nusG Resolved · high auto-curated
H37Rv Rv0639 · MTBC0 mtbc0_000677 ·
238 aa · 737807–738523 (+) ·
RefSeq NP_215153.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | transcription termination/antitermination protein NusG |
|---|---|
| MTBC0 PGAP re-annotation | transcription termination/antitermination protein NusG |
| Revised (this work) | Transcription termination/antitermination protein NusG. Pfam: NusG (PF02357.25). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WIU9
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Transcription termination/antitermination protein NusG |
| Curated function | Participates in transcription elongation, termination and antitermination. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
K Transcription
|
|---|---|
| Preferred name | nusG |
| eggNOG description | Participates in transcription elongation, termination and antitermination |
| Orthologous group | COG0250 |
| KEGG orthology |
K02601
|
| Gene Ontology (32) |
GO:0005575, GO:0005618, GO:0005622, GO:0005623, GO:0005737, GO:0005829, GO:0005886, GO:0006355, GO:0008150, GO:0009889, GO:0010468, GO:0010556 +20 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 | 0.842 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 2 synonymous, 5 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 |
|---|---|---|---|---|
NusG | PF02357.25 | 7.2e-27 | 48–150 | Transcription termination factor nusG |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: rplK (50S ribosomal protein L11), high confidence from genomic context alone (score 998 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0640 rplK |
50S ribosomal protein L11 | 999 | 998 ctx | neighborhood:809 cooccurence:449 coexpression:967 experimental:446 textmining:569 |
Rv0638 secE1 |
preprotein translocase SecE | 996 | 994 ctx | neighborhood:835 coexpression:968 textmining:461 |
Rv0641 rplA |
50S ribosomal protein L1 | 994 | 988 ctx | neighborhood:745 coexpression:956 textmining:517 |
Rv0667 rpoB |
DNA-directed RNA polymerase subunit beta | 989 | 987 ctx | cooccurence:613 coexpression:820 experimental:812 |
Rv0668 rpoC |
DNA-directed RNA polymerase subunit beta' | 983 | 977 ctx | cooccurence:590 coexpression:498 experimental:887 |
Rv0707 rpsC |
30S ribosomal protein S3 | 975 | 969 | coexpression:857 experimental:681 |
Rv0719 rplF |
50S ribosomal protein L6 | 974 | 966 | coexpression:937 experimental:446 |
Rv0718 rpsH |
30S ribosomal protein S8 | 976 | 960 | coexpression:924 experimental:449 textmining:430 |
Rv0700 rpsJ |
30S ribosomal protein S10 | 976 | 959 | coexpression:826 experimental:685 textmining:452 |
Rv3457c rpoA |
DNA-directed RNA polymerase subunit alpha | 967 | 957 ctx | cooccurence:406 coexpression:861 experimental:497 |
Rv0652 rplL |
50S ribosomal protein L7/L12 | 967 | 954 ctx | cooccurence:496 coexpression:822 experimental:450 |
Rv2841c nusA |
transcription termination/antitermination protein NusA | 964 | 954 ctx | cooccurence:418 coexpression:784 experimental:652 |
Rv0705 rpsS |
30S ribosomal protein S19 | 953 | 950 | coexpression:907 experimental:446 |
Rv0702 rplD |
50S ribosomal protein L4 | 950 | 946 | coexpression:878 experimental:453 |
Rv0708 rplP |
50S ribosomal protein L16 | 947 | 945 | coexpression:884 experimental:448 |
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: transcription termination/antitermination protein NusG
- MTBC0 PGAP product: transcription termination/antitermination protein NusG
- Pfam (hmmscan --cut_ga): NusG PF02357.25 (E=7e-27)
- (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_215153.1)
- Domains: Pfam-A via hmmscan --cut_ga — NusG (PF02357.25)
- 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
COG0250 - Curated reference: UniProt P9WIU9 (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 —
172 functional partner(s); context anchor
rplK - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000677|Rv0639|nusG MTTFDGDTSAGEAVDLTEANAFQDAAAPAEEVDPAAALKAELRSKPGDWYVVHSYAGYENKVKANLETRVQNLDVGDYIFQVEVPTEEVTEIKNGQRKQVNRKVLPGYILVRMDLTDDSWAAVRNTPGVTGFVGATSRPSALALDDVVKFLLPRGSTRKAAKGAASTAAAAEAGGLERPVVEVDYEVGESVTVMDGPFATLPATISEVNAEQQKLKVLVSIFGRETPVELTFGQVSKI