1 Response_reg#1
4-118 aa · 115 aa · 48.3% of protein
Raw token
Response_reg:4:1.12e-18:118:118:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
GBB04_RS04825
Response regulator LytTR family
Bifidobacterium dentium · GCF_009160735
ClassRRTypeLytTRLength238 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_009160735#GBB04_RS04825Stable P2CS identifier used across views.
GenomeGCF_009160735Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regLytTR
Protein length238 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage203 / 238 aa (85.3%)Merged over positioned domains only.
Domain description1 Response_reg,1 LytTRSummary 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 aa238 aa
Domain-by-domain annotation2 items
2 LytTR#2
141-228 aa · 88 aa · 37.0% of protein
Raw token
LytTR:141:9.06e-21:228:93:98- Raw architecture: Response_reg:4:1.12e-18:118:118:111#LytTR:141:9.06e-21:228:93:98
- Domain description: 1 Response_reg,1 LytTR
- 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_009160735::NZ_WDPD01000003.1::G00014
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span286299-287015Genomic interval covered by the local TCS group.
Identifiers
Old locus tagGBB04_04825RefSeq proteinWP_034522071.1
Context group ID
GCF_009160735::NZ_WDPD01000003.1::G00014Context members
GBB04_RS04825
Partner locus tags
GBB04_RS04825
Partner old locus tags
GBB04_04825
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_034522071.1Primary protein accession used for annex mappings.
UniProt accessionA0A6N2U2T6Primary UniProt accession resolved in the annex database.
UniProt IDA0A6N2U2T6_9BIFIDisplay identifier provided by UniProt.
GO / PubMed2 / 1Unique GO terms and literature references available below.
Reference hubs
GO terms
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagGBB04_RS04825Primary locus identifier stored in the genes table.
Old locus tagGBB04_04825Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_WDPD01000003.1Sequence record reported by the local genomic context database.
Genomic interval286 299-287 015 nt717 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span286 299-287 015 ntGCF_009160735::NZ_WDPD01000003.1::G00014
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_009160735::NZ_WDPD01000003.1::G00014Graphic 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_WDPD01000003.1All displayed genes belong to this local TCS context.
Neighborhood span286 299-287 015 nt717 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
286 299 nt287 015 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
GBB04_RS04825GCF_009160735#GBB04_RS04825
RRLytTRCurrent focus
286 299-287 015 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000513015#HMPREF1494_RS08470Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + LytTR2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0934370
Simplified PFAM architecture for RROC_0934370
PFAM domain coverage: 200 / 238 aa (84.0%)
1 aa238 aa
Response_regLytTR
- Simplified architecture: Response_reg + LytTR
- Raw architecture: Response_reg[4-116] | LytTR[141-227]
- Domain count: 2
- Matched identifier: RROC_0934370
- Positioned domains: Response_reg 4-116 ; Response_reg 4-116 ; LytTR 141-227 ; LytTR 141-227
Cluster members and taxonomy
Representative gene: GCF_000513015#HMPREF1494_RS08470
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 689 · GCF_009160735
AssemblyASM916073v1 · Scaffoldhaploid
Genome composition2 868 671 bp · 58,0% GCBifidobacterium dentium
Signal transduction countsGenes 37 · HK 15 · RR 19CheA 0 · PP 3
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key