1 Response_reg#1
4-113 aa · 110 aa · 47.0% of protein
Raw token
Response_reg:4:1.46e-37:113:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
GBB04_RS09235
Response regulator OmpR family
Bifidobacterium dentium · GCF_009160735
ClassRRTypeOmpRLength234 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_009160735#GBB04_RS09235Stable 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 length234 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage187 / 234 aa (79.9%)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 aa234 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
153-229 aa · 77 aa · 32.9% of protein
Raw token
Trans_reg_C:153:2.55e-33:229:77:77- Raw architecture: Response_reg:4:1.46e-37:113:111:111#Trans_reg_C:153:2.55e-33:229:77:77
- 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_WDPD01000011.1::G00005
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span45421-47495Genomic interval covered by the local TCS group.
Identifiers
Old locus tagGBB04_09235RefSeq proteinWP_034518622.1
Context group ID
GCF_009160735::NZ_WDPD01000011.1::G00005Context members
GBB04_RS09230GBB04_RS09235
Partner locus tags
GBB04_RS09230GBB04_RS09235
Partner old locus tags
GBB04_09230GBB04_09235
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_034518622.1Primary protein accession used for annex mappings.
UniProt accessionA0A6N2R2V8Primary UniProt accession resolved in the annex database.
UniProt IDA0A6N2R2V8_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_RS09235Primary locus identifier stored in the genes table.
Old locus tagGBB04_09235Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_WDPD01000011.1Sequence record reported by the local genomic context database.
Genomic interval46 791-47 495 nt705 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span45 421-47 495 ntGCF_009160735::NZ_WDPD01000011.1::G00005
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_009160735::NZ_WDPD01000011.1::G00005Graphic 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_WDPD01000011.1All displayed genes belong to this local TCS context.
Neighborhood span45 421-47 495 nt2 075 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
45 421 nt47 495 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
GBB04_RS09230GCF_009160735#GBB04_RS09230
HKClassic
45 421-46 791 nt · Forward (+)
GBB04_RS09235GCF_009160735#GBB04_RS09235
RROmpRCurrent focus
46 791-47 495 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000513015#HMPREF1494_RS01080Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1049275
Simplified PFAM architecture for RROC_1049275
PFAM domain coverage: 184 / 234 aa (78.6%)
1 aa234 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[4-113] | Trans_reg_C[155-228]
- Domain count: 2
- Matched identifier: RROC_1049275
- Positioned domains: Response_reg 4-113 ; Response_reg 4-113 ; Trans_reg_C 155-228 ; Trans_reg_C 155-228
Cluster members and taxonomy
Representative gene: GCF_000513015#HMPREF1494_RS01080
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