Rv2294 Family assigned · medium auto-curated
H37Rv Rv2294 · MTBC0 mtbc0_002434 ·
407 aa · 2590075–2591298 (+) ·
RefSeq NP_216810.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | cystathionine beta-lyase |
|---|---|
| MTBC0 PGAP re-annotation | MalY/PatB family protein |
| Revised (this work) | MalY/PatB family protein. Pfam: Aminotran_1_2 (PF00155.28). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WQ83
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Putative cystathionine beta-lyase |
| EC (curated) |
EC 4.4.1.13
|
UniProt still lists this protein as Putative cystathionine beta-lyase; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
E Amino acid transport and metabolism
|
|---|---|
| eggNOG description | cystathionine beta-lyase activity |
| Orthologous group | COG1168 |
| EC number |
EC 4.4.1.8
|
| KEGG orthology |
K14155
|
| KEGG pathways |
map00270, map00450, map01100, map01110, map01230
|
| Gene Ontology (6) |
GO:0005575, GO:0005623, GO:0005886, GO:0016020, GO:0044464, GO:0071944
|
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 | 0.279 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 5 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 |
|---|---|---|---|---|
Aminotran_1_2 | PF00155.28 | 6.3e-31 | 30–396 | Aminotransferase class I and II |
Functional interaction network (STRING v12, guilt-by-association)
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1079 metB |
cystathionine gamma-synthase | 950 | 930 | database:900 |
Rv0391 metZ |
O-succinylhomoserine sulfhydrylase | 934 | 924 | database:900 |
Rv0075 |
aminotransferase | 932 | 917 | database:900 |
Rv3340 metC |
O-acetylhomoserine sulfhydrylase | 918 | 906 | database:900 |
Rv1077 cbs |
cystathionine beta-synthase | 912 | 904 | database:900 |
Rv1133c metE |
5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase | 907 | 904 | database:900 |
Rv2334 cysK1 |
O-acetylserine sulfhydrylase | 912 | 903 | database:900 |
Rv3684 |
lyase | 908 | 903 | database:900 |
Rv2291 sseB |
thiosulfate sulfurtransferase SseB | 905 | 902 | database:900 |
Rv3248c sahH |
adenosylhomocysteinase | 900 | 901 | database:900 |
Rv2124c metH |
methionine synthase | 913 | 900 | database:900 |
Rv0815c cysA2 |
thiosulfate sulfurtransferase CysA | 903 | 900 | database:900 |
Rv2458 mmuM |
homocysteine S-methyltransferase MmuM | 903 | 900 | database:900 |
Rv3283 sseA |
thiosulfate sulfurtransferase SseA | 900 | 900 | database:900 |
Rv2213 pepB |
cytosol aminopeptidase | 816 | 817 | database:800 |
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: cystathionine beta-lyase
- MTBC0 PGAP product: MalY/PatB family protein
- Pfam (hmmscan --cut_ga): Aminotran_1_2 PF00155.28 (E=6e-31)
- (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_216810.1)
- Domains: Pfam-A via hmmscan --cut_ga — Aminotran_1_2 (PF00155.28)
- 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
COG1168 - Curated reference: UniProt P9WQ83 (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 — 36 functional partner(s)
- Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002434|Rv2294| MIPNPLEELTLEQLRSQRTSMKWRAHPADVLPLWVAEMDVKLPPTVADALRRAIDDGDTGYPYGTEYAEAVREFACQRWQWHDLEVSRTAIVPDVMLGIVEVLRLITDRGDPVIVNSPVYAPFYAFVSHDGRRVIPAPLRGDGRIDLDALQEAFSSARASSGSSGNVAYLLCNPHNPTGSVHTADELRGIAERAQRFGVRVVSDEIHAPLIPSGARFTPYLSVPGAENAFALMSASKAWNLGGLKAALAIAGREAAADLARMPEEVGHGPSHLGVIAHTAAFRTGGNWLDALLRGLDHNRTLLGALVDEHLPGVQYRWPQGTYLAWLDCRELGFDDAASDEMTEGLAVVSDLSGPARWFLDHARVALSSGHVFGIGGAGHVRINFATSRAILIEAVSRMSRSLLERR