1 Response_reg#1
15-122 aa · 108 aa · 45.0% of protein
Raw token
Response_reg:15:6.84e-35:122:109:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
O4C48_RS04170
Response regulator OmpR family
Bifidobacterium breve · GCF_027212565
ClassRRTypeOmpRLength240 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_027212565#O4C48_RS04170Stable P2CS identifier used across views.
GenomeGCF_027212565Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length240 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage180 / 240 aa (75.0%)Merged over positioned domains only.
Domain description1 Response_reg,1 Trans_reg_CSummary 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 aa240 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
164-235 aa · 72 aa · 30.0% of protein
Raw token
Trans_reg_C:164:6.81e-31:235:77:77- Raw architecture: Response_reg:15:6.84e-35:122:109:111#Trans_reg_C:164:6.81e-31:235:77:77
- Domain description: 1 Response_reg,1 Trans_reg_C
- 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 labelpairedGCF_027212565::NZ_JAPWFA010000001.1::G00004
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span1004378-1006173Genomic interval covered by the local TCS group.
Identifiers
Old locus tagO4C48_04170RefSeq proteinWP_003828907.1
Context group ID
GCF_027212565::NZ_JAPWFA010000001.1::G00004Context members
O4C48_RS04165O4C48_RS04170
Partner locus tags
O4C48_RS04165O4C48_RS04170
Partner old locus tags
O4C48_04165O4C48_04170
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003828907.1Primary protein accession used for annex mappings.
UniProt accessionD4BNP6Primary UniProt accession resolved in the annex database.
UniProt IDD4BNP6_BIFBRDisplay 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 tagO4C48_RS04170Primary locus identifier stored in the genes table.
Old locus tagO4C48_04170Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAPWFA010000001.1Sequence record reported by the local genomic context database.
Genomic interval1 005 451-1 006 173 nt723 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span1 004 378-1 006 173 ntGCF_027212565::NZ_JAPWFA010000001.1::G00004
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_027212565::NZ_JAPWFA010000001.1::G00004Graphic view
Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.
Context labelpairedNeighborhood members are ordered by genomic coordinates.
Contig / repliconNZ_JAPWFA010000001.1All displayed genes belong to this local TCS context.
Neighborhood span1 004 378-1 006 173 nt1 796 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
1 004 378 nt1 006 173 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
O4C48_RS04165GCF_027212565#O4C48_RS04165
HKClassic
1 004 378-1 005 451 nt · Reverse (-)
O4C48_RS04170GCF_027212565#O4C48_RS04170
RROmpRCurrent focus
1 005 451-1 006 173 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000158015#BIFBRE_RS05810Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0882213
Simplified PFAM architecture for RROC_0882213
PFAM domain coverage: 180 / 240 aa (75.0%)
1 aa240 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[15-122] | Trans_reg_C[164-235]
- Domain count: 2
- Matched identifier: RROC_0882213
- Positioned domains: Response_reg 15-122 ; Response_reg 15-122 ; Trans_reg_C 164-235 ; Trans_reg_C 164-235
Cluster members and taxonomy
Representative gene: GCF_000158015#BIFBRE_RS05810
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 685 · GCF_027212565
AssemblyASM2721256v1 · Contighaploid
Genome composition2 356 189 bp · 58,5% GCBifidobacterium breve
Signal transduction countsGenes 22 · HK 9 · RR 12CheA 0 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key