tig Resolved · high auto-curated
H37Rv Rv2462c · MTBC0 mtbc0_002621 ·
466 aa · 2788139–2789539 (-) ·
RefSeq NP_216978.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | trigger factor |
|---|---|
| MTBC0 PGAP re-annotation | trigger factor |
| Revised (this work) | Trigger factor. Pfam: Trigger_N (PF05697.19), FKBP_C (PF00254.35), Trigger_C (PF05698.20). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WG55
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Trigger factor |
| EC (curated) |
EC 5.2.1.8
|
| Curated function | Involved in protein export. Acts as a chaperone by maintaining the newly synthesized protein in an open conformation. Functions as a peptidyl-prolyl cis-trans isomerase (By similarity). Protects the cells against high-temperatures and aids in the restoration of enzyme activity of thermally denaturated proteins. Contributes to tolerance and adaptation to host-generated stresses. Has strong immunomodulatory potential and modifies the cytokine profile of the host towards the proinflammatory axis. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
D Cell cycle control, cell division, chromosome partitioning
|
|---|---|
| Preferred name | tig |
| eggNOG description | Involved in protein export. Acts as a chaperone by maintaining the newly synthesized protein in an open conformation. Functions as a peptidyl-prolyl cis-trans isomerase |
| Orthologous group | COG0544 |
| KEGG orthology |
K03545
|
| Gene Ontology (30) |
GO:0005575, GO:0005618, GO:0005622, GO:0005623, GO:0005737, GO:0005829, GO:0005886, GO:0006950, GO:0007154, GO:0008150, GO:0009267, GO:0009605 +18 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 | 0.998 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 1 synonymous, 3 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 |
|---|---|---|---|---|
Trigger_N | PF05697.19 | 5.1e-43 | 1–145 | Bacterial trigger factor protein (TF) |
FKBP_C | PF00254.35 | 3.8e-05 | 159–218 | FKBP-type peptidyl-prolyl cis-trans isomerase |
Trigger_C | PF05698.20 | 2.2e-41 | 258–418 | Bacterial trigger factor protein (TF) C-terminus |
Functional interaction network (STRING v12, guilt-by-association)
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0683 rpsG |
30S ribosomal protein S7 | 990 | 987 | coexpression:839 experimental:923 |
Rv0703 rplW |
50S ribosomal protein L23 | 982 | 970 | coexpression:715 experimental:895 textmining:442 |
Rv0701 rplC |
50S ribosomal protein L3 | 972 | 969 | coexpression:855 experimental:788 |
Rv3443c rplM |
50S ribosomal protein L13 | 970 | 969 | coexpression:858 experimental:788 |
Rv2890c rpsB |
30S ribosomal protein S2 | 972 | 968 | coexpression:852 experimental:788 |
Rv0704 rplB |
50S ribosomal protein L2 | 967 | 966 | coexpression:839 experimental:788 |
Rv0702 rplD |
50S ribosomal protein L4 | 967 | 966 | coexpression:839 experimental:788 |
Rv0709 rpmC |
50S ribosomal protein L29 | 983 | 964 | coexpression:609 experimental:895 textmining:569 |
Rv0700 rpsJ |
30S ribosomal protein S10 | 968 | 964 | coexpression:834 experimental:788 |
Rv3459c rpsK |
30S ribosomal protein S11 | 964 | 960 | coexpression:803 experimental:788 |
Rv0706 rplV |
50S ribosomal protein L22 | 959 | 957 | coexpression:794 experimental:788 |
Rv0707 rpsC |
30S ribosomal protein S3 | 961 | 956 | coexpression:791 experimental:788 |
Rv3442c rpsI |
30S ribosomal protein S9 | 957 | 954 | coexpression:788 experimental:788 |
Rv0715 rplX |
50S ribosomal protein L24 | 965 | 952 | coexpression:537 experimental:894 |
Rv3456c rplQ |
50S ribosomal protein L17 | 952 | 951 | coexpression:759 experimental:788 |
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: trigger factor
- MTBC0 PGAP product: trigger factor
- Pfam (hmmscan --cut_ga): Trigger_N PF05697.19 (E=5e-43), FKBP_C PF00254.35 (E=4e-05), Trigger_C PF05698.20 (E=2e-41)
- (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_216978.1)
- Domains: Pfam-A via hmmscan --cut_ga — Trigger_N (PF05697.19), FKBP_C (PF00254.35), Trigger_C (PF05698.20)
- 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
COG0544 - Curated reference: UniProt P9WG55 (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 — 183 functional partner(s)
- Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002621|Rv2462c|tig MKSTVEQLSPTRVRINVEVPFAELEPDFQRAYKELAKQVRLPGFRPGKAPAKLLEARIGREAMLDQIVNDALPSRYGQAVAESDVQPLGRPNIEVTKKEYGQDLQFTAEVDIRPKISLPDLSALTVSVDPIEIGEDDVDAELQSLRTRFGTLTAVDRPVAVGDVVSIDLSATVDGEDIPNAAAEGLSHEVGSGRLIAGLDDAVVGLSADESRVFTAKLAAGEHAGQEAQVTVTVRSVKERELPEPDDEFAQLASEFDSIDELRASLSDQVRQAKRAQQAEQIRNATIDALLEQVDVPLPESYVQAQFDSVLHSALSGLNHDEARFNELLVEQGSSRAAFDAEARTASEKDVKRQLLLDALADELQVQVGQDDLTERLVTTSRQYGIEPQQLFGYLQERNQLPTMFADVRRELAIRAAVEAATVTDSDGNTIDTSEFFGKRVSAGEAEEAEPADEGAARAASDEATT