1 Response_reg#1
3-106 aa · 104 aa · 47.9% of protein
Raw token
Response_reg:3:1.93e-21:106:104:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
APC1473_RS03965
Response regulator NarL family
Bifidobacterium longum · GCF_002833125
ClassRRTypeNarLLength217 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_002833125#APC1473_RS03965Stable P2CS identifier used across views.
GenomeGCF_002833125Bacteria; 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:158:5.39e-20:211:54:58- Raw architecture: Response_reg:3:1.93e-21:106:104:111#HTH_LUXR:158:5.39e-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_002833125::NZ_PJDZ01000017.1::G00006
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span79734-81739Genomic interval covered by the local TCS group.
Identifiers
Old locus tagAPC1473_0740RefSeq proteinWP_101026416.1
Context group ID
GCF_002833125::NZ_PJDZ01000017.1::G00006Context members
APC1473_RS03965APC1473_RS03970
Partner locus tags
APC1473_RS03965APC1473_RS03970
Partner old locus tags
APC1473_0740APC1473_0741
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_101026416.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagAPC1473_RS03965Primary locus identifier stored in the genes table.
Old locus tagAPC1473_0740Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_PJDZ01000017.1Sequence record reported by the local genomic context database.
Genomic interval79 734-80 387 nt654 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span79 734-81 739 ntGCF_002833125::NZ_PJDZ01000017.1::G00006
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_002833125::NZ_PJDZ01000017.1::G00006Graphic 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_PJDZ01000017.1All displayed genes belong to this local TCS context.
Neighborhood span79 734-81 739 nt2 006 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
79 734 nt81 739 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
APC1473_RS03965GCF_002833125#APC1473_RS03965
RRNarLCurrent focus
79 734-80 387 nt · Reverse (-)
APC1473_RS03970GCF_002833125#APC1473_RS03970
HKClassic
80 387-81 739 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_002833125#APC1473_RS03965The current gene is the representative for this cluster.
PFAM architectureResponse_reg + GerE2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1853175
Simplified PFAM architecture for RROC_1853175
PFAM domain coverage: 157 / 217 aa (72.4%)
1 aa217 aa
Response_regGerE
- Simplified architecture: Response_reg + GerE
- Raw architecture: Response_reg[3-107] | GerE[159-210]
- Domain count: 2
- Matched identifier: RROC_1853175
- Positioned domains: Response_reg 3-107 ; Response_reg 3-107 ; GerE 159-210 ; GerE 159-210
Cluster members and taxonomy
Representative gene: GCF_002833125#APC1473_RS03965
Displayed with 5 columns and 10 rows per page from the local display config.
Showing members 1 to 1 over 1 total members. Page 1 / 1.
GCF_002833125#APC1473_RS03965 (representative) |
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 216 816 · GCF_002833125
AssemblyASM283312v1 · Contighaploid
Genome composition2 317 071 bp · 60,0% GCBifidobacterium longum
Signal transduction countsGenes 23 · HK 10 · RR 11CheA 0 · PP 2
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key