1 Response_reg#1
19-128 aa · 110 aa · 47.0% of protein
Raw token
Response_reg:19:1.18e-25:128:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
JS536_RS07955
Response regulator OmpR family
Bifidobacterium sp. SO4 · GCF_018555355
ClassRRTypeOmpRLength234 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_018555355#JS536_RS07955Stable P2CS identifier used across views.
GenomeGCF_018555355Bacteria; 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 coverage180 / 234 aa (76.9%)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
160-229 aa · 70 aa · 29.9% of protein
Raw token
Trans_reg_C:160:0.00000000000000149:229:77:77- Raw architecture: Response_reg:19:1.18e-25:128:111:111#Trans_reg_C:160:0.00000000000000149:229:77:77
- 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_018555355::NZ_JAFEJP010000011.1::G00005
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span11005-12856Genomic interval covered by the local TCS group.
Identifiers
Old locus tagJS536_07950RefSeq proteinWP_214356492.1
Context group ID
GCF_018555355::NZ_JAFEJP010000011.1::G00005Context members
JS536_RS07955JS536_RS07960
Partner locus tags
JS536_RS07955JS536_RS07960
Partner old locus tags
JS536_07950JS536_07955
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_214356492.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagJS536_RS07955Primary locus identifier stored in the genes table.
Old locus tagJS536_07950Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAFEJP010000011.1Sequence record reported by the local genomic context database.
Genomic interval11 005-11 709 nt705 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span11 005-12 856 ntGCF_018555355::NZ_JAFEJP010000011.1::G00005
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_018555355::NZ_JAFEJP010000011.1::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_JAFEJP010000011.1All displayed genes belong to this local TCS context.
Neighborhood span11 005-12 856 nt1 852 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
11 005 nt12 856 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
JS536_RS07955GCF_018555355#JS536_RS07955
RROmpRCurrent focus
11 005-11 709 nt · Forward (+)
JS536_RS07960GCF_018555355#JS536_RS07960
HKClassic
11 819-12 856 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_018555355#JS536_RS07955The current gene is the representative for this cluster.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1062668
Simplified PFAM architecture for RROC_1062668
PFAM domain coverage: 179 / 234 aa (76.5%)
1 aa234 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[19-127] | Trans_reg_C[160-229]
- Domain count: 2
- Matched identifier: RROC_1062668
- Positioned domains: Response_reg 19-127 ; Trans_reg_C 160-229
Cluster members and taxonomy
Representative gene: GCF_018555355#JS536_RS07955
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 2 809 030 · GCF_018555355
AssemblyASM1855535v1 · Contighaploid
Genome composition2 912 164 bp · 63,0% GCBifidobacterium sp. SO4
Signal transduction countsGenes 42 · HK 15 · RR 25CheA 0 · PP 2
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key