV_2726 have not been experimentally determined, and not all MarR family members regulate stress-responsive genes. Some regulate metabolic or biosynthetic pathways. The TreeGrafter phylogenetic placement suggests stress response involvement for this particular MarR subfamily.

Reason: While many MarR family regulators are involved in stress responses, this is not universal for the family. Without experimental evidence or knowledge of the specific regulon controlled by CV_2726, it is uncertain whether this particular MarR protein regulates stress-responsive genes. The TreeGrafter phylogenetic inference provides some support, but the breadth of MarR family functions (stress, metabolism, virulence, biosynthesis) makes this annotation uncertain for this specific uncharacterized member.

Core Functions

MarR family DNA-binding transcription factor that regulates gene expression by binding palindromic operator DNA sequences near target gene promoters. Functions as a homodimer using the winged helix-turn-helix domain for sequence-specific DNA recognition. Likely acts primarily as a transcriptional repressor whose DNA-binding affinity is modulated by small molecule ligands or oxidative signals, leading to derepression of target genes under specific environmental conditions. The specific regulon and inducing signals for CV_2726 have not been experimentally determined.

Molecular Function:

DNA-binding transcription factor activity

Directly Involved In:

regulation of DNA-templated transcription

External Prediction Reviews

These computational predictions are reviewed separately from the GOA annotation set used for this review. The assessments below are from this project and do not constitute official GO annotations or endorsement by GO/UniProt. They are not included in the existing annotation review above.

ProtNLM External predictions

View prediction review YAML · Q7NUH2-protnlm-predictions-review.yaml · Review status: COMPLETE

ProtNLM2 made no predictions (GO or subcellular location) for HTH marR-type domain-containing protein. The model returned only a protein name.

Source documents: genes/CHRVO/Q7NUH2/Q7NUH2-uniprot.txt · genes/CHRVO/Q7NUH2/Q7NUH2-goa.tsv

No GO/EC predictions in the reviewed source.

Gene Description

Existing Annotations Review

Core Functions

References

External Prediction Reviews

ProtNLM External predictions

Deep Research

Falcon

📄 View Raw YAML