GO_REF:0000117

Electronic Gene Ontology annotations created by ARBA machine learning models

file:PSEPK/PP_4230/PP_4230-uniprot.txt

UniProtKB entry for PP_4230

UniProt records Q88F68 in PTHR43777:SF1 with the imported molybdenum-cofactor cytidylyltransferase label.

"DR PANTHER; PTHR43777; MOLYBDENUM COFACTOR CYTIDYLYLTRANSFERASE; 1. DR PANTHER; PTHR43777:SF1; MOLYBDENUM COFACTOR CYTIDYLYLTRANSFERASE; 1."

file:PSEPK/PP_4230/PP_4230-goa.tsv

QuickGO GOA annotations for PP_4230

The fetched table contains the one broad annotation reviewed here.

"UniProtKB Q88F68 PP_4230 enables GO:0016779 nucleotidyltransferase activity molecular_function ECO:0000256 IEA GO_REF:0000117 ARBA:ARBA00026258 160488 Pseudomonas putida (strain ATCC 47054 / DSM 6125 / CFBP 8728 / NCIMB 11950 / KT2440) UniProt MobA-like NTP transferase domain-containing protein 20260706"

file:PSEPK/PP_4230/PP_4230-deep-research-openscientist.md

OpenScientist gene research for PP_4230

The report explicitly acknowledges that PP_4230 has no target-specific experimental support.

"1. **No PP_4230-specific experimental study exists.** The entire annotation is inferential. There is no published enzyme assay, knockout, structure, or complementation experiment for PP_4230 itself."
The report incorrectly treats a heterologous XodC experiment as native PP_4230-locus evidence.

"Crucially, the relevance of an XdhC-type factor to *P. putida* KT2440 xanthine oxidase has now been shown experimentally in this very organism."
The report's comparison table incorrectly puts PP_2482, rather than PP_2483, in the second predicted MocA cluster.

"| **PP_2483** | isoquinoline-1-oxidoreductase-like | PP_2478 (Mo/β-subunit), PP_2479 (cyt *c*), PP_2480 (XdhC), PP_2482 (MobA-like) |"
The report presents an AlphaFold result that was not saved as a reproducible local artifact.

"The AlphaFold model of Q88F68 is high-confidence (**mean pLDDT 91.9**) and shows a folded N-terminal Rossmann-like nucleotidyltransferase domain (res ~5–162) plus a short C-terminal acceptor-binding extension (res ~163–188) — the domain that, per Neumann et al., confers dedication to a specific acceptor molybdoenzyme."

file:interpro/panther/PTHR43777/PTHR43777-entries.csv

PANTHER representative entries for the MocA-containing family

The local PANTHER representatives include reviewed E. coli MocA Q46810 in PTHR43777:SF1.

"Q46810,Molybdenum cofactor cytidylyltransferase,protein,83333,Escherichia coli (strain K12),Escherichia coli (strain K12),mocA,192,PTHR43777:SF1,MOLYBDENUM COFACTOR CYTIDYLYLTRANSFERASE,True"

file:PSEPK/moaA/moaA-bioinformatics/RESULTS.md

Reproducible sequence comparison of KT2440 MoaA-family and MobA-like proteins

The saved comparisons favor MocA for PP_4230 but do not establish nucleotide specificity.

"- PP_2483 is more similar to the E. coli MobA control (39.29%) than to the E. coli MocA control (28.49%), whereas PP_4230 is more similar to MocA (39.62%) than to MobA (28.74%). PP_2483 and PP_4230 are 48.13% identical to one another. - The generated KEGG link table maps both PP_2483 and PP_4230 to K07141. It maps the reviewed E. coli controls to distinct MobA (K03752) and MocA (K07141) orthologies, respectively."

file:PSEPK/moaA/moaA-bioinformatics/mob_like_kegg_orthology.tsv

KEGG gene-to-orthology links for KT2440 MobA-like candidates and reviewed controls

The reproducible KEGG lookup maps PP_4230 to MocA orthology K07141.

"PP_4230 Q88F68 ppu:PP_4230 ko:K07141"