1 Response_reg#1
15-122 aa · 108 aa · 45.0% of protein
Raw token
Response_reg:15:1.36e-36:122:109:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
GBB04_RS08455
Response regulator OmpR family
Bifidobacterium dentium · GCF_009160735
ClassRRTypeOmpRLength240 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_009160735#GBB04_RS08455Stable P2CS identifier used across views.
GenomeGCF_009160735Bacteria; 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:164:4.13e-29:235:77:77- Raw architecture: Response_reg:15:1.36e-36:122:109:111#Trans_reg_C:164:4.13e-29:235:77:77
- 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_009160735::NZ_WDPD01000010.1::G00001
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span8828-10638Genomic interval covered by the local TCS group.
Identifiers
Old locus tagGBB04_08455RefSeq proteinWP_003842169.1
Context group ID
GCF_009160735::NZ_WDPD01000010.1::G00001Context members
GBB04_RS08455GBB04_RS08460
Partner locus tags
GBB04_RS08455GBB04_RS08460
Partner old locus tags
GBB04_08455GBB04_08460
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003842169.1Primary protein accession used for annex mappings.
UniProt accessionA0A1V8Q3I7Primary UniProt accession resolved in the annex database.
UniProt IDA0A1V8Q3I7_9BIFIDisplay identifier provided by UniProt.
GO / PubMed5 / 1Unique GO terms and literature references available below.
Reference hubs
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagGBB04_RS08455Primary locus identifier stored in the genes table.
Old locus tagGBB04_08455Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_WDPD01000010.1Sequence record reported by the local genomic context database.
Genomic interval8 828-9 550 nt723 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span8 828-10 638 ntGCF_009160735::NZ_WDPD01000010.1::G00001
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_009160735::NZ_WDPD01000010.1::G00001Graphic 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_WDPD01000010.1All displayed genes belong to this local TCS context.
Neighborhood span8 828-10 638 nt1 811 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
8 828 nt10 638 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
GBB04_RS08455GCF_009160735#GBB04_RS08455
RROmpRCurrent focus
8 828-9 550 nt · Forward (+)
GBB04_RS08460GCF_009160735#GBB04_RS08460
HKClassic
9 562-10 638 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000024445#BDP_RS04315Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0882103
Simplified PFAM architecture for RROC_0882103
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_0882103
- 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_000024445#BDP_RS04315
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