Assembly
ASM5361327v1
BioProject PRJNA1347543 · BioSample SAMN52860235
GENOME-RESOLVED EVIDENCE
GCF_053613275.1
Caproicibacterium sp. NSD3 · Complete Genome
View versioned NCBI assembly →
Quality metadata
Genome size 2291919 bp · GC 43.500%
Completeness —% · contamination —%
Pathway marker completeness
| Module | Markers | Fraction | Call |
|---|---|---|---|
| bcd_etf_module | 0/3 | 0.000 | Partial/absent |
| ethanol_entry_support | 0/1 | 0.000 | Partial/absent |
| fatty_acid_biosynthesis_core | 5/8 | 0.625 | Partial/absent |
| lactate_entry_support | 0/2 | 0.000 | Partial/absent |
| reverse_beta_oxidation_core | 2/4 | 0.500 | Partial/absent |
| rnf_complex | 6/6 | 1.000 | Complete marker set |
Detected markers
| Marker | Function | Copies |
|---|
Profile-HMM marker predictions
Approved candidates and review records are genomic predictions, not evidence of expression or MCFA production. Excluded matches remain visible for audit.
| Marker / protein | Confidence | Review status | Score / coverage | Supporting evidence |
|---|---|---|---|---|
| accAWP_452103534.1 · acetyl-CoA carboxylase carboxyl transferase subunit alpha | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: gene_symbol | 352.700 / 0.94500 | Bridge orthogroup OG0001120 |
| accBWP_452103530.1 · acetyl-CoA carboxylase biotin carboxyl carrier protein | Medium | Approved candidatestrong profile plus independent annotation support: gene_symbol | 134.100 / 0.98100 | Annotation: gene_symbol |
| accCWP_452103532.1 · acetyl-CoA carboxylase biotin carboxylase subunit | Medium | Approved candidatestrong profile plus independent annotation support: gene_symbol | 628.200 / 0.99100 | Annotation: gene_symbol |
| accDWP_452103533.1 · acetyl-CoA carboxylase, carboxyltransferase subunit beta | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: gene_symbol | 375.800 / 0.93500 | Bridge orthogroup OG0000844 |
| crtWP_452102722.1 · enoyl-CoA hydratase-related protein | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: specific_product_name | 334.100 / 0.98500 | Bridge orthogroup OG0002531 |
| fabFWP_452103529.1 · beta-ketoacyl-ACP synthase II | Medium | Approved candidatestrong profile plus independent annotation support: gene_symbol | 522.400 / 0.99000 | Annotation: gene_symbol |
| fabGWP_452103528.1 · 3-oxoacyl-[acyl-carrier-protein] reductase | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: gene_symbol | 250.300 / 0.99600 | Bridge orthogroup OG0000008 |
| rnfAWP_452104422.1 · electron transport complex protein RnfA | High | Approved candidatestrong profile and bridge orthogroup support | 252.600 / 0.99500 | Bridge orthogroup OG0001169 |
| rnfBWP_452104421.1 · RnfABCDGE type electron transport complex subunit B | High | Approved candidatestrong profile and bridge orthogroup support | 258.000 / 0.93900 | Bridge orthogroup OG0001404 |
| rnfCWP_452104426.1 · electron transport complex subunit RsxC | High | Approved candidatestrong profile and bridge orthogroup support | 327.300 / 0.77600 | Bridge orthogroup OG0001114 |
| rnfDWP_452104425.1 · RnfABCDGE type electron transport complex subunit D | High | Approved candidatestrong profile and bridge orthogroup support | 376.400 / 0.94400 | Bridge orthogroup OG0001182 |
| rnfEWP_452104423.1 · electron transport complex subunit RsxE | High | Approved candidatestrong profile and bridge orthogroup support | 263.700 / 0.93800 | Bridge orthogroup OG0001153 |
| rnfGWP_452104424.1 · RnfABCDGE type electron transport complex subunit G | High | Approved candidatestrong profile and bridge orthogroup support | 142.900 / 0.91200 | Bridge orthogroup OG0001292 |
| thlWP_452103285.1 · thiolase family protein | High | Approved candidatestrong profile and bridge orthogroup support | 504.200 / 0.99500 | Bridge orthogroup OG0000010 |
| etfAWP_452102718.1 · acryloyl-CoA reductase electron transfer subunit beta | Low | Excluded: low confidenceprofile hit lacks strong score and bridge orthogroup support | 254.900 / 0.64000 | Profile only |
| accBWP_452102698.1 · biotin/lipoyl-containing protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 73.600 / 0.51200 | Bridge orthogroup OG0000034 |
| bcdWP_452102720.1 · acyl-CoA dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 620.000 / 0.99500 | Profile only |
| bcdWP_452104479.1 · acyl-CoA dehydrogenase family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 576.100 / 0.99700 | Profile only |
| crtWP_452103284.1 · enoyl-CoA hydratase/isomerase family protein | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 291.600 / 0.99600 | Annotation: specific_product_name |
| etfBWP_452102719.1 · acryloyl-CoA reductase electron transfer subunit gamma | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 295.100 / 1.00000 | Profile only |
| fabGWP_452103875.1 · elongation factor P 5-aminopentanone reductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 234.200 / 0.96800 | Profile only |
| fabGWP_452103663.1 · SDR family oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 202.400 / 0.99200 | Profile only |
| fabGWP_452103659.1 · SDR family NAD(P)-dependent oxidoreductase | High | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 106.000 / 0.82700 | Bridge orthogroup OG0000242 |
| fabHWP_452103525.1 · beta-ketoacyl-ACP synthase III | Medium | Needs reviewno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation | 231.700 / 0.98800 | Profile only |
| fabKWP_452103526.1 · nitronate monooxygenase | Medium | Needs reviewno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation | 467.100 / 0.99700 | Profile only |
| fabLWP_452103528.1 · 3-oxoacyl-[acyl-carrier-protein] reductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 207.300 / 0.98400 | Profile only |
| fabLWP_452103875.1 · elongation factor P 5-aminopentanone reductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 203.300 / 0.95600 | Profile only |
| fabLWP_452103663.1 · SDR family oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 190.500 / 0.98400 | Profile only |
| fabZWP_452103531.1 · 3-hydroxyacyl-ACP dehydratase FabZ family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 90.000 / 0.75400 | Bridge orthogroup OG0000074 |
| hbdWP_452102721.1 · 3-hydroxyacyl-CoA dehydrogenase NAD-binding domain-containing protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 407.800 / 0.98900 | Profile only |
| hbdWP_452103286.1 · 3-hydroxyacyl-CoA dehydrogenase family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 274.500 / 0.98900 | Profile only |
| ldhWP_452104420.1 · L-lactate dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 388.000 / 0.96200 | Profile only |
| ldhWP_452104213.1 · L-lactate dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 330.800 / 0.97500 | Profile only |
| ldhWP_452102995.1 · L-lactate dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 282.300 / 0.98400 | Profile only |
| thlWP_452102723.1 · acetyl-CoA C-acetyltransferase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 602.700 / 0.99200 | Profile only |
Protein-level evidence
| Gene | Protein | Orthogroup | Coordinates | Annotation |
|---|
These are genomic annotation predictions. Experimental activity, expression and metabolite production require separate evidence.