cei Resolved · high auto-curated
H37Rv Rv2700 · MTBC0 mtbc0_002874 ·
216 aa · 3037618–3038268 (+) ·
RefSeq NP_217216.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | envelope integrity protein Cei |
| Revised (this work) | Envelope integrity protein Cei. Pfam: LytR_C (PF13399.12). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
I6Y1I5
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Cell envelope integrity protein Cei |
| Curated function | Contributes to cell envelope integrity and virulence. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| eggNOG description | LytR cell envelope-related transcriptional attenuator |
| Orthologous group | 2E1BJ |
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 | 0.481 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 3 synonymous, 4 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 |
|---|---|---|---|---|
LytR_C | PF13399.12 | 1.9e-15 | 90–179 | LytR cell envelope-related transcriptional attenuator |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv0556 (transmembrane protein), high confidence from genomic context alone (score 759 excluding text-mining). This association is the citable seed of a function hypothesis for this hypothetical protein.
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1109c hyp |
hypothetical protein | 768 | 768 ctx | cooccurence:768 |
Rv3212 hyp |
hypothetical protein | 765 | 765 ctx | cooccurence:765 |
Rv0556 |
transmembrane protein | 759 | 759 ctx | cooccurence:759 |
Rv2091c |
membrane protein | 758 | 758 ctx | cooccurence:758 |
Rv3850 hyp |
hypothetical protein | 754 | 754 ctx | cooccurence:754 |
Rv2446c |
integral membrane protein | 751 | 751 ctx | cooccurence:751 |
Rv3256c hyp |
hypothetical protein | 751 | 751 ctx | cooccurence:751 |
Rv2732c |
transmembrane protein | 751 | 751 ctx | cooccurence:751 |
Rv3205c hyp |
hypothetical protein | 749 | 749 ctx | cooccurence:749 |
Rv3311 hyp |
hypothetical protein | 748 | 748 ctx | cooccurence:748 |
Rv3438 hyp |
hypothetical protein | 747 | 747 ctx | cooccurence:747 |
Rv2699c hyp |
hypothetical protein | 745 | 746 ctx | neighborhood:746 |
Rv0358 hyp |
hypothetical protein | 739 | 739 ctx | cooccurence:739 |
Rv1209 hyp |
hypothetical protein | 732 | 732 ctx | cooccurence:732 |
Rv1083 hyp |
hypothetical protein | 731 | 731 ctx | cooccurence:731 |
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: hypothetical protein
- MTBC0 PGAP product: envelope integrity protein Cei
- Pfam (hmmscan --cut_ga): LytR_C PF13399.12 (E=2e-15)
- (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_217216.1)
- Domains: Pfam-A via hmmscan --cut_ga — LytR_C (PF13399.12)
- 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
2E1BJ - Curated reference: UniProt I6Y1I5 (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 —
100 functional partner(s); context anchor
Rv0556 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002874|Rv2700|cei MVAQITEGTAFDKHGRPFRRRNPRPAIVVVAFLVVVTCVMWTLALTRPPDVREAAVCNPPPQPAGSAPTNLGEQVSRTDMTDVAPAKLSDTKVHVLNASGRGGQAADIAGALQDLGFAQPTAANDPIYAGTRLDCQGQIRFGTAGQATAAALWLVAPCTELYHDSRADDSVDLALGTDFTTLAHNDDIDAVLANLRPGATEPSDPALLAKIHANSC