migA (PA0705, Q9I5M1) notes

Literature (own research, 2026-11-05)

PMID:18178733; PMID:18178733 (NMR, MS); loss of the 5C101 outer-core epitope; MigA overexpression raises the uncapped proportion.
PMID:22685285
Downstream phenotypes of core truncation: motility and attachment (PMID:19589832), biofilm mechanics (PMID:19717596).
All cached papers are abstract-only; full text (PMC2258888 etc.) could not be retrieved this session. The abstract of PMID:18178733 describes no in vitro transferase assay (title says "putative"), so the IDA code on the glycosyltransferase row looks generous; noted, no defect filed.
GO:0016757 refined to GO:0016758 hexosyltransferase activity (rhamnosyltransferases sit under it in GO; no LPS-core rhamnosyltransferase term).

PseudoCAP IBA-seed assessment

PTN node	node term	n_seeds	leaf IBAs	seed annotation (term, evidence, PMID)	verdict	rationale	other seeds	IBD stands without this seed?
PTN000531320	GO:0016757 glycosyltransferase activity	7	44 (17 taxa)	GO:0016757, IDA, PMID:18178733	SOUND	Specific loss of alpha-1,6-L-Rha in the mutant supports MigA as the transferase (evidence is mutant structure rather than an enzyme assay).	Salmonella RfbV P26401 (GO:0047600 IDA), E. coli WcaA P77414 (GO:0015020 IDA), Mtb Rv2957 P9WMX7 (GO:0016758 IDA), B. subtilis SunS O31986 (GO:0008194 IDA), P. aeruginosa PA1014 Q9I4V9 (GO:0008919 IDA), WapR	Yes
PTN000531351	GO:0009244 lipopolysaccharide core region biosynthetic process	2	18 (10 taxa)	GO:0009244, IMP, PMID:18178733	SOUND	Mutant LPS structure (NMR/MS) lacks the sugar MigA adds.	WapR Q9HUG5 only (PseudoCAP IMP/IDA)	Yes, on WapR alone; but the node term does not suit the clade (see below)

Node-level GO_CENTRAL defect for PTN000531351 is recorded once, on genes/PSEAE/wapR (WapR IBA row): the clade's leaves include Salmonella RfbV (O-antigen abequosyltransferase) and E. coli WcaA (colanic acid), whose experimental annotations contradict an LPS-core term. Not repeated here.

PseudoCAP defect: GO:0015920 lipopolysaccharide transport (IDA, PMID:19589832) WRONG_TERM, PROBABLE.

Action counts

ACCEPT 2, MODIFY 2, MARK_AS_OVER_ANNOTATED 1, REMOVE 1.