1 Response_reg#1
15-117 aa · 103 aa · 46.2% of protein
Raw token
Response_reg:15:0.0000000000551:117:103:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
RY67_RS03340
Response regulator NarL family
Bifidobacterium longum subsp. infantis · GCF_001281305
ClassRRTypeNarLLength223 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_001281305#RY67_RS03340Stable P2CS identifier used across views.
GenomeGCF_001281305Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regHTH_LUXR
Protein length223 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage158 / 223 aa (70.9%)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
160-214 aa · 55 aa · 24.7% of protein
Raw token
HTH_LUXR:160:0.000000000000001:214:55:58- Raw architecture: Response_reg:15:0.0000000000551:117:103:111#HTH_LUXR:160:0.000000000000001:214:55:58
- 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 labelorphanGCF_001281305::NZ_CP010411.1::G00003
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span815768-816439Genomic interval covered by the local TCS group.
Identifiers
Old locus tagRY67_721RefSeq proteinWP_060620353.1
Context group ID
GCF_001281305::NZ_CP010411.1::G00003Context members
RY67_RS03340
Partner locus tags
RY67_RS03340
Partner old locus tags
RY67_721
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
No UniProt / GO / PubMed mapping was found for WP_060620353.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagRY67_RS03340Primary locus identifier stored in the genes table.
Old locus tagRY67_721Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_CP010411.1Sequence record reported by the local genomic context database.
Genomic interval815 768-816 439 nt672 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span815 768-816 439 ntGCF_001281305::NZ_CP010411.1::G00003
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_001281305::NZ_CP010411.1::G00003Graphic view
Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.
Context labelorphanNeighborhood members are ordered by genomic coordinates.
Contig / repliconNZ_CP010411.1All displayed genes belong to this local TCS context.
Neighborhood span815 768-816 439 nt672 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
815 768 nt816 439 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
RY67_RS03340GCF_001281305#RY67_RS03340
RRNarLCurrent focus
815 768-816 439 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_001281305#RY67_RS03340The current gene is the representative for this cluster.
PFAM architectureResponse_reg + GerE2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1592969
Simplified PFAM architecture for RROC_1592969
PFAM domain coverage: 159 / 223 aa (71.3%)
1 aa223 aa
Response_regGerE
- Simplified architecture: Response_reg + GerE
- Raw architecture: Response_reg[15-120] | GerE[162-214]
- Domain count: 2
- Matched identifier: RROC_1592969
- Positioned domains: Response_reg 15-120 ; Response_reg 15-120 ; GerE 162-214 ; GerE 162-214
Cluster members and taxonomy
Representative gene: GCF_001281305#RY67_RS03340
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 682 · GCF_001281305
AssemblyASM128130v1 · Complete Genomehaploid
Genome composition2 578 115 bp · 59,5% GCBifidobacterium longum subsp. infantis
Signal transduction countsGenes 40 · HK 13 · RR 24CheA 0 · PP 3
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key