DUFMech

All families / PF16297

PF16297: RTL1-8_LDOC

RTL1/3-8/LDOC, capsid-like domain

Curation status
SEEDED
Seed status
EX DUF
Characterization
UNSCORED

Grounding

PF16297: RTL1/3-8/LDOC, capsid-like domain
IPR032549: integrated entry for RTL1/3-8/LDOC, capsid-like domain

Source description

This entry represents a domain found in eukaryotic Gag or capsid-like retrotranspon-related proteins, including LDOC1, and RTL1/3-8 from animals. LDOC1 is a MZF-1-interacting protein, inhibits NF-kappaB activation and relates with cancer and some other diseases [InterPro reference PUB00070719,InterPro reference PUB00076517,InterPro reference PUB00076518,InterPro reference PUB00076519]. LDOC1 is a small protein and this entry covers almost its full length. In RTL proteins, it represents the N-terminal capsid-like domain. RTL1 plays an essential role in capillaries endothelial cells for the maintenance of feto-maternal interface and for development of the placenta [InterPro reference PUB00091629]. RTL3 plays a role in postnatal myogenesis, may be involved in the regulation of satellite cells self-renewal [InterPro reference PUB00163386].

Evidence and references

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

11 verified sequence examples. FASTA

UniProtProtein / organismSequenceProvenance
A6NKG5Retrotransposon-like protein 1
Homo sapiens		1358 aa; version 3
UniProt 2026_03		UNIPROT FETCH
4 sibling references
A6ZKI3Retrotransposon Gag-like protein 8C
Homo sapiens		113 aa; version 1
UniProt 2026_03		UNIPROT FETCH
2 sibling references
O95751Protein LDOC1
Homo sapiens		146 aa; version 1
UniProt 2026_03		UNIPROT FETCH
2 sibling references
Q17RB0Retrotransposon Gag-like protein 8B
Homo sapiens		113 aa; version 1
UniProt 2026_03		UNIPROT FETCH
2 sibling references
Q505G4Retrotransposon Gag-like protein 6
Mus musculus		243 aa; version 1
UniProt 2026_03		UNIPROT FETCH
2 sibling references
Q5DTT4Retrotransposon Gag-like protein 5
Mus musculus		599 aa; version 2
UniProt 2026_03		UNIPROT FETCH
2 sibling references
Q5HYW3Retrotransposon Gag-like protein 5
Homo sapiens		569 aa; version 1
UniProt 2026_03		UNIPROT FETCH
2 sibling references
Q7L3V2Protein Bop
Homo sapiens		364 aa; version 1
UniProt 2026_03		UNIPROT FETCH
2 sibling references
Q7M732Retrotransposon-like protein 1
Mus musculus		1744 aa; version 1
UniProt 2026_03		UNIPROT FETCH
4 sibling references
Q7TPY9Protein LDOC1
Mus musculus		151 aa; version 1
UniProt 2026_03		UNIPROT FETCH
2 sibling references

First 10 shown; the FASTA and family JSON contain all examples.

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
7,561
matches
7,573
proteomes
514
taxa
1,766
structures
0
alphafold models
4,801
domain architectures
405

Classification basis

pfam previous unknown name

No scoring reasons supplied.

Related Mech records

This family joined the worklist after the frozen cross-Mech scan, so other Mechs were not searched for it. Missing links here are not evidence that other Mechs lack it; rows shown come from mentions of a former DUF/UPF name.

No cross-Mech examples are present in the supplied snapshot.

Curation history and reviews

No retained curation events supplied.

No retained review supplied.

Record source

data/families/PF16297.yaml
Family YAML in this build

Download this family (JSON)

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.