1 Response_reg#1
13-122 aa · 110 aa · 45.1% of protein
Raw token
Response_reg:13:4.73e-36:122:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
Q3X78_RS03245
Response regulator OmpR family
Bifidobacterium sp. · GCF_031293485
ClassRRTypeOmpRLength244 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_031293485#Q3X78_RS03245Stable P2CS identifier used across views.
GenomeGCF_031293485Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length244 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage187 / 244 aa (76.6%)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 aa244 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
163-239 aa · 77 aa · 31.6% of protein
Raw token
Trans_reg_C:163:1.29e-31:239:77:77- Raw architecture: Response_reg:13:4.73e-36:122:111:111#Trans_reg_C:163:1.29e-31:239:77:77
- 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_031293485::NZ_JAUMRN010000013.1::G00002
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span24586-27004Genomic interval covered by the local TCS group.
Identifiers
Old locus tagQ3X78_03240RefSeq proteinWP_309414228.1
Context group ID
GCF_031293485::NZ_JAUMRN010000013.1::G00002Context members
Q3X78_RS03240Q3X78_RS03245
Partner locus tags
Q3X78_RS03240Q3X78_RS03245
Partner old locus tags
Q3X78_03235Q3X78_03240
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
No UniProt / GO / PubMed mapping was found for WP_309414228.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagQ3X78_RS03245Primary locus identifier stored in the genes table.
Old locus tagQ3X78_03240Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAUMRN010000013.1Sequence record reported by the local genomic context database.
Genomic interval26 270-27 004 nt735 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span24 586-27 004 ntGCF_031293485::NZ_JAUMRN010000013.1::G00002
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_031293485::NZ_JAUMRN010000013.1::G00002Graphic 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_JAUMRN010000013.1All displayed genes belong to this local TCS context.
Neighborhood span24 586-27 004 nt2 419 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
24 586 nt27 004 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
Q3X78_RS03240GCF_031293485#Q3X78_RS03240
HKClassic
24 586-26 262 nt · Reverse (-)
Q3X78_RS03245GCF_031293485#Q3X78_RS03245
RROmpRCurrent focus
26 270-27 004 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_031293485#Q3X78_RS03245The current gene is the representative for this cluster.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0817858
Simplified PFAM architecture for RROC_0817858
PFAM domain coverage: 185 / 244 aa (75.8%)
1 aa244 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[13-122] | Trans_reg_C[165-239]
- Domain count: 2
- Matched identifier: RROC_0817858
- Positioned domains: Response_reg 13-122 ; Trans_reg_C 165-239
Cluster members and taxonomy
Representative gene: GCF_031293485#Q3X78_RS03245
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 41 200 · GCF_031293485
AssemblyASM3129348v1 · Contighaploid
Genome composition2 239 565 bp · 56,5% GCBifidobacterium sp.
Signal transduction countsGenes 31 · HK 13 · RR 16CheA 0 · PP 2
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key