1 Response_reg#1
4-113 aa · 110 aa · 47.0% of protein
Raw token
Response_reg:4:5.85e-38:113:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
Q3W90_RS05220
Response regulator OmpR family
Bifidobacterium sp. · GCF_031295905
ClassRRTypeOmpRLength234 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_031295905#Q3W90_RS05220Stable P2CS identifier used across views.
GenomeGCF_031295905Bacteria; 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:153:6.41e-33:229:77:77- Raw architecture: Response_reg:4:5.85e-38:113:111:111#Trans_reg_C:153:6.41e-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_031295905::NZ_JAUMNL010000016.1::G00002
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span46351-48464Genomic interval covered by the local TCS group.
Identifiers
Old locus tagQ3W90_05215RefSeq proteinWP_003807850.1
Context group ID
GCF_031295905::NZ_JAUMNL010000016.1::G00002Context members
Q3W90_RS05215Q3W90_RS05220
Partner locus tags
Q3W90_RS05215Q3W90_RS05220
Partner old locus tags
Q3W90_05210Q3W90_05215
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003807850.1Primary protein accession used for annex mappings.
UniProt accessionA0A087DLQ7Primary UniProt accession resolved in the annex database.
UniProt IDA0A087DLQ7_BIFADDisplay 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 tagQ3W90_RS05220Primary locus identifier stored in the genes table.
Old locus tagQ3W90_05215Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAUMNL010000016.1Sequence record reported by the local genomic context database.
Genomic interval47 760-48 464 nt705 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span46 351-48 464 ntGCF_031295905::NZ_JAUMNL010000016.1::G00002
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_031295905::NZ_JAUMNL010000016.1::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_JAUMNL010000016.1All displayed genes belong to this local TCS context.
Neighborhood span46 351-48 464 nt2 114 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
46 351 nt48 464 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
Q3W90_RS05215GCF_031295905#Q3W90_RS05215
HKClassic
46 351-47 760 nt · Forward (+)
Q3W90_RS05220GCF_031295905#Q3W90_RS05220
RROmpRCurrent focus
47 760-48 464 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000010425#BAD_RS01470Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1047106
Simplified PFAM architecture for RROC_1047106
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_1047106
- 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_000010425#BAD_RS01470
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 41 200 · GCF_031295905
AssemblyASM3129590v1 · Contighaploid
Genome composition2 248 906 bp · 59,5% GCBifidobacterium sp.
Signal transduction countsGenes 28 · HK 12 · RR 15CheA 0 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key