KW-1110 (Inhibition of host TRAFs by virus) — KW2GO remapping

COMPLETE PIPELINEOBSOLETION

KW-1110 (Inhibition of host TRAFs by virus) — KW2GO remapping

Bottom line: UniProt keyword KW-1110 "Inhibition of host TRAFs by virus"
was mapped to GO:0039527, a process term GO has now obsoleted because
"TRAF-mediated signal transduction" is not a single pathway: TRAFs act in RLR,
TLR, TNFR and cGAS-STING signaling. The mapping has been repointed to
GO:0140476, which ties TRAF inhibition to cytoplasmic pattern recognition
receptor (RLR) signaling and matches the parent keyword KW-1113. As of
2026-09-26, OLS resolves GO:0140476 and marks GO:0039527 obsolete (suggesting
GO:0140476 or the TLR sibling GO:0140470), and the GO uniprotkb_kw2go file
(version date 2026/07/06) maps KW-1110 to GO:0140476. This page was a
watch-list entry, not a review project, and no gene review in this repository
carries GO:0039527, GO:0140476 or KW-1110, so nothing needs rework. The
"blocker" in the status section below predates these upstream changes.

We track it so that any viral or bacterial TRAF-interfering effector reviewed
later is moved to the right pathway-specific term rather than to the obsolete
parent.

Overview

Tracks a UniProt keyword-to-GO (KW2GO) mapping change proposed upstream: the
mapping from UniProt keyword KW-1110 "Inhibition of host TRAFs by virus" to
its current GO term is being moved to a more informative target that fits the
keyword's biology.

Current mapping (to be removed)

GO ID Label
GO:0039527 symbiont-mediated suppression of host TRAF-mediated signal transduction

Proposed replacement mapping (to be added)

GO ID Label
GO:0140476 symbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway via inhibition of TRAF activity

Nature of the change

Lateral / more-specific move within the same "symbiont-mediated suppression of
host signaling" branch. The proposed target explicitly ties TRAF-inhibition to
the cytoplasmic pattern recognition receptor (PRR) signaling pathway family
(RIG-I / MDA5 / LGP2 → MAVS → TBK1 / IRF3 / NF-κB), which matches the parent
keyword KW-1113 "Inhibition of host RLR pathway by virus". Reviewers on the
upstream thread note that TRAF is used by TLRs, TNFR, and cGAS-STING as well,
so this new target is a better fit for the specifically viral / RLR context
that KW-1110 sits under, but it does not cover TRAF interference by bacteria
or by viral proteins that act via TLR or TNFR routes — those need their own
child terms if the ontology decides to model them (see the upstream comments
by @genegodbold and @pgaudet for candidate templates).

Upstream tickets

Impact on this repo

No gene reviews currently touch either identifier.

Searches performed on 2026-07-04:

So this repo has no reviews that will need to be rewritten when the mapping
lands. The purpose of this project page is therefore purely to remember to
re-check once the ontology change and mapping change ship, not to queue
existing rework.

Follow-up

  1. Watch go-ontology#29238
    and go-annotation#6470
    for term creation and mapping deployment.
  2. Once GO:0140476 (or whatever ID the new term receives) is created and the
    KW-1110 mapping is repointed, re-run the two greps above to catch any newly
    added reviews for viral effector genes carrying KW-1110 (e.g. EBV BPLF1,
    FMDV Lb(pro), HSV-1 ICP0, SARS-CoV-2 M, and the bacterial TRAF-interfering
    effectors listed in the go-ontology thread).
  3. If any of those viral / bacterial effector genes enter this repo later,
    their existing_annotations review should MODIFY away from GO:0039527 and
    toward the new PRR-signaling target when the annotation actually carries
    evidence for a cytoplasmic-PRR context; TLR or TNFR contexts should go to
    the appropriate sibling term instead (see @pgaudet's per-effector
    assignments in go-ontology#29238).

Status

Slides