wbpE (PA3155, Q9HZ76) notes

No deep-research provider was available; literature research done from the cached papers
(full text for PMID:18621892, PMID:19348502, PMID:20604544; abstract for PMID:19282284).

Biology

WbpE is the third enzyme of the UDP-ManNAc3NAcA pathway (WbpA-WbpB-WbpE-WbpD-WbpI)
PMID:19348502.
Coupled activity with WbpB PMID:19282284; PMID:19348502.
PLP structure, homodimer PMID:20604544.
Knockout lacks B-band O antigen; complemented by B. pertussis wlbC PMID:18621892.
No GO MF term for EC 2.6.1.98; GO:0008483 transaminase activity is the most specific.

Annotation decisions

GO:0008483 (EXP, IDA, IBA, IEA): ACCEPT, core MF.
GO:0030170 (IDA, IBA, IEA): ACCEPT.
GO:0009243 (EXP, IDA, IEA): ACCEPT.
GO:0000271 (IBA, IDA) and GO:0009103 (IDA): TOO_GENERAL (GO:0009243 is an is_a descendant).
GO:0006065 UDP-glucuronate biosynthetic process (EXP, PseudoCAP): MODIFY to GO:0009226; PSEUDOCAP
WRONG_TERM, CONFIRMED (abstract names the product UDP-GlcNAc3NA). Same error as on wbpD.
Action counts: ACCEPT 10, TOO_GENERAL 3, MODIFY 1.

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?
PTN001250039	GO:0000271 polysaccharide biosynthetic process	2	98 (45 taxa)	GO:0000271, IDA, PMID:19282284 (PseudoCAP)	SOUND	Purified WbpE makes a nucleotide-sugar precursor of the O antigen; the term is general but true.	E. coli WecE P27833 (ECA TDP-Fuc4NAc aminotransferase)	Yes; WecE makes a polysaccharide (ECA) precursor, so the general node term fits the clade
PTN001250039	GO:0008483 transaminase activity	6	95 (45 taxa)	GO:0008483, EXP, PMID:19282284 (PseudoCAP)	SOUND	Coupled WbpB/WbpE assay with purified protein; confirmed by IDA in PMID:19348502 and the PLP-product structure.	WecE P27833, ArnB P77690 and Q8ZNF3, NtdA O07566, Pat Q814Z4	Yes; five other characterised sugar aminotransferases

No GO_CENTRAL defect. The only PSEUDOCAP defect on wbpE is the non-seed GO:0006065 row.