1 Response_reg#1
3-122 aa · 120 aa · 44.8% of protein
Raw token
Response_reg:3:5.02e-20:122:122:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BBPC_RS01915
Response regulator LytTR family
Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 = LMG 10505 · GCF_001025215
ClassRRTypeLytTRLength268 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_001025215#BBPC_RS01915Stable P2CS identifier used across views.
GenomeGCF_001025215Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regLytTR
Protein length268 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage194 / 268 aa (72.4%)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
Biotite-like viewServer-side Python rendering inspired by the Biotite sigma-domain example.
Domain-by-domain annotation2 items
2 LytTR#2
173-246 aa · 74 aa · 27.6% of protein
Raw token
LytTR:173:0.000000336:246:79:98- Raw architecture: Response_reg:3:5.02e-20:122:122:111#LytTR:173:0.000000336:246:79:98
- 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_001025215::NZ_AP012330.1::G00003
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span467927-468733Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBBPC_0379RefSeq proteinWP_004219986.1
Context group ID
GCF_001025215::NZ_AP012330.1::G00003Context members
BBPC_RS01915
Partner locus tags
BBPC_RS01915
Partner old locus tags
BBPC_0379
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_004219986.1Primary protein accession used for annex mappings.
UniProt accessionC0BQD4Primary UniProt accession resolved in the annex database.
UniProt IDC0BQD4_BIFPSDisplay identifier provided by UniProt.
GO / PubMed5 / 0Unique GO terms and literature references available below.
Reference hubs
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagBBPC_RS01915Primary locus identifier stored in the genes table.
Old locus tagBBPC_0379Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_AP012330.1Sequence record reported by the local genomic context database.
Genomic interval467 927-468 733 nt807 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span467 927-468 733 ntGCF_001025215::NZ_AP012330.1::G00003
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_001025215::NZ_AP012330.1::G00003Graphic 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_AP012330.1All displayed genes belong to this local TCS context.
Neighborhood span467 927-468 733 nt807 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
467 927 nt468 733 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
BBPC_RS01915GCF_001025215#BBPC_RS01915
RRLytTRCurrent focus
467 927-468 733 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000173435#BIFPSEUDO_RS01240Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + LytTR2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0619447
Simplified PFAM architecture for RROC_0619447
PFAM domain coverage: 198 / 268 aa (73.9%)
1 aa268 aa
Response_regLytTR
- Simplified architecture: Response_reg + LytTR
- Raw architecture: Response_reg[3-123] | LytTR[173-249]
- Domain count: 2
- Matched identifier: RROC_0619447
- Positioned domains: Response_reg 3-123 ; Response_reg 3-123 ; LytTR 173-249 ; LytTR 173-249
Cluster members and taxonomy
Representative gene: GCF_000173435#BIFPSEUDO_RS01240
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 547 043 · GCF_001025215
AssemblyASM102521v1 · Complete Genomereference genome · haploid
Genome composition2 313 752 bp · 56,5% GCBifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 = LMG 10505
Signal transduction countsGenes 28 · HK 11 · RR 14CheA 0 · PP 3
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key