1 Response_reg#1
3-106 aa · 104 aa · 45.2% of protein
Raw token
Response_reg:3:4.4e-22:106:108:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
GBA87_RS00040
Response regulator NarL family
Bifidobacterium bifidum · GCF_009159495
ClassRRTypeNarLLength230 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_009159495#GBA87_RS00040Stable P2CS identifier used across views.
GenomeGCF_009159495Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regHTH_LUXR
Protein length230 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage160 / 230 aa (69.6%)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
168-223 aa · 56 aa · 24.3% of protein
Raw token
HTH_LUXR:168:7.11e-19:223:56:58- Raw architecture: Response_reg:3:4.4e-22:106:108:111#HTH_LUXR:168:7.11e-19:223:56:58
- 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_009159495::NZ_WDOY01000001.1::G00002
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span6595-8567Genomic interval covered by the local TCS group.
Identifiers
Old locus tagGBA87_00040RefSeq proteinWP_021648363.1
Context group ID
GCF_009159495::NZ_WDOY01000001.1::G00002Context members
GBA87_RS00035GBA87_RS00040
Partner locus tags
GBA87_RS00035GBA87_RS00040
Partner old locus tags
GBA87_00035GBA87_00040
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_021648363.1Primary protein accession used for annex mappings.
UniProt accessionA0ABN5UVV7Primary UniProt accession resolved in the annex database.
UniProt IDA0ABN5UVV7_BIFBIDisplay identifier provided by UniProt.
GO / PubMed0 / 1Unique GO terms and literature references available below.
Reference hubs
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagGBA87_RS00040Primary locus identifier stored in the genes table.
Old locus tagGBA87_00040Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_WDOY01000001.1Sequence record reported by the local genomic context database.
Genomic interval7 875-8 567 nt693 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span6 595-8 567 ntGCF_009159495::NZ_WDOY01000001.1::G00002
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_009159495::NZ_WDOY01000001.1::G00002Graphic 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_WDOY01000001.1All displayed genes belong to this local TCS context.
Neighborhood span6 595-8 567 nt1 973 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
6 595 nt8 567 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
GBA87_RS00035GCF_009159495#GBA87_RS00035
HKClassic
6 595-7 878 nt · Forward (+)
GBA87_RS00040GCF_009159495#GBA87_RS00040
RRNarLCurrent focus
7 875-8 567 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000466525#BIFBIF_RS06625Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + GerE2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1202484
Simplified PFAM architecture for RROC_1202484
PFAM domain coverage: 159 / 230 aa (69.1%)
1 aa230 aa
Response_regGerE
- Simplified architecture: Response_reg + GerE
- Raw architecture: Response_reg[3-107] | GerE[170-223]
- Domain count: 2
- Matched identifier: RROC_1202484
- Positioned domains: Response_reg 3-107 ; Response_reg 3-107 ; GerE 170-223 ; GerE 170-223
Cluster members and taxonomy
Representative gene: GCF_000466525#BIFBIF_RS06625
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 681 · GCF_009159495
AssemblyASM915949v1 · Scaffoldhaploid
Genome composition2 327 549 bp · 62,5% GCBifidobacterium bifidum
Signal transduction countsGenes 24 · HK 11 · RR 13CheA 0 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key