1 Response_reg#1
3-106 aa · 104 aa · 47.9% of protein
Raw token
Response_reg:3:1.55e-21:106:104:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
EK3BL_RS08960
Response regulator NarL family
Bifidobacterium longum subsp. infantis EK3 · GCF_000730125
ClassRRTypeNarLLength217 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000730125#EK3BL_RS08960Stable P2CS identifier used across views.
GenomeGCF_000730125Bacteria; 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:158:2.43e-20:211:54:58- Raw architecture: Response_reg:3:1.55e-21:106:104:111#HTH_LUXR:158:2.43e-20:211:54:58
- 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_000730125::NZ_JNWB01000006.1::G00004
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span40009-42014Genomic interval covered by the local TCS group.
Identifiers
Old locus tagEK3BL_10395RefSeq proteinWP_032743675.1
Context group ID
GCF_000730125::NZ_JNWB01000006.1::G00004Context members
EK3BL_RS08960EK3BL_RS08955
Partner locus tags
EK3BL_RS08960EK3BL_RS08955
Partner old locus tags
EK3BL_10395EK3BL_10400
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_032743675.1Primary protein accession used for annex mappings.
UniProt accessionA0A7D5C7Y9Primary UniProt accession resolved in the annex database.
UniProt IDA0A7D5C7Y9_BIFLIDisplay 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 tagEK3BL_RS08960Primary locus identifier stored in the genes table.
Old locus tagEK3BL_10395Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JNWB01000006.1Sequence record reported by the local genomic context database.
Genomic interval40 009-40 662 nt654 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span40 009-42 014 ntGCF_000730125::NZ_JNWB01000006.1::G00004
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000730125::NZ_JNWB01000006.1::G00004Graphic 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_JNWB01000006.1All displayed genes belong to this local TCS context.
Neighborhood span40 009-42 014 nt2 006 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
40 009 nt42 014 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
EK3BL_RS08960GCF_000730125#EK3BL_RS08960
RRNarLCurrent focus
40 009-40 662 nt · Reverse (-)
EK3BL_RS08955GCF_000730125#EK3BL_RS08955
HKClassic
40 662-42 014 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000730125#EK3BL_RS08960The current gene is the representative for this cluster.
PFAM architectureResponse_reg + GerE2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1849737
Simplified PFAM architecture for RROC_1849737
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_1849737
- Positioned domains: Response_reg 3-107 ; Response_reg 3-107 ; GerE 158-210 ; GerE 158-210
Cluster members and taxonomy
Representative gene: GCF_000730125#EK3BL_RS08960
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 457 183 · GCF_000730125
AssemblyASM73012v1 · Scaffoldhaploid
Genome composition2 564 809 bp · 59,5% GCBifidobacterium longum subsp. infantis EK3
Signal transduction countsGenes 39 · HK 12 · RR 22CheA 0 · PP 5
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key