1 Response_reg#1
9-119 aa · 111 aa · 45.7% of protein
Raw token
Response_reg:9:8.96e-37:119:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
APK78_RS03345
Response regulator OmpR family
Bifidobacterium longum subsp. longum · GCF_001447975
ClassRRTypeOmpRLength243 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_001447975#APK78_RS03345Stable P2CS identifier used across views.
GenomeGCF_001447975Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length243 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage197 / 243 aa (81.1%)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 aa243 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
153-238 aa · 86 aa · 35.4% of protein
Raw token
Trans_reg_C:153:3.53e-29:238:86:77- Raw architecture: Response_reg:9:8.96e-37:119:111:111#Trans_reg_C:153:3.53e-29:238:86:77
- 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_001447975::NZ_LKSU01000007.1::G00007
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span36945-39698Genomic interval covered by the local TCS group.
Identifiers
Old locus tagAPK78_06545RefSeq proteinWP_007053191.1
Context group ID
GCF_001447975::NZ_LKSU01000007.1::G00007Context members
APK78_RS03345APK78_RS03350
Partner locus tags
APK78_RS03345APK78_RS03350
Partner old locus tags
APK78_06545APK78_06550
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_007053191.1Primary protein accession used for annex mappings.
UniProt accessionA0AAV3FKQ9Primary UniProt accession resolved in the annex database.
UniProt IDA0AAV3FKQ9_BIFLLDisplay 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 tagAPK78_RS03345Primary locus identifier stored in the genes table.
Old locus tagAPK78_06545Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_LKSU01000007.1Sequence record reported by the local genomic context database.
Genomic interval36 945-37 676 nt732 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span36 945-39 698 ntGCF_001447975::NZ_LKSU01000007.1::G00007
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_001447975::NZ_LKSU01000007.1::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_LKSU01000007.1All displayed genes belong to this local TCS context.
Neighborhood span36 945-39 698 nt2 754 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
36 945 nt39 698 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
APK78_RS03345GCF_001447975#APK78_RS03345
RROmpRCurrent focus
36 945-37 676 nt · Forward (+)
APK78_RS03350GCF_001447975#APK78_RS03350
HKClassic
37 707-39 698 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003135#HMPREF0175_RS05565Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0824622
Simplified PFAM architecture for RROC_0824622
PFAM domain coverage: 196 / 243 aa (80.7%)
1 aa243 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[9-119] | Trans_reg_C[153-237]
- Domain count: 2
- Matched identifier: RROC_0824622
- Positioned domains: Response_reg 9-119 ; Response_reg 9-119 ; Trans_reg_C 153-237 ; Trans_reg_C 153-237
Cluster members and taxonomy
Representative gene: GCF_000003135#HMPREF0175_RS05565
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 679 · GCF_001447975
AssemblyASM144797v1 · Scaffoldhaploid
Genome composition2 235 579 bp · 60,0% GCBifidobacterium longum subsp. longum
Signal transduction countsGenes 23 · HK 10 · RR 11CheA 0 · PP 2
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key