1 Response_reg#1
43-151 aa · 109 aa · 42.7% of protein
Raw token
Response_reg:43:0.0000000000000196:151:110:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
AB5808_RS02120
Response regulator NarL family
Bifidobacterium bifidum · GCF_040927425
ClassRRTypeNarLLength255 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_040927425#AB5808_RS02120Stable P2CS identifier used across views.
GenomeGCF_040927425Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regHTH_LUXR
Protein length255 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage166 / 255 aa (65.1%)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
185-241 aa · 57 aa · 22.4% of protein
Raw token
HTH_LUXR:185:3.39e-16:241:57:58- Raw architecture: Response_reg:43:0.0000000000000196:151:110:111#HTH_LUXR:185:3.39e-16:241:57:58
- 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_040927425::NZ_JBCOGF010000002.1::G00006
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span30631-31398Genomic interval covered by the local TCS group.
Identifiers
Context group ID
GCF_040927425::NZ_JBCOGF010000002.1::G00006Context members
AB5808_RS02120
Partner locus tags
AB5808_RS02120
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_368100745.1Primary protein accession used for annex mappings.
UniProt accessionA0A133KKC4Primary UniProt accession resolved in the annex database.
UniProt IDA0A133KKC4_BIFBIDisplay 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 tagAB5808_RS02120Primary locus identifier stored in the genes table.
Old locus tagUnavailableNo previous locus tag available for this gene.
Contig / repliconNZ_JBCOGF010000002.1Sequence record reported by the local genomic context database.
Genomic interval30 631-31 398 nt768 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span30 631-31 398 ntGCF_040927425::NZ_JBCOGF010000002.1::G00006
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_040927425::NZ_JBCOGF010000002.1::G00006Graphic 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_JBCOGF010000002.1All displayed genes belong to this local TCS context.
Neighborhood span30 631-31 398 nt768 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
30 631 nt31 398 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
AB5808_RS02120GCF_040927425#AB5808_RS02120
RRNarLCurrent focus
30 631-31 398 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_040927425#AB5808_RS02120The current gene is the representative for this cluster.
PFAM architectureResponse_reg + GerE2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0685899
Simplified PFAM architecture for RROC_0685899
PFAM domain coverage: 162 / 255 aa (63.5%)
1 aa255 aa
Response_regGerE
- Simplified architecture: Response_reg + GerE
- Raw architecture: Response_reg[42-151] | GerE[189-240]
- Domain count: 2
- Matched identifier: RROC_0685899
- Positioned domains: Response_reg 42-151 ; GerE 189-240
Cluster members and taxonomy
Representative gene: GCF_040927425#AB5808_RS02120
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 681 · GCF_040927425
AssemblyASM4092742v1 · Scaffoldhaploid
Genome composition2 232 872 bp · 63,0% GCBifidobacterium bifidum
Signal transduction countsGenes 23 · HK 9 · RR 14CheA 0 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key