1 Response_reg#1
27-138 aa · 112 aa · 46.5% of protein
Raw token
Response_reg:27:6.02e-28:138:112:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
APK78_RS01205
Response regulator NarL family
Bifidobacterium longum subsp. longum · GCF_001447975
ClassRRTypeNarLLength241 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_001447975#APK78_RS01205Stable P2CS identifier used across views.
GenomeGCF_001447975Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regHTH_LUXR
Protein length241 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage169 / 241 aa (70.1%)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
176-232 aa · 57 aa · 23.7% of protein
Raw token
HTH_LUXR:176:6.02e-16:232:58:58- Raw architecture: Response_reg:27:6.02e-28:138:112:111#HTH_LUXR:176:6.02e-16:232:58:58
- 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_001447975::NZ_LKSU01000003.1::G00006
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span49323-51315Genomic interval covered by the local TCS group.
Identifiers
Old locus tagAPK78_04410RefSeq proteinWP_007056206.1
Context group ID
GCF_001447975::NZ_LKSU01000003.1::G00006Context members
APK78_RS01200APK78_RS01205
Partner locus tags
APK78_RS01200APK78_RS01205
Partner old locus tags
APK78_04405APK78_04410
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_007056206.1Primary protein accession used for annex mappings.
UniProt accessionA0AA87IDU4Primary UniProt accession resolved in the annex database.
UniProt IDA0AA87IDU4_BIFLLDisplay identifier provided by UniProt.
GO / PubMed3 / 1Unique GO terms and literature references available below.
Reference hubs
GO terms
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagAPK78_RS01205Primary locus identifier stored in the genes table.
Old locus tagAPK78_04410Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_LKSU01000003.1Sequence record reported by the local genomic context database.
Genomic interval50 590-51 315 nt726 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span49 323-51 315 ntGCF_001447975::NZ_LKSU01000003.1::G00006
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_001447975::NZ_LKSU01000003.1::G00006Graphic 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_LKSU01000003.1All displayed genes belong to this local TCS context.
Neighborhood span49 323-51 315 nt1 993 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
49 323 nt51 315 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
APK78_RS01200GCF_001447975#APK78_RS01200
HKClassic
49 323-50 555 nt · Forward (+)
APK78_RS01205GCF_001447975#APK78_RS01205
RRNarLCurrent focus
50 590-51 315 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003135#HMPREF0175_RS02670Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Sigma70_r4_22 domains in the representative PFAM annotation.
PFAM architecture for RROC_0862556
Simplified PFAM architecture for RROC_0862556
PFAM domain coverage: 165 / 241 aa (68.5%)
1 aa241 aa
Response_regSigma70_r4_2
- Simplified architecture: Response_reg + Sigma70_r4_2
- Raw architecture: Response_reg[25-138] | Sigma70_r4_2[170-220]
- Domain count: 2
- Matched identifier: RROC_0862556
- Positioned domains: Response_reg 25-138 ; Response_reg 25-138 ; Sigma70_r4_2 170-220 ; Sigma70_r4_2 170-220
Cluster members and taxonomy
Representative gene: GCF_000003135#HMPREF0175_RS02670
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 679 · GCF_001447975
AssemblyASM144797v1 · Scaffoldhaploid
Genome composition2 235 579 bp · 60,0% GCBifidobacterium longum subsp. 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