1 Response_reg#1
9-133 aa · 125 aa · 50.4% of protein
Raw token
Response_reg:9:3.69e-28:133:125:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
APC1473_RS03810
Response regulator NarL family
Bifidobacterium longum · GCF_002833125
ClassRRTypeNarLLength248 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_002833125#APC1473_RS03810Stable P2CS identifier used across views.
GenomeGCF_002833125Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regHTH_LUXR
Protein length248 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage183 / 248 aa (73.8%)Merged over positioned domains only.
Domain description1 Response_reg,1 HTH_LUXRSummary string stored in the genes table.
Signal peptideUnavailableNo TMPRED prediction file matched this gene.
Transmembrane helicesUnavailableConfigure [protein_features] tmpred_root_dir to enable this annotation.
Complete domain annotations
Biotite-like viewServer-side Python rendering inspired by the Biotite sigma-domain example.
Domain-by-domain annotation2 items
2 HTH_LUXR#2
185-242 aa · 58 aa · 23.4% of protein
Raw token
HTH_LUXR:185:2.64e-23:242:58:58- Raw architecture: Response_reg:9:3.69e-28:133:125:111#HTH_LUXR:185:2.64e-23:242:58:58
- Domain description: 1 Response_reg,1 HTH_LUXR
- TM description: N/A
- TMPRED source: No TMPRED file loaded
- TMPRED segments: N/A
- Complete: Yes
Context mapping
Resolved via p2cs_tcs_context.db when a locus tag match exists
Context labelpairedGCF_002833125::NZ_PJDZ01000017.1::G00005
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span44463-47894Genomic interval covered by the local TCS group.
Identifiers
Old locus tagAPC1473_0710RefSeq proteinWP_007052073.1
Context group ID
GCF_002833125::NZ_PJDZ01000017.1::G00005Context members
APC1473_RS03810APC1473_RS03815
Partner locus tags
APC1473_RS03810APC1473_RS03815
Partner old locus tags
APC1473_0710APC1473_0711
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_007052073.1Primary protein accession used for annex mappings.
UniProt accessionA0AAW4NFK7Primary UniProt accession resolved in the annex database.
UniProt IDA0AAW4NFK7_BIFLNDisplay identifier provided by UniProt.
GO / PubMed3 / 0Unique GO terms and literature references available below.
Reference hubs
GO terms
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagAPC1473_RS03810Primary locus identifier stored in the genes table.
Old locus tagAPC1473_0710Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_PJDZ01000017.1Sequence record reported by the local genomic context database.
Genomic interval44 463-45 209 nt747 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span44 463-47 894 ntGCF_002833125::NZ_PJDZ01000017.1::G00005
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_002833125::NZ_PJDZ01000017.1::G00005Graphic view
Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.
Context labelpairedNeighborhood members are ordered by genomic coordinates.
Contig / repliconNZ_PJDZ01000017.1All displayed genes belong to this local TCS context.
Neighborhood span44 463-47 894 nt3 432 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
44 463 nt47 894 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
APC1473_RS03810GCF_002833125#APC1473_RS03810
RRNarLCurrent focus
44 463-45 209 nt · Reverse (-)
APC1473_RS03815GCF_002833125#APC1473_RS03815
HKClassic
45 285-47 894 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000007525#BL_RS03185Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + GerE2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0743183
Simplified PFAM architecture for RROC_0743183
PFAM domain coverage: 180 / 248 aa (72.6%)
1 aa248 aa
Response_regGerE
- Simplified architecture: Response_reg + GerE
- Raw architecture: Response_reg[9-132] | GerE[187-242]
- Domain count: 2
- Matched identifier: RROC_0743183
- Positioned domains: Response_reg 9-132 ; Response_reg 9-132 ; GerE 187-242 ; GerE 187-242
Cluster members and taxonomy
Representative gene: GCF_000007525#BL_RS03185
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 216 816 · GCF_002833125
AssemblyASM283312v1 · Contighaploid
Genome composition2 317 071 bp · 60,0% GCBifidobacterium longum
Signal transduction countsGenes 23 · HK 10 · RR 11CheA 0 · PP 2
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key