purB Resolved · high auto-curated
H37Rv Rv0777 · MTBC0 mtbc0_000826 ·
472 aa · 874432–875850 (+) ·
RefSeq NP_215291.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | adenylosuccinate lyase PurB |
|---|---|
| MTBC0 PGAP re-annotation | adenylosuccinate lyase |
| Revised (this work) | Adenylosuccinate lyase. Pfam: Lyase_1 (PF00206.26), ADSL_C (PF10397.15). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
I6XWA1
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Adenylosuccinate lyase |
| EC (curated) |
EC 4.3.2.2
|
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
F Nucleotide transport and metabolism
|
|---|---|
| Preferred name | purB |
| eggNOG description | Belongs to the lyase 1 family. Adenylosuccinate lyase subfamily |
| Orthologous group | COG0015 |
| EC number |
EC 4.3.2.2
|
| KEGG orthology |
K01756
|
| KEGG pathways |
map00230, map00250, map01100, map01110, map01130
|
| KEGG modules |
M00048, M00049
|
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 | 0.087 · strong purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 4 synonymous, 1 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 |
|---|---|---|---|---|
Lyase_1 | PF00206.26 | 7.7e-24 | 31–297 | Lyase |
ADSL_C | PF10397.15 | 3.4e-15 | 366–449 | Adenylosuccinate lyase C-terminus |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: cyp126 (cytochrome P450 Cyp126), high confidence from genomic context alone (score 884 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0780 purC |
phosphoribosylaminoimidazole-succinocarboxamide synthase | 997 | 992 | coexpression:857 database:900 textmining:738 |
Rv0957 purH |
bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/inosinemonophosphate cyclohydrolase | 998 | 989 | coexpression:850 database:900 textmining:846 |
Rv0357c purA |
adenylosuccinate synthetase | 998 | 989 | coexpression:834 database:900 textmining:861 |
Rv2584c apt |
adenine phosphoribosyltransferase | 979 | 963 | coexpression:402 database:900 textmining:485 |
Rv0733 adk |
adenylate kinase | 971 | 943 | database:900 textmining:517 |
Rv2524c fas |
fatty acid synthase | 941 | 936 | coexpression:922 |
Rv2202c adoK |
adenosine kinase | 945 | 922 | database:900 |
Rv1659 argH |
argininosuccinate lyase | 956 | 916 | database:900 textmining:510 |
Rv0808 purF |
amidophosphoribosyltransferase | 945 | 914 | coexpression:857 |
Rv0772 purD |
phosphoribosylamine--glycine ligase | 986 | 909 | coexpression:851 textmining:854 |
Rv0805 cpdA |
3',5'-cyclic adenosine monophosphate phosphodiesterase CpdA | 901 | 901 | database:900 |
Rv0778 cyp126 |
cytochrome P450 Cyp126 | 954 | 884 ctx | neighborhood:881 textmining:625 |
Rv3275c purE |
5-(carboxyamino)imidazole ribonucleotide mutase | 920 | 874 | coexpression:856 |
Rv3276c purK |
5-(carboxyamino)imidazole ribonucleotide synthase | 978 | 870 | coexpression:859 textmining:845 |
Rv0803 purL |
phosphoribosylformylglycinamidine synthase 2 | 899 | 869 | coexpression:850 |
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: adenylosuccinate lyase PurB
- MTBC0 PGAP product: adenylosuccinate lyase
- Pfam (hmmscan --cut_ga): Lyase_1 PF00206.26 (E=8e-24), ADSL_C PF10397.15 (E=3e-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_215291.1)
- Domains: Pfam-A via hmmscan --cut_ga — Lyase_1 (PF00206.26), ADSL_C (PF10397.15)
- 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
COG0015 - Curated reference: UniProt I6XWA1 (TrEMBL, unreviewed; 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 —
112 functional partner(s); context anchor
cyp126 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000826|Rv0777|purB MSIPNVLATRYASAEMVAIWSPEAKVVSERRLWLAVLRAQAELGVAVADSVLADYERVVDDVDLASISARERVLRHDVKARIEEFNALAGHEHVHKGMTSRDLTENVEQLQIRRSLEVIFAHGVAAVARLAERAVSYRDLIMAGRSHNVAAQATTLGKRFASAAQEMMIALRRLRELIDRYPLRGIKGPMGTGQDMLDLLGGDRAALADLERRVADFLGFATVFNSVGQVYPRSLDHDVVSALVQLGAGPSSLAHTIRLMAGHELATEGFAPGQVGSSAMPHKMNTRSCERVNGLQVVLRGYASMVAELAGAQWNEGDVFCSVVRRVALPDSFFAVDGQIETFLTVLDEFGAYPAVIGRELDRYLPFLATTKVLMAAVRAGMGRESAHRLISEHAVATALAMREHGAEPDLLDRLAADPRLPLGRDALEAALADKKAFAGAAGDQVDDVVAMVDALVSRYPDAAKYTPGAIL