1 Response_reg#1
4-114 aa · 111 aa · 50.5% of protein
Raw token
Response_reg:4:8.81e-30:114:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
L6906_RS03410
Response regulator OmpR family
Bifidobacterium bifidum · GCF_022014355
ClassRRTypeOmpRLength220 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_022014355#L6906_RS03410Stable P2CS identifier used across views.
GenomeGCF_022014355Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length220 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage184 / 220 aa (83.6%)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
Biotite-like viewServer-side Python rendering inspired by the Biotite sigma-domain example.
Domain-by-domain annotation2 items
2 Trans_reg_C#2
147-219 aa · 73 aa · 33.2% of protein
Raw token
Trans_reg_C:147:0.000000000000243:219:77:77- Raw architecture: Response_reg:4:8.81e-30:114:111:111#Trans_reg_C:147:0.000000000000243:219:77:77
- 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_022014355::NZ_JAKLYF010000002.1::G00007
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span150717-152677Genomic interval covered by the local TCS group.
Identifiers
Old locus tagL6906_03410RefSeq proteinWP_012576918.1
Context group ID
GCF_022014355::NZ_JAKLYF010000002.1::G00007Context members
L6906_RS03410L6906_RS03415
Partner locus tags
L6906_RS03410L6906_RS03415
Partner old locus tags
L6906_03410L6906_03415
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_012576918.1Primary protein accession used for annex mappings.
UniProt accessionB7GP11Primary UniProt accession resolved in the annex database.
UniProt IDB7GP11_BIFLSDisplay identifier provided by UniProt.
GO / PubMed5 / 1Unique GO terms and literature references available below.
Reference hubs
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagL6906_RS03410Primary locus identifier stored in the genes table.
Old locus tagL6906_03410Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAKLYF010000002.1Sequence record reported by the local genomic context database.
Genomic interval150 717-151 379 nt663 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span150 717-152 677 ntGCF_022014355::NZ_JAKLYF010000002.1::G00007
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_022014355::NZ_JAKLYF010000002.1::G00007Graphic 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_JAKLYF010000002.1All displayed genes belong to this local TCS context.
Neighborhood span150 717-152 677 nt1 961 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
150 717 nt152 677 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
L6906_RS03410GCF_022014355#L6906_RS03410
RROmpRCurrent focus
150 717-151 379 nt · Forward (+)
L6906_RS03415GCF_022014355#L6906_RS03415
HKClassic
151 376-152 677 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_001281425#RY69_RS01280Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0680821
Simplified PFAM architecture for RROC_0680821
PFAM domain coverage: 184 / 255 aa (72.2%)
1 aa255 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[39-149] | Trans_reg_C[182-254]
- Domain count: 2
- Matched identifier: RROC_0680821
- Positioned domains: Response_reg 39-149 ; Response_reg 39-149 ; Trans_reg_C 182-254 ; Trans_reg_C 182-254
Cluster members and taxonomy
Representative gene: GCF_001281425#RY69_RS01280
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 681 · GCF_022014355
AssemblyASM2201435v1 · Contighaploid
Genome composition2 266 368 bp · 62,5% GCBifidobacterium bifidum
Signal transduction countsGenes 30 · HK 13 · RR 16CheA 0 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key