corA Resolved · high auto-curated
H37Rv Rv1239c · MTBC0 mtbc0_001328 ·
366 aa · 1390386–1391486 (-) ·
RefSeq NP_215755.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | magnesium and cobalt transport transmembrane protein CorA |
|---|---|
| MTBC0 PGAP re-annotation | magnesium/cobalt transporter CorA |
| Revised (this work) | Magnesium/cobalt transporter CorA. Pfam: CorA (PF01544.24). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
O50455
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Magnesium transport protein CorA |
| Curated function | Mediates influx of magnesium ions. Alternates between open and closed states. Activated by low cytoplasmic Mg(2+) levels. Inactive when cytoplasmic Mg(2+) levels are high. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
P Inorganic ion transport and metabolism
|
|---|---|
| Preferred name | corA |
| eggNOG description | Mediates influx of magnesium ions |
| Orthologous group | COG0598 |
| KEGG orthology |
K03284
|
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 | 0.304 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 3 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 |
|---|---|---|---|---|
CorA | PF01544.24 | 3.8e-61 | 68–361 | CorA-like Mg2+ transporter protein |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: mdh (malate dehydrogenase), high confidence from genomic context alone (score 782 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1240 mdh |
malate dehydrogenase | 782 | 782 ctx | neighborhood:765 |
Rv1364c |
sigma factor regulatory protein | 581 | 581 | coexpression:496 |
Rv1244 lpqZ |
lipoprotein LpqZ | 549 | 549 ctx | neighborhood:544 |
Rv2323c hyp |
hypothetical protein | 464 | 465 | |
Rv1234 |
transmembrane protein | 440 | 441 | coexpression:423 |
Rv1241 vapB33 |
antitoxin VapB33 | 427 | 427 ctx | neighborhood:421 |
Rv1242 vapC33 |
ribonuclease VapC33 | 424 | 425 ctx | neighborhood:421 |
Rv3101c ftsX |
cell division protein FtsX | 421 | 421 | coexpression:402 |
Rv1232c hyp |
hypothetical protein | 436 | 207 | |
Rv1833c dhmA2 |
haloalkane dehalogenase | 871 | 50 | textmining:870 |
Rv2338c moeW |
molybdopterin biosynthesis protein MoeW | 513 | 46 | textmining:511 |
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: magnesium and cobalt transport transmembrane protein CorA
- MTBC0 PGAP product: magnesium/cobalt transporter CorA
- Pfam (hmmscan --cut_ga): CorA PF01544.24 (E=4e-61)
- (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_215755.1)
- Domains: Pfam-A via hmmscan --cut_ga — CorA (PF01544.24)
- 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
COG0598 - Curated reference: UniProt O50455 (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 —
11 functional partner(s); context anchor
mdh - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001328|Rv1239c|corA MFPGFDALPEVLRPVARPQPPNAHPVAQPPAQALVDCGVYVCGQRLPGKYTYAAALREVREIELTGQEAFVWIGLHEPDENQMQDVADVFGLHPLAVEDAVHAHQRPKLERYDETLFLVLKTVNYVPHESVVLAREIVETGEIMIFVGKDFVVTVRHGEHGGLSEVRKRMDADPEHLRLGPYAVMHAIADYVVDHYLEVTNLMETDIDSIEEVAFAPGRKLDIEPIYLLKREVVELRRCVNPLSTAFQRMQTESKDLISKEVRRYLRDVADHQTEAADQIASYDDMLNSLVQAALARVGMQQNMDMRKISAWAGIIAVPTMIAGIYGMNFHFMPELDSRWGYPTVIGGMVLICLFLYHVFRNRNWL