1 Response_reg#1
16-128 aa · 113 aa · 49.1% of protein
Raw token
Response_reg:16:2.43e-28:128:113:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
Q3X53_RS05405
Response regulator NarL family
Bifidobacterium sp. · GCF_031294435
ClassRRTypeNarLLength230 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_031294435#Q3X53_RS05405Stable P2CS identifier used across views.
GenomeGCF_031294435Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regHTH_LUXR
Protein length230 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage170 / 230 aa (73.9%)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 aa230 aa
Domain-by-domain annotation2 items
2 HTH_LUXR#2
165-221 aa · 57 aa · 24.8% of protein
Raw token
HTH_LUXR:165:1.46e-16:221:58:58- Raw architecture: Response_reg:16:2.43e-28:128:113:111#HTH_LUXR:165:1.46e-16:221:58:58
- 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_031294435::NZ_JAUMQG010000054.1::G00007
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span64531-65223Genomic interval covered by the local TCS group.
Identifiers
Old locus tagQ3X53_05390RefSeq proteinWP_226814167.1
Context group ID
GCF_031294435::NZ_JAUMQG010000054.1::G00007Context members
Q3X53_RS05405
Partner locus tags
Q3X53_RS05405
Partner old locus tags
Q3X53_05390
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_226814167.1Primary protein accession used for annex mappings.
UniProt accessionA0ABD4W7S0Primary UniProt accession resolved in the annex database.
UniProt IDA0ABD4W7S0_BIFPSDisplay identifier provided by UniProt.
GO / PubMed2 / 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 tagQ3X53_RS05405Primary locus identifier stored in the genes table.
Old locus tagQ3X53_05390Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAUMQG010000054.1Sequence record reported by the local genomic context database.
Genomic interval64 531-65 223 nt693 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span64 531-65 223 ntGCF_031294435::NZ_JAUMQG010000054.1::G00007
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_031294435::NZ_JAUMQG010000054.1::G00007Graphic 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_JAUMQG010000054.1All displayed genes belong to this local TCS context.
Neighborhood span64 531-65 223 nt693 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
64 531 nt65 223 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
Q3X53_RS05405GCF_031294435#Q3X53_RS05405
RRNarLCurrent focus
64 531-65 223 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_001685965#BAD08_RS06030Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Sigma70_r4_22 domains in the representative PFAM annotation.
PFAM architecture for RROC_1206700
Simplified PFAM architecture for RROC_1206700
PFAM domain coverage: 164 / 230 aa (71.3%)
1 aa230 aa
Response_regSigma70_r4_2
- Simplified architecture: Response_reg + Sigma70_r4_2
- Raw architecture: Response_reg[15-127] | Sigma70_r4_2[159-209]
- Domain count: 2
- Matched identifier: RROC_1206700
- Positioned domains: Response_reg 15-127 ; Response_reg 15-127 ; Sigma70_r4_2 159-209 ; Sigma70_r4_2 159-209
Cluster members and taxonomy
Representative gene: GCF_001685965#BAD08_RS06030
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 41 200 · GCF_031294435
AssemblyASM3129443v1 · Contighaploid
Genome composition1 990 581 bp · 56,5% GCBifidobacterium sp.
Signal transduction countsGenes 18 · HK 6 · RR 10CheA 0 · PP 2
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key