All families / PF01784
PF01784: DUF34_NIF3
Duf34/NIF3 (NGG1p interacting factor 3)
- Curation status
- SEEDED
- Seed status
- KNOWN HISTORICAL DUF
- Characterization
- UNSCORED
Grounding
PF01784: Duf34/NIF3 (NGG1p interacting factor 3)
IPR002678: integrated entry for Duf34/NIF3 (NGG1p interacting factor 3)
Source description
This family includes the DUF34/metal-binding protein/NIF3 proteins, which are widely distributed across superkingdoms. They were previously annotated as GTP cyclohydrolase 1 type 2 [InterPro reference PUB00070175] and, recently, through a comprehensive literature review and integrative bioinformatics analyses it was revealed that annotations for these members were misleading as they were based on a single set of in vitro results examining the NIF3 homolog of Helicobacter pylori [InterPro reference PUB00070175]. Actually, they have varied phenotypes with the unifying functional role as metal-binding proteins [InterPro reference PUB00100327]. This entry contains several NIF3 (NGG1p interacting factor 3) protein homologues. NIF3 interacts with the yeast transcriptional coactivator NGG1p which is part of the ADA complex, the exact function of this interaction is unknown [InterPro reference PUB00002954,InterPro reference PUB00019927].
Evidence and references
- InterPro entry and its literature references. PUB identifiers are internal InterPro references, not PubMed identifiers. Unresolved citations link to the originating entry.
- Frozen description source: InterPro/Pfam API
Source descriptions and links are provenance, not independent functional validation.
Evidence counts: not scored.
Curated functional assertions
No curated functional assertions supplied.
Protein sequence examples
7 verified sequence examples. FASTA
| UniProt | Protein / organism | Sequence | Provenance |
|---|---|---|---|
| P0AFP6 | NIF3-like metal-binding protein YbgI Escherichia coli (strain K12) | 247 aa; version 1 UniProt 2026_03 | PTM REGISTRY MIRROR |
| P53081 | NGG1-interacting factor 3 Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | 288 aa; version 1 UniProt 2026_03 | UNIPROT FETCH |
| P54472 | NIF3-like metal-binding protein YqfO Bacillus subtilis (strain 168) | 373 aa; version 2 UniProt 2026_03 | UNIPROT FETCH |
| Q58337 | NIF3-like metal-binding protein HcgD Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) | 244 aa; version 2 UniProt 2026_03 | UNIPROT FETCH |
| Q9EQ80 | NIF3-like protein 1 Mus musculus | 376 aa; version 4 UniProt 2026_03 | UNIPROT FETCH |
| Q9GZT8 | NIF3-like protein 1 Homo sapiens | 377 aa; version 2 UniProt 2026_03 | UNIPROT FETCH |
| Q9NK57 | NIF3-like protein 1 Drosophila melanogaster | 292 aa; version 3 UniProt 2026_03 | UNIPROT FETCH |
Pfam membership is not functional evidence. Whole-protein sequences do not establish domain boundaries. A coverage gap here is not absence from UniProt.
Sequences and metadata: UniProt Consortium, CC BY 4.0.
Domain matches
No residue-level domain match evidence is available in this build. Structure and AlphaFold counters do not supply coordinates or establish function.
Snapshot counters
- proteins
- 18,574
- matches
- 18,654
- proteomes
- 16,807
- taxa
- 26,806
- structures
- 16
- alphafold models
- 12,676
- domain architectures
- 53
Classification basis
name matches duf
No scoring reasons supplied.
Related Mech records
| Family | Mech | Record | Protein | Link basis |
|---|---|---|---|---|
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | cell pole | P0AFP6 NIF3-like metal-binding protein YbgI | canonical example family classification |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | Nif3-like dinuclear metal center hexameric protein | P0AFP6 NIF3-like metal-binding protein YbgI | canonical example family classification |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | Nif3-like dinuclear metal center hexameric protein | P53081 NGG1-interacting factor 3 | canonical example family classification |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | Nif3-like dinuclear metal center hexameric protein | P54472 NIF3-like metal-binding protein YqfO | canonical example family classification |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | Nif3-like dinuclear metal center hexameric protein | Q58337 NIF3-like metal-binding protein HcgD | canonical example family classification |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | Nif3-like dinuclear metal center hexameric protein | Q9EQ80 NIF3-like protein 1 | canonical example family classification |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | Nif3-like dinuclear metal center hexameric protein | Q9GZT8 NIF3-like protein 1 | canonical example family classification |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | Nif3-like dinuclear metal center hexameric protein | Q9NK57 NIF3-like protein 1 | canonical example family classification |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | type 2 GTP cyclohydrolase I | P0AFP6 NIF3-like metal-binding protein YbgI | canonical example family classification |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | Duf34/NIF3 (NGG1p interacting factor 3) | P0AFP6 NIF3-like metal-binding protein YbgI | canonical example family classification |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | Duf34/NIF3 (NGG1p interacting factor 3) | Q9EQ80 NIF3-like protein 1 | canonical example family classification |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | Duf34/NIF3 (NGG1p interacting factor 3) | Q9GZT8 NIF3-like protein 1 | canonical example family classification |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | Duf34/NIF3 (NGG1p interacting factor 3) | trait identifier | |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | DUF34/NIF3 superfamily | P0AFP6 NIF3-like metal-binding protein YbgI | canonical example family classification |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | DUF34/NIF3 superfamily | P53081 NGG1-interacting factor 3 | canonical example family classification |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | DUF34/NIF3 superfamily | P54472 NIF3-like metal-binding protein YqfO | canonical example family classification |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | DUF34/NIF3 superfamily | Q58337 NIF3-like metal-binding protein HcgD | canonical example family classification |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | DUF34/NIF3 superfamily | Q9EQ80 NIF3-like protein 1 | canonical example family classification |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | DUF34/NIF3 superfamily | Q9GZT8 NIF3-like protein 1 | canonical example family classification |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | DUF34/NIF3 superfamily | Q9NK57 NIF3-like protein 1 | canonical example family classification |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | NIF3 (NGG1p interacting factor 3)-like | P0AFP6 NIF3-like metal-binding protein YbgI | canonical example family classification |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | NIF3 (NGG1p interacting factor 3)-like | P53081 NGG1-interacting factor 3 | canonical example family classification |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | NIF3 (NGG1p interacting factor 3)-like | P54472 NIF3-like metal-binding protein YqfO | canonical example family classification |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | NIF3 (NGG1p interacting factor 3)-like | Q58337 NIF3-like metal-binding protein HcgD | canonical example family classification |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | NIF3 (NGG1p interacting factor 3)-like | Q9EQ80 NIF3-like protein 1 | canonical example family classification |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | NIF3 (NGG1p interacting factor 3)-like | Q9GZT8 NIF3-like protein 1 | canonical example family classification |
| DUF34_NIF3 (PF01784) | ProteinTraitsMech | NIF3 (NGG1p interacting factor 3)-like | Q9NK57 NIF3-like protein 1 | canonical example family classification |
Curation history and reviews
No retained curation events supplied.
No retained review supplied.
Record source
Status and evidence
- Seed status
- A name-based classification of frozen InterPro/Pfam metadata. UNKNOWN CANDIDATE means the metadata explicitly says the function is unknown. KNOWN HISTORICAL DUF means a DUF name matched without that wording; this heuristic is not proof of a known function and does not establish experimental characterization. EX DUF means Pfam renamed the family away from a DUF/UPF name, as recorded in Pfam's previous identifiers; a rename usually follows published work on some members but is naming history, not proof of function for every member. Some EX DUF families' current names or descriptions still say the function is unknown; their classification basis lists this, and scoring does not treat them as characterized. FALSE POSITIVE TEXT HIT means the naming rules did not match.
- Characterization
- A separate evidence-scoring result. UNSCORED means no score has been calculated; it is not evidence that the family lacks a known function. Missing scores are not negative evidence. PARTIALLY CHARACTERIZED has partial support; KNOWN HISTORICAL DUF can inherit the seed label or reflect a known-function signal. Neither label implies experimental validation.
- Evidence counts
- Source-specific signals, not unique proteins, publications, or confidence scores. Known counts Rhea reactions and experimentally supported GO molecular-function annotations. Partial counts functional/domain assignments. Context counts structural, environmental, orthology, interaction and neighborhood signals; context alone does not assign function. Repeated annotations may not be independent.
- Curation status
- Reported separately from seed classification and characterization. SNAPSHOT ONLY means no curated metadata was supplied for this build. SEEDED denotes a source-derived record, not an expert-reviewed functional claim.
- Missing counts
- Not available means the source did not supply that counter. A zero is a reported count. Not scored means evidence counts are unavailable.