id: P0A151
gene_symbol: parB
taxon:
  id: NCBITaxon:160488
  label: Pseudomonas putida KT2440
status: COMPLETE
locus_tag: PP_0001
description: >-
  NCBI PGAP names WP_003253185.1 "ParB/RepB/Spo0J family partition protein"
  from the SPARCLE CDD domain architecture 11445026 (COG1475 Spo0J region,
  described as containing a "ParB-like nuclease domain") and passes on one GO
  term, DNA binding. The identical-protein record links WP_003253185.1 to 586
  assemblies of the P. putida group (2026-10-24). The term is true but less precise than the main review's
  sequence-specific DNA binding. The interesting result is what is missing.
  The protein also matches TIGR00180, whose product name is identical and
  which carries chromosome segregation and cytokinesis as well as DNA
  binding. Because the architecture wins the naming, PGAP passes on only DNA
  binding and drops chromosome segregation, the core process that GOA
  (TreeGrafter) and the main review both have. Neither the architecture nor
  any matched model carries the ParB CTPase activity (GO:0043273), and the
  CDD description of the N-terminal domain as a nuclease predates the
  discovery that this fold binds and hydrolyses CTP.
references:
- id: PMID:33270901
  title: 'RefSeq: expanding the Prokaryotic Genome Annotation Pipeline reach with protein family model curation.'
- id: PMID:15466051
  title: 'ParB of Pseudomonas aeruginosa: interactions with its partner ParA and its target parS and
    specific effects on bacterial growth.'
- id: PMID:11849535
  title: The parAB gene products of Pseudomonas putida exhibit partition activity in both P. putida
    and Escherichia coli.
- id: file:PSEPK/parB/parB-pgap-prediction-evidence/WP_003253185.1.gp
  title: RefSeq GenPept record WP_003253185.1
- id: file:PSEPK/parB/parB-pgap-prediction-evidence/pgap_models.yaml
  title: PGAP naming model and matched NCBI HMMs for parB
source_documents:
- genes/PSEPK/parB/parB-pgap-prediction-evidence/WP_003253185.1.gp
- genes/PSEPK/parB/parB-pgap-prediction-evidence/pgap_models.yaml
predictions:
- source_method: NCBI PGAP
  source_version: GCF_000007565.2-RS_2026_02_04 (live); GO from WP_ record
  source_reference_id: PMID:33270901
  predicted_term:
    id: GO:0003677
    label: DNA binding
  predicted_term_type: GO_MF
  review:
    assessment: LSP
    confidence_score: 2
    summary: >-
      True but less precise. Also in GOA (InterPro2GO), where the main review
      MODIFIES it to sequence-specific DNA binding (GO:0043565): ParB is
      defined by recognition of parS palindromes, and a P. putida oriC-region
      parS-like site confers ParAB-dependent partition. The specific term is
      also recorded in the main review as a NEW row (ISO from the directly
      assayed P. aeruginosa ParB), so a supported, more specific annotation
      exists for this protein. Scored as less precise, consistent with both
      rows.
    supported_by:
    - reference_id: PMID:11849535
      supporting_text: One was inserted into an unstable mini-F and shown to stabilize it in E. coli in
        a ParAB-dependent manner.
    - reference_id: PMID:15466051
      supporting_text: Purified ParB binds specifically to DNA containing a putative parS sequence