1 Response_reg#1
3-113 aa · 111 aa · 50.9% of protein
Raw token
Response_reg:3:3.12e-28:113:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
L6906_RS03680
Response regulator OmpR family
Bifidobacterium bifidum · GCF_022014355
ClassRRTypeOmpRLength218 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_022014355#L6906_RS03680Stable 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 length218 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage184 / 218 aa (84.4%)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 aa218 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
145-217 aa · 73 aa · 33.5% of protein
Raw token
Trans_reg_C:145:0.0000000000000585:217:77:77- Raw architecture: Response_reg:3:3.12e-28:113:111:111#Trans_reg_C:145:0.0000000000000585:217:77:77
- 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::G00010
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span209244-211183Genomic interval covered by the local TCS group.
Identifiers
Old locus tagL6906_03680RefSeq proteinWP_003814721.1
Context group ID
GCF_022014355::NZ_JAKLYF010000002.1::G00010Context members
L6906_RS03675L6906_RS03680
Partner locus tags
L6906_RS03675L6906_RS03680
Partner old locus tags
L6906_03675L6906_03680
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003814721.1Primary protein accession used for annex mappings.
UniProt accessionI3WJH1Primary UniProt accession resolved in the annex database.
UniProt IDI3WJH1_BIFBIDisplay 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_RS03680Primary locus identifier stored in the genes table.
Old locus tagL6906_03680Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAKLYF010000002.1Sequence record reported by the local genomic context database.
Genomic interval210 527-211 183 nt657 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span209 244-211 183 ntGCF_022014355::NZ_JAKLYF010000002.1::G00010
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_022014355::NZ_JAKLYF010000002.1::G00010Graphic 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 span209 244-211 183 nt1 940 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
209 244 nt211 183 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
L6906_RS03675GCF_022014355#L6906_RS03675
HKClassic
209 244-210 530 nt · Reverse (-)
L6906_RS03680GCF_022014355#L6906_RS03680
RROmpRCurrent focus
210 527-211 183 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000155395#BBNG_RS08115Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1812281
Simplified PFAM architecture for RROC_1812281
PFAM domain coverage: 183 / 218 aa (83.9%)
1 aa218 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[3-113] | Trans_reg_C[146-217]
- Domain count: 2
- Matched identifier: RROC_1812281
- Positioned domains: Response_reg 3-113 ; Response_reg 3-113 ; Trans_reg_C 146-217 ; Trans_reg_C 146-217
Cluster members and taxonomy
Representative gene: GCF_000155395#BBNG_RS08115
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