1 Response_reg#1
4-113 aa · 110 aa · 45.8% of protein
Raw token
Response_reg:4:1.68e-34:113:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
DWZ85_RS04115
Response regulator OmpR family
Bifidobacterium longum · GCF_003474905
ClassRRTypeOmpRLength240 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_003474905#DWZ85_RS04115Stable P2CS identifier used across views.
GenomeGCF_003474905Bacteria; 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
Biotite-like viewServer-side Python rendering inspired by the Biotite sigma-domain example.
Domain-by-domain annotation2 items
2 Trans_reg_C#2
159-235 aa · 77 aa · 32.1% of protein
Raw token
Trans_reg_C:159:9.99e-33:235:77:77- Raw architecture: Response_reg:4:1.68e-34:113:111:111#Trans_reg_C:159:9.99e-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_003474905::NZ_QRPJ01000002.1::G00005
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span250990-253406Genomic interval covered by the local TCS group.
Identifiers
Old locus tagDWZ85_04115RefSeq proteinWP_118393701.1
Context group ID
GCF_003474905::NZ_QRPJ01000002.1::G00005Context members
DWZ85_RS04110DWZ85_RS04115
Partner locus tags
DWZ85_RS04110DWZ85_RS04115
Partner old locus tags
DWZ85_04110DWZ85_04115
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_118393701.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagDWZ85_RS04115Primary locus identifier stored in the genes table.
Old locus tagDWZ85_04115Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_QRPJ01000002.1Sequence record reported by the local genomic context database.
Genomic interval252 684-253 406 nt723 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span250 990-253 406 ntGCF_003474905::NZ_QRPJ01000002.1::G00005
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_003474905::NZ_QRPJ01000002.1::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_QRPJ01000002.1All displayed genes belong to this local TCS context.
Neighborhood span250 990-253 406 nt2 417 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
250 990 nt253 406 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
DWZ85_RS04110GCF_003474905#DWZ85_RS04110
HKClassic
250 990-252 687 nt · Reverse (-)
DWZ85_RS04115GCF_003474905#DWZ85_RS04115
RROmpRCurrent focus
252 684-253 406 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_003474905#DWZ85_RS04115The current gene is the representative for this cluster.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0888360
Simplified PFAM architecture for RROC_0888360
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_0888360
- 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_003474905#DWZ85_RS04115
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 216 816 · GCF_003474905
AssemblyASM347490v1 · Scaffoldhaploid
Genome composition2 378 857 bp · 60,0% GCBifidobacterium longum
Signal transduction countsGenes 21 · HK 10 · RR 10CheA 0 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key