Assembly
ASM5104685v1
BioProject PRJNA1213050 · BioSample SAMN46317171
GENOME-RESOLVED EVIDENCE
GCA_051046855.1
Sporomusa sphaeroides · Complete Genome
View versioned NCBI assembly →
Quality metadata
Genome size 4844680 bp · GC 47.500%
Completeness —% · contamination —%
Pathway marker completeness
| Module | Markers | Fraction | Call |
|---|---|---|---|
| bcd_etf_module | 3/3 | 1.000 | Complete marker set |
| ethanol_entry_support | 0/1 | 0.000 | Partial/absent |
| fatty_acid_biosynthesis_core | 3/8 | 0.375 | Partial/absent |
| lactate_entry_support | 2/2 | 1.000 | Complete marker set |
| reverse_beta_oxidation_core | 3/4 | 0.750 | 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 |
|---|---|---|---|---|
| bcdWP_188399423.1 · acyl-CoA dehydrogenase | Medium | Approved candidateContext-supported Bcd candidate: calibrated profile hit co-localized with independently approved EtfA and EtfB within six CDS positions. | 598.400 / 1.00000 | Annotation: bcd_etfAB_neighborhood |
| bcdWP_250727467.1 · acyl-CoA dehydrogenase | Medium | Approved candidateContext-supported Bcd candidate: calibrated profile hit co-localized with independently approved EtfA and EtfB within six CDS positions. | 593.800 / 1.00000 | Annotation: bcd_etfAB_neighborhood |
| bcdWP_188397847.1 · acyl-CoA dehydrogenase | Medium | Approved candidateContext-supported Bcd candidate: calibrated profile hit co-localized with independently approved EtfA and EtfB within six CDS positions. | 585.300 / 1.00000 | Annotation: bcd_etfAB_neighborhood |
| etfAWP_434131448.1 · FAD-binding protein | High | Approved candidatestrong profile and bridge orthogroup support | 458.300 / 0.98200 | Bridge orthogroup OG0001385 |
| etfAWP_075752287.1 · electron transfer flavoprotein subunit alpha | High | Approved candidatestrong profile and bridge orthogroup support | 456.200 / 0.97900 | Bridge orthogroup OG0001385 |
| etfAWP_434132086.1 · FAD-binding protein | High | Approved candidatestrong profile and bridge orthogroup support | 452.700 / 0.97900 | Bridge orthogroup OG0001385 |
| etfAWP_434133114.1 · FAD-binding protein | High | Approved candidatestrong profile and bridge orthogroup support | 443.200 / 0.98800 | Bridge orthogroup OG0001385 |
| etfAWP_434133124.1 · FAD-binding protein | High | Approved candidatestrong profile and bridge orthogroup support | 439.700 / 0.97600 | Bridge orthogroup OG0002903 |
| etfAWP_434133828.1 · FAD-binding protein | High | Approved candidatestrong profile and bridge orthogroup support | 425.900 / 0.98500 | Bridge orthogroup OG0001385 |
| etfBWP_188397848.1 · electron transfer flavoprotein subunit beta/FixA family protein | High | Approved candidatestrong profile and bridge orthogroup support | 387.200 / 1.00000 | Bridge orthogroup OG0001139 |
| etfBWP_250727465.1 · electron transfer flavoprotein subunit beta/FixA family protein | High | Approved candidatestrong profile and bridge orthogroup support | 386.200 / 1.00000 | Bridge orthogroup OG0001139 |
| etfBWP_075755776.1 · electron transfer flavoprotein subunit beta/FixA family protein | High | Approved candidatestrong profile and bridge orthogroup support | 384.500 / 1.00000 | Bridge orthogroup OG0001139 |
| etfBWP_075752289.1 · electron transfer flavoprotein subunit beta/FixA family protein | High | Approved candidatestrong profile and bridge orthogroup support | 384.400 / 1.00000 | Bridge orthogroup OG0001139 |
| etfBWP_434132085.1 · electron transfer flavoprotein subunit beta/FixA family protein | High | Approved candidatestrong profile and bridge orthogroup support | 375.800 / 1.00000 | Bridge orthogroup OG0001139 |
| etfBWP_342466693.1 · electron transfer flavoprotein subunit beta/FixA family protein | High | Approved candidatestrong profile and bridge orthogroup support | 355.700 / 0.99600 | Bridge orthogroup OG0002348 |
| fabDWP_250728291.1 · ACP S-malonyltransferase | Medium | Approved candidatestrong profile plus independent annotation support: gene_symbol | 389.700 / 0.98700 | Annotation: gene_symbol |
| fabFWP_250728288.1 · beta-ketoacyl-ACP synthase II | Medium | Approved candidatestrong profile plus independent annotation support: gene_symbol | 664.400 / 0.99300 | Annotation: gene_symbol |
| fabGWP_250728289.1 · 3-oxoacyl-[acyl-carrier-protein] reductase | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: gene_symbol | 285.100 / 0.99600 | Bridge orthogroup OG0000008 |
| fabZWP_075757254.1 · 3-hydroxyacyl-ACP dehydratase FabZ | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: gene_symbol | 165.500 / 0.75400 | Bridge orthogroup OG0000074 |
| hbdWP_250727025.1 · 3-hydroxyacyl-CoA dehydrogenase family protein | High | Approved candidatestrong profile and bridge orthogroup support | 339.200 / 0.98900 | Bridge orthogroup OG0000153 |
| hbdWP_188398221.1 · 3-hydroxyacyl-CoA dehydrogenase family protein | High | Approved candidatestrong profile and bridge orthogroup support | 251.400 / 0.98900 | Bridge orthogroup OG0000153 |
| lctPWP_250725312.1 · L-lactate permease | High | Approved candidatestrong profile and bridge orthogroup support | 443.500 / 0.99000 | Bridge orthogroup OG0000731 |
| lctPWP_075754421.1 · L-lactate permease | High | Approved candidatestrong profile and bridge orthogroup support | 431.800 / 0.98400 | Bridge orthogroup OG0000731 |
| lctPWP_434133310.1 · L-lactate permease | High | Approved candidatestrong profile and bridge orthogroup support | 368.900 / 0.97200 | Bridge orthogroup OG0000731 |
| ldhWP_188399828.1 · malate dehydrogenase | High | Approved candidatestrong profile and bridge orthogroup support | 252.000 / 0.97200 | Bridge orthogroup OG0001800 |
| rnfAWP_075754585.1 · electron transport complex protein RnfA | High | Approved candidatestrong profile and bridge orthogroup support | 270.700 / 0.99500 | Bridge orthogroup OG0001169 |
| rnfBWP_342466514.1 · RnfABCDGE type electron transport complex subunit B | High | Approved candidatestrong profile and bridge orthogroup support; annotation support: gene_symbol | 337.600 / 0.92900 | Bridge orthogroup OG0001404 |
| rnfCWP_075754579.1 · electron transport complex subunit RsxC | High | Approved candidatestrong profile and bridge orthogroup support | 414.400 / 0.74800 | Bridge orthogroup OG0001114 |
| rnfDWP_075754581.1 · RnfABCDGE type electron transport complex subunit D | High | Approved candidatestrong profile and bridge orthogroup support | 501.000 / 0.95600 | Bridge orthogroup OG0001182 |
| rnfEWP_223226006.1 · electron transport complex subunit RsxE | High | Approved candidatestrong profile and bridge orthogroup support | 272.300 / 0.96200 | Bridge orthogroup OG0001153 |
| rnfGWP_075754583.1 · RnfABCDGE type electron transport complex subunit G | High | Approved candidatestrong profile and bridge orthogroup support | 149.300 / 0.90700 | Bridge orthogroup OG0001292 |
| thlWP_075753365.1 · thiolase family protein | High | Approved candidatestrong profile and bridge orthogroup support | 494.200 / 0.99700 | Bridge orthogroup OG0000010 |
| accCWP_342466427.1 · pyruvate carboxylase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 515.100 / 0.98400 | Profile only |
| bcdWP_250729035.1 · acyl-CoA dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 581.600 / 1.00000 | Profile only |
| bcdWP_434133012.1 · acyl-CoA dehydrogenase family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 487.500 / 0.99700 | Profile only |
| bcdWP_250726607.1 · acyl-CoA dehydrogenase family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 487.000 / 1.00000 | Profile only |
| bcdWP_434133292.1 · acyl-CoA dehydrogenase family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 421.800 / 0.99500 | Profile only |
| bcdWP_075756671.1 · acyl-CoA dehydrogenase family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 362.300 / 0.99700 | Profile only |
| crtWP_324323428.1 · short-chain-enoyl-CoA hydratase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 387.900 / 0.99600 | Annotation: specific_product_name |
| crtWP_250729033.1 · enoyl-CoA hydratase-related protein | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 359.700 / 0.99600 | Annotation: specific_product_name |
| crtWP_324323099.1 · enoyl-CoA hydratase-related protein | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 348.600 / 0.98100 | Annotation: specific_product_name |
| etfAWP_250726602.1 · electron transfer flavoprotein subunit alpha/FixB family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 355.700 / 0.96700 | Profile only |
| etfAWP_434133288.1 · electron transfer flavoprotein subunit alpha/FixB family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 207.400 / 0.92300 | Profile only |
| etfBWP_250726598.1 · electron transfer flavoprotein subunit beta/FixA family protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 206.200 / 0.98900 | Profile only |
| fabGWP_075752303.1 · beta-ketoacyl-ACP reductase | High | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 246.500 / 0.98400 | Bridge orthogroup OG0000008 |
| fabGWP_075753357.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 228.400 / 0.98000 | Profile only |
| fabGWP_188400090.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 198.300 / 0.98400 | Profile only |
| fabGWP_373325374.1 · SDR family NAD(P)-dependent oxidoreductase | High | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 181.700 / 0.98400 | Bridge orthogroup OG0000008 |
| fabGWP_075755421.1 · SDR family oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 177.500 / 0.98800 | Profile only |
| fabHWP_250728292.1 · beta-ketoacyl-ACP synthase III | Medium | Needs reviewno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation | 343.800 / 0.99400 | Profile only |
| fabHWP_188399254.1 · beta-ketoacyl-ACP synthase III | Medium | Needs reviewno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation | 342.900 / 0.99400 | Profile only |
| fabKWP_250728386.1 · DUF561 domain-containing protein | Medium | Needs reviewno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation | 439.700 / 0.92400 | Profile only |
| fabKWP_342466665.1 · nitronate monooxygenase | Medium | Needs reviewno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation | 412.800 / 0.98400 | Profile only |
| fabKWP_075754969.1 · NAD(P)H-dependent flavin oxidoreductase | Medium | Needs reviewno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation | 263.000 / 0.93300 | Profile only |
| fabLWP_075753357.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 209.700 / 0.97200 | Profile only |
| fabLWP_075752303.1 · beta-ketoacyl-ACP reductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 196.400 / 0.98800 | Profile only |
| fabLWP_373325374.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 185.800 / 0.97200 | Profile only |
| fabLWP_188400090.1 · SDR family NAD(P)-dependent oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 185.400 / 0.97200 | Profile only |
| fabLWP_075755421.1 · SDR family oxidoreductase | Medium | Needs reviewextreme per-proteome copy number; profile alone is not function-specific | 173.500 / 0.97200 | Profile only |
| hbdWP_075752283.1 · 3-hydroxybutyryl-CoA dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 413.100 / 1.00000 | Profile only |
| hbdWP_188398235.1 · 3-hydroxybutyryl-CoA dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 409.900 / 0.99600 | Profile only |
| hbdWP_250729031.1 · 3-hydroxybutyryl-CoA dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 403.600 / 0.99600 | Profile only |
| hbdWP_434133823.1 · 3-hydroxybutyryl-CoA dehydrogenase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 397.500 / 0.99300 | Profile only |
| rnfCWP_434132499.1 · SLBB domain-containing protein | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 500.000 / 0.99100 | Profile only |
| thlWP_188399422.1 · acetyl-CoA C-acetyltransferase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 617.900 / 0.99700 | Profile only |
| thlWP_434133824.1 · acetyl-CoA C-acetyltransferase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 607.400 / 0.99700 | Profile only |
| thlWP_250727033.1 · acetyl-CoA C-acetyltransferase | Medium | Needs reviewretain confidence tier and orthogroup-support fields during import | 606.600 / 0.99700 | Profile only |
| fabLWP_250728289.1 · 3-oxoacyl-[acyl-carrier-protein] reductase | Medium | RejectedSpecific CDD hits identify the sequence as FabG/3-oxoacyl-ACP reductase rather than FabL. | 224.800 / 0.97200 | Annotation: CDD_competing_FabG_signature |
Protein-level evidence
| Gene | Protein | Orthogroup | Coordinates | Annotation |
|---|
These are genomic annotation predictions. Experimental activity, expression and metabolite production require separate evidence.