1 Response_reg#1
4-113 aa · 110 aa · 45.8% of protein
Raw token
Response_reg:4:5.85e-36:113:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
CYJ39_RS06420
Response regulator OmpR family
Bifidobacterium longum · GCF_002861445
ClassRRTypeOmpRLength240 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_002861445#CYJ39_RS06420Stable P2CS identifier used across views.
GenomeGCF_002861445Bacteria; 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 coverage187 / 240 aa (77.9%)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 aa240 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
159-235 aa · 77 aa · 32.1% of protein
Raw token
Trans_reg_C:159:9.26e-33:235:77:77- Raw architecture: Response_reg:4:5.85e-36:113:111:111#Trans_reg_C:159:9.26e-33:235:77:77
- 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_002861445::NZ_PKGP01000005.1::G00004
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span118772-121188Genomic interval covered by the local TCS group.
Identifiers
Old locus tagCYJ39_06425RefSeq proteinWP_101629080.1
Context group ID
GCF_002861445::NZ_PKGP01000005.1::G00004Context members
CYJ39_RS06415CYJ39_RS06420
Partner locus tags
CYJ39_RS06415CYJ39_RS06420
Partner old locus tags
CYJ39_06420CYJ39_06425
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_101629080.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagCYJ39_RS06420Primary locus identifier stored in the genes table.
Old locus tagCYJ39_06425Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_PKGP01000005.1Sequence record reported by the local genomic context database.
Genomic interval120 466-121 188 nt723 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span118 772-121 188 ntGCF_002861445::NZ_PKGP01000005.1::G00004
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_002861445::NZ_PKGP01000005.1::G00004Graphic 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_PKGP01000005.1All displayed genes belong to this local TCS context.
Neighborhood span118 772-121 188 nt2 417 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
118 772 nt121 188 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
CYJ39_RS06415GCF_002861445#CYJ39_RS06415
HKClassic
118 772-120 469 nt · Reverse (-)
CYJ39_RS06420GCF_002861445#CYJ39_RS06420
RROmpRCurrent focus
120 466-121 188 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_002861445#CYJ39_RS06420The current gene is the representative for this cluster.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0887258
Simplified PFAM architecture for RROC_0887258
PFAM domain coverage: 187 / 240 aa (77.9%)
1 aa240 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[4-113] | Trans_reg_C[159-235]
- Domain count: 2
- Matched identifier: RROC_0887258
- Positioned domains: Response_reg 4-113 ; Response_reg 4-113 ; Trans_reg_C 159-235 ; Trans_reg_C 159-235
Cluster members and taxonomy
Representative gene: GCF_002861445#CYJ39_RS06420
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 216 816 · GCF_002861445
AssemblyASM286144v1 · Scaffoldhaploid
Genome composition2 454 926 bp · 60,0% GCBifidobacterium longum
Signal transduction countsGenes 18 · HK 10 · RR 8CheA 0 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key