1 Response_reg#1
4-121 aa · 118 aa · 52.0% of protein
Raw token
Response_reg:4:4.01e-25:121:118:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BIFBRE_RS04000
Response regulator NarL family
Bifidobacterium breve DSM 20213 = JCM 1192 · GCF_000158015
ClassRRTypeNarLLength227 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000158015#BIFBRE_RS04000Stable P2CS identifier used across views.
GenomeGCF_000158015Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regHTH_LUXR
Protein length227 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage175 / 227 aa (77.1%)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
Native P2CS viewFrontend rendering from the parsed domain string and TMPRED protein features.
1 aa227 aa
Domain-by-domain annotation2 items
2 HTH_LUXR#2
160-216 aa · 57 aa · 25.1% of protein
Raw token
HTH_LUXR:160:0.00000000000103:216:57:58- Raw architecture: Response_reg:4:4.01e-25:121:118:111#HTH_LUXR:160:0.00000000000103:216:57:58
- 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_000158015::NZ_GG729830.1::G00016
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span1344353-1346318Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBIFBRE_04139RefSeq proteinWP_003829522.1
Context group ID
GCF_000158015::NZ_GG729830.1::G00016Context members
BIFBRE_RS04005BIFBRE_RS04000
Partner locus tags
BIFBRE_RS04005BIFBRE_RS04000
Partner old locus tags
BIFBRE_04138BIFBRE_04139
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003829522.1Primary protein accession used for annex mappings.
UniProt accessionD4BPX3Primary UniProt accession resolved in the annex database.
UniProt IDD4BPX3_BIFBRDisplay 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 tagBIFBRE_RS04000Primary locus identifier stored in the genes table.
Old locus tagBIFBRE_04139Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_GG729830.1Sequence record reported by the local genomic context database.
Genomic interval1 345 635-1 346 318 nt684 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span1 344 353-1 346 318 ntGCF_000158015::NZ_GG729830.1::G00016
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000158015::NZ_GG729830.1::G00016Graphic 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_GG729830.1All displayed genes belong to this local TCS context.
Neighborhood span1 344 353-1 346 318 nt1 966 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
1 344 353 nt1 346 318 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
BIFBRE_RS04005GCF_000158015#BIFBRE_RS04005
HKClassic
1 344 353-1 345 642 nt · Forward (+)
BIFBRE_RS04000GCF_000158015#BIFBRE_RS04000
RRNarLCurrent focus
1 345 635-1 346 318 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000158015#BIFBRE_RS04000The current gene is the representative for this cluster.
PFAM architectureResponse_reg + GerE2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1354555
Simplified PFAM architecture for RROC_1354555
PFAM domain coverage: 173 / 227 aa (76.2%)
1 aa227 aa
Response_regGerE
- Simplified architecture: Response_reg + GerE
- Raw architecture: Response_reg[4-121] | GerE[161-215]
- Domain count: 2
- Matched identifier: RROC_1354555
- Positioned domains: Response_reg 4-121 ; Response_reg 4-121 ; GerE 161-215 ; GerE 161-215
Cluster members and taxonomy
Representative gene: GCF_000158015#BIFBRE_RS04000
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 518 634 · GCF_000158015
AssemblyASM15801v1 · Scaffoldhaploid
Genome composition2 331 386 bp · 58,5% GCBifidobacterium breve DSM 20213 = JCM 1192
Signal transduction countsGenes 27 · HK 10 · RR 15CheA 0 · PP 2
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key