era Resolved · high auto-curated
H37Rv Rv2364c · MTBC0 - ·
300 aa · 2645771–2646673 (-) ·
RefSeq YP_177873.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | GTPase Era |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | GTPase Era. Pfam: MMR_HSR1 (PF01926.30), FeoB_N (PF02421.25), PduV-EutP (PF10662.16), GTP_EFTU (PF00009.34), KH_2 (PF07650.24). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Annotated on the H37Rv protein: this gene has no 1:1 ancestral MTBC0 anchor (PE/PPE, paralogue, IS element, or otherwise unanchored CDS).
Curated reference (UniProt)
| UniProt |
P9WNK9
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | GTPase Era |
| Curated function | Exhibits GTPase activity. Binds RNA but is probably not involved in ribosome assembly in mycobacteria (By similarity). |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| Preferred name | era |
| eggNOG description | An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism |
| Orthologous group | COG1159 |
| KEGG orthology |
K03595
|
| Gene Ontology (10) |
GO:0005575, GO:0005622, GO:0005623, GO:0005737, GO:0005829, GO:0008150, GO:0040007, GO:0044424, GO:0044444, GO:0044464
|
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 | 0.0 · strong purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 6 synonymous, 0 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 |
|---|---|---|---|---|
MMR_HSR1 | PF01926.30 | 1.9e-21 | 9–126 | 50S ribosome-binding GTPase |
FeoB_N | PF02421.25 | 1.9e-07 | 9–65 | Ferrous iron transport protein B |
PduV-EutP | PF10662.16 | 1.6e-04 | 9–170 | Ethanolamine utilisation - propanediol utilisation |
GTP_EFTU | PF00009.34 | 4.4e-06 | 50–175 | Elongation factor Tu GTP binding domain |
KH_2 | PF07650.24 | 5.4e-20 | 210–289 | KH domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: ybeY (endoribonuclease), high confidence from genomic context alone (score 973 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv2365c hyp |
hypothetical protein | 980 | 980 ctx | neighborhood:791 coexpression:908 |
Rv2367c ybeY |
endoribonuclease | 976 | 973 ctx | neighborhood:791 coexpression:877 |
Rv2366c |
transmembrane protein | 966 | 966 ctx | neighborhood:791 coexpression:844 |
Rv0053 rpsF |
30S ribosomal protein S6 | 917 | 917 | experimental:704 database:662 |
Rv2368c phoH1 |
phosphate starvation-inducible protein PhoH | 917 | 910 ctx | neighborhood:791 coexpression:519 |
Rv2909c rpsP |
30S ribosomal protein S16 | 926 | 900 | experimental:667 database:662 |
Rv0683 rpsG |
30S ribosomal protein S7 | 877 | 863 | experimental:609 database:662 |
Rv3442c rpsI |
30S ribosomal protein S9 | 852 | 837 | experimental:516 database:662 |
Rv2785c rpsO |
30S ribosomal protein S15 | 838 | 820 | experimental:442 database:662 |
Rv0700 rpsJ |
30S ribosomal protein S10 | 841 | 818 | experimental:457 database:662 |
Rv2890c rpsB |
30S ribosomal protein S2 | 821 | 815 | experimental:446 database:662 |
Rv0721 rpsE |
30S ribosomal protein S5 | 828 | 813 | experimental:452 database:662 |
Rv2445c ndkA |
nucleoside diphosphate kinase | 799 | 800 | database:662 |
Rv0682 rpsL |
30S ribosomal protein S12 | 823 | 797 | experimental:425 database:661 |
Rv0717 rpsN1 |
30S ribosomal protein S14 | 859 | 765 | database:632 textmining:427 |
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
- Annotation from H37Rv (no MTBC0 1:1 anchor; H37Rv protein used): GTPase Era
- Pfam (hmmscan --cut_ga): MMR_HSR1 PF01926.30 (E=2e-21), FeoB_N PF02421.25 (E=2e-07), PduV-EutP PF10662.16 (E=2e-04), GTP_EFTU PF00009.34 (E=4e-06), KH_2 PF07650.24 (E=5e-20)
- (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 YP_177873.1)
- Domains: Pfam-A via hmmscan --cut_ga — MMR_HSR1 (PF01926.30), FeoB_N (PF02421.25), PduV-EutP (PF10662.16), GTP_EFTU (PF00009.34), KH_2 (PF07650.24)
- 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
COG1159 - Curated reference: UniProt P9WNK9 (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 —
68 functional partner(s); context anchor
ybeY - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv2364c|era MTEFHSGFVCLVGRPNTGKSTLTNALVGAKVAITSTRPQTTRHAIRGIVHSDDFQIILVDTPGLHRPRTLLGKRLNDLVRETYAAVDVIGLCIPADEAIGPGDRWIVEQLRSTGPANTTLVVIVTKIDKVPKEKVVAQLVAVSELVTNAAEIVPVSAMTGDRVDLLIDVLAAALPAGPAYYPDGELTDEPEEVLMAELIREAALQGVRDELPHSLAVVIDEVSPREGRDDLIDVHAALYVERDSQKGIVIGKGGARLREVGTAARSQIENLLGTKVYLDLRVKVAKNWQRDPKQLGRLGF