1 Response_reg#1
3-106 aa · 104 aa · 47.9% of protein
Raw token
Response_reg:3:1.88e-22:106:104:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
GFJ40_RS04405
Response regulator NarL family
Bifidobacterium breve · GCF_009498435
ClassRRTypeNarLLength217 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_009498435#GFJ40_RS04405Stable P2CS identifier used across views.
GenomeGCF_009498435Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regHTH_LUXR
Protein length217 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage158 / 217 aa (72.8%)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
158-211 aa · 54 aa · 24.9% of protein
Raw token
HTH_LUXR:158:1.01e-19:211:54:58- Raw architecture: Response_reg:3:1.88e-22:106:104:111#HTH_LUXR:158:1.01e-19:211:54:58
- 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_009498435::NZ_CP045646.1::G00007
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span1051951-1053947Genomic interval covered by the local TCS group.
Identifiers
Old locus tagGFJ40_04580RefSeq proteinWP_016463188.1
Context group ID
GCF_009498435::NZ_CP045646.1::G00007Context members
GFJ40_RS04405GFJ40_RS04410
Partner locus tags
GFJ40_RS04405GFJ40_RS04410
Partner old locus tags
GFJ40_04580GFJ40_04585
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_016463188.1Primary protein accession used for annex mappings.
UniProt accessionA0A0L7B5L6Primary UniProt accession resolved in the annex database.
UniProt IDA0A0L7B5L6_BIFBRDisplay 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 tagGFJ40_RS04405Primary locus identifier stored in the genes table.
Old locus tagGFJ40_04580Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_CP045646.1Sequence record reported by the local genomic context database.
Genomic interval1 051 951-1 052 604 nt654 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span1 051 951-1 053 947 ntGCF_009498435::NZ_CP045646.1::G00007
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_009498435::NZ_CP045646.1::G00007Graphic 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_CP045646.1All displayed genes belong to this local TCS context.
Neighborhood span1 051 951-1 053 947 nt1 997 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
1 051 951 nt1 053 947 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
GFJ40_RS04405GCF_009498435#GFJ40_RS04405
RRNarLCurrent focus
1 051 951-1 052 604 nt · Reverse (-)
GFJ40_RS04410GCF_009498435#GFJ40_RS04410
HKClassic
1 052 601-1 053 947 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000226175#ISE_RS0108410Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + GerE2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1847921
Simplified PFAM architecture for RROC_1847921
PFAM domain coverage: 158 / 217 aa (72.8%)
1 aa217 aa
Response_regGerE
- Simplified architecture: Response_reg + GerE
- Raw architecture: Response_reg[3-107] | GerE[158-210]
- Domain count: 2
- Matched identifier: RROC_1847921
- Positioned domains: Response_reg 3-107 ; Response_reg 3-107 ; GerE 158-210 ; GerE 158-210
Cluster members and taxonomy
Representative gene: GCF_000226175#ISE_RS0108410
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 685 · GCF_009498435
AssemblyASM949843v1 · Complete Genomehaploid
Genome composition2 274 146 bp · 58,5% GCBifidobacterium breve
Signal transduction countsGenes 25 · HK 10 · RR 14CheA 0 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key