1 Response_reg#1
10-123 aa · 114 aa · 50.0% of protein
Raw token
Response_reg:10:5.43e-17:123:114:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
DW239_RS04270
Response regulator NarL family
Bifidobacterium pseudocatenulatum · GCF_003471295
ClassRRTypeNarLLength228 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_003471295#DW239_RS04270Stable P2CS identifier used across views.
GenomeGCF_003471295Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regHTH_LUXR
Protein length228 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage172 / 228 aa (75.4%)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
165-222 aa · 58 aa · 25.4% of protein
Raw token
HTH_LUXR:165:7.39e-27:222:58:58- Raw architecture: Response_reg:10:5.43e-17:123:114:111#HTH_LUXR:165:7.39e-27:222:58:58
- 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 labelorphanGCF_003471295::NZ_QRIU01000003.1::G00008
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span122646-123332Genomic interval covered by the local TCS group.
Identifiers
Old locus tagDW239_04275RefSeq proteinWP_065435508.1
Context group ID
GCF_003471295::NZ_QRIU01000003.1::G00008Context members
DW239_RS04270
Partner locus tags
DW239_RS04270
Partner old locus tags
DW239_04275
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_065435508.1Primary protein accession used for annex mappings.
UniProt accessionA0AAW4TRT2Primary UniProt accession resolved in the annex database.
UniProt IDA0AAW4TRT2_BIFPSDisplay 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 tagDW239_RS04270Primary locus identifier stored in the genes table.
Old locus tagDW239_04275Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_QRIU01000003.1Sequence record reported by the local genomic context database.
Genomic interval122 646-123 332 nt687 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span122 646-123 332 ntGCF_003471295::NZ_QRIU01000003.1::G00008
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_003471295::NZ_QRIU01000003.1::G00008Graphic view
Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.
Context labelorphanNeighborhood members are ordered by genomic coordinates.
Contig / repliconNZ_QRIU01000003.1All displayed genes belong to this local TCS context.
Neighborhood span122 646-123 332 nt687 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
122 646 nt123 332 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
DW239_RS04270GCF_003471295#DW239_RS04270
RRNarLCurrent focus
122 646-123 332 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_001685965#BAD08_RS01255Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + GerE2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1309950
Simplified PFAM architecture for RROC_1309950
PFAM domain coverage: 169 / 228 aa (74.1%)
1 aa228 aa
Response_regGerE
- Simplified architecture: Response_reg + GerE
- Raw architecture: Response_reg[10-122] | GerE[167-222]
- Domain count: 2
- Matched identifier: RROC_1309950
- Positioned domains: Response_reg 10-122 ; Response_reg 10-122 ; GerE 167-222 ; GerE 167-222
Cluster members and taxonomy
Representative gene: GCF_001685965#BAD08_RS01255
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 28 026 · GCF_003471295
AssemblyASM347129v1 · Scaffoldhaploid
Genome composition2 159 427 bp · 56,5% GCBifidobacterium pseudocatenulatum
Signal transduction countsGenes 25 · HK 10 · RR 13CheA 0 · PP 2
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key