parB Family assigned · medium auto-curated
H37Rv Rv3917c · MTBC0 mtbc0_004151 ·
344 aa · 4429708–4430742 (-) ·
RefSeq NP_218435.2
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | chromosome partitioning protein ParB |
|---|---|
| MTBC0 PGAP re-annotation | ParB/RepB/Spo0J family partition protein |
| Revised (this work) | ParB/RepB/Spo0J family partition protein. Pfam: ParB_N (PF02195.27), HTH_ParB (PF17762.9), ParB_C (PF23552.3). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WIJ9
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Probable chromosome-partitioning protein ParB |
| Curated function | Involved in chromosome partition. Localize to both poles of the predivisional cell following completion of DNA replication. Binds to the DNA origin of replication (By similarity). |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
K Transcription
|
|---|---|
| Preferred name | parB |
| eggNOG description | Belongs to the ParB family |
| Orthologous group | COG1475 |
| KEGG orthology |
K03497
|
| Gene Ontology (17) |
GO:0005575, GO:0005576, GO:0005622, GO:0005623, GO:0005694, GO:0005886, GO:0008150, GO:0016020, GO:0040007, GO:0043226, GO:0043228, GO:0043229 +5 more
|
Orthology-based transfer (eggNOG 5.0.2, diamond). EC/KO/GO/CAZy are computed annotations, not manual curation; cross-check against the primary literature before treating a specific reaction as established.
Conservation & selection (intra-MTBC, 145 209 strains)
| pN/pS | 0.548 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 4 synonymous, 6 missense, 0 nonsense, 0 frameshift |
pN/pS from segregating SNPs (singletons removed) normalised by possible sites. Low pN/pS = purifying selection (a strong signal that a "hypothetical" is a real, constrained gene). A high pN/pS is ambiguous: relaxed constraint or positive selection (drug resistance, antigenic variation) inflate it; e.g. rpoB/katG/pncA score high here for resistance, not loss of function. A clonal disruption (one allele over a clade) suggests lineage pseudogenisation; a convergent one (many independent alleles) is typical of resistance loss-of-function.
Domains (Pfam, hmmscan --cut_ga)
| Pfam | Accession | i-Evalue | Residues | Description |
|---|---|---|---|---|
ParB_N | PF02195.27 | 5.8e-34 | 57–155 | ParB N-terminal domain |
HTH_ParB | PF17762.9 | 3.3e-33 | 159–256 | ParB HTH domain |
ParB_C | PF23552.3 | 1.9e-05 | 286–327 | ParB dimerisation domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: parA (chromosome partitioning protein ParA), high confidence from genomic context alone (score 998 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv3918c parA |
chromosome partitioning protein ParA | 999 | 998 ctx | neighborhood:882 cooccurence:773 coexpression:892 textmining:580 |
Rv3919c gid |
16S rRNA (guanine(527)-N(7))-methyltransferase RsmG | 983 | 981 ctx | neighborhood:881 coexpression:850 |
Rv1708 |
initiation inhibitor protein | 945 | 924 ctx | cooccurence:773 coexpression:478 |
Rv3213c |
SOJ/ParA-like protein | 941 | 924 ctx | cooccurence:773 coexpression:477 |
Rv3920c hyp |
hypothetical protein | 842 | 833 ctx | neighborhood:758 |
Rv3921c yidC |
membrane protein insertase YidC | 791 | 784 ctx | neighborhood:697 |
Rv2748c ftsK |
DNA translocase FtsK | 880 | 762 ctx | cooccurence:757 textmining:517 |
Rv3922c yidD |
membrane protein insertion efficiency factor | 662 | 663 ctx | neighborhood:642 |
Rv3916c hyp |
hypothetical protein | 535 | 535 ctx | neighborhood:524 |
Rv3923c rnpA |
ribonuclease P protein component | 557 | 531 ctx | neighborhood:502 |
Rv3924c rpmH |
50S ribosomal protein L34 | 523 | 501 ctx | neighborhood:501 |
Rv1701 xerD |
tyrosine recombinase XerD | 517 | 491 ctx | cooccurence:481 |
Rv0513 |
transmembrane protein | 474 | 474 | coexpression:474 |
Rv2894c xerC |
tyrosine recombinase XerC | 481 | 454 ctx | cooccurence:449 |
Rv2166c mraZ |
transcriptional regulator MraZ | 443 | 443 ctx | cooccurence:420 |
STRING combines evidence channels (neighborhood, fusion, cooccurrence, coexpression, experimental, database, text-mining) into a 0–1000 score. The ctx badge marks edges carried by the genomic-context channels (conserved neighborhood, fusion, phylogenetic co-occurrence), which are independent of orthology and structure and the strongest signal for an unknown gene. The no text-mining column recomputes the score from data alone, so a link that does not depend on the literature is visible. Association is a function hypothesis, not proof: corroborate with the operon context and the primary literature before assigning a function.
Evidence
- Legacy H37Rv annotation: chromosome partitioning protein ParB
- MTBC0 PGAP product: ParB/RepB/Spo0J family partition protein
- Pfam (hmmscan --cut_ga): ParB_N PF02195.27 (E=6e-34), HTH_ParB PF17762.9 (E=3e-33), ParB_C PF23552.3 (E=2e-05)
- (auto-curated by rules from PGAP + Pfam + Foldseek; not hand-reviewed)
Sources
- Ancestral sequence & coordinates: Harrison LB et al. (2024), An imputed ancestral reference genome for the MTBC, doi:10.1101/2023.09.07.556366
- Product annotation: NCBI PGAP on MTBC0; legacy from H37Rv NC_000962.3 (RefSeq NP_218435.2)
- Domains: Pfam-A via hmmscan --cut_ga — ParB_N (PF02195.27), HTH_ParB (PF17762.9), ParB_C (PF23552.3)
- Sequence-level signal: ESM Atlas (EvolutionaryScale × BioHub) — exploratory
- Controlled vocabulary: eggNOG-mapper 2.1.12 (Cantalapiedra et al. 2021,
doi:10.1093/molbev/msab293), eggNOG 5.0 DB
(Huerta-Cepas et al. 2019) — OG
COG1475 - Curated reference: UniProt P9WIJ9 (SwissProt, reviewed; Evidence at protein level)
- Intra-MTBC selection: pN/pS and disruption from SPDI variants of 145 209 MTBC strains (this work, local collection vs H37Rv NC_000962.3)
- Interaction network: STRING v12.0 (Szklarczyk et al. 2023,
doi:10.1093/nar/gkac1000), taxon 83332, CC-BY 4.0 —
33 functional partner(s); context anchor
parA - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_004151|Rv3917c|parB MTQPSRRKGGLGRGLAALIPTGPADGESGPPTLGPRMGSATADVVIGGPVPDTSVMGAIYREIPPSAIEANPRQPRQVFDEEALAELVHSIREFGLLQPIVVRSLAGSQTGVRYQIVMGERRWRAAQEAGLATIPAIVRETGDDNLLRDALLENIHRVQLNPLEEAAAYQQLLDEFGVTHDELAARIGRSRPLITNMIRLLKLPIPVQRRVAAGVLSAGHARALLSLEAGPEAQEELASRIVAEGLSVRATEETVTLANHEANRQAHHSDATTPAPPRRKPIQMPGLQDVAERLSTTFDTRVTVSLGKRKGKIVVEFGSVDDLARIVGLMTTDGRDKGLHRDAL