1 Response_reg#1
15-122 aa · 108 aa · 45.0% of protein
Raw token
Response_reg:15:4.27e-36:122:109:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
EK3BL_RS05640
Response regulator OmpR family
Bifidobacterium longum subsp. infantis EK3 · GCF_000730125
ClassRRTypeOmpRLength240 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000730125#EK3BL_RS05640Stable P2CS identifier used across views.
GenomeGCF_000730125Bacteria; 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 coverage180 / 240 aa (75.0%)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
164-235 aa · 72 aa · 30.0% of protein
Raw token
Trans_reg_C:164:2.08e-30:235:77:77- Raw architecture: Response_reg:15:4.27e-36:122:109:111#Trans_reg_C:164:2.08e-30:235:77:77
- 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_000730125::NZ_JNWB01000018.1::G00015
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span95321-97116Genomic interval covered by the local TCS group.
Identifiers
Old locus tagEK3BL_03180RefSeq proteinWP_012578060.1
Context group ID
GCF_000730125::NZ_JNWB01000018.1::G00015Context members
EK3BL_RS05640EK3BL_RS05635
Partner locus tags
EK3BL_RS05640EK3BL_RS05635
Partner old locus tags
EK3BL_03180EK3BL_03185
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_012578060.1Primary protein accession used for annex mappings.
UniProt accessionB7GT07Primary UniProt accession resolved in the annex database.
UniProt IDB7GT07_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 tagEK3BL_RS05640Primary locus identifier stored in the genes table.
Old locus tagEK3BL_03180Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JNWB01000018.1Sequence record reported by the local genomic context database.
Genomic interval95 321-96 043 nt723 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span95 321-97 116 ntGCF_000730125::NZ_JNWB01000018.1::G00015
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000730125::NZ_JNWB01000018.1::G00015Graphic 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_JNWB01000018.1All displayed genes belong to this local TCS context.
Neighborhood span95 321-97 116 nt1 796 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
95 321 nt97 116 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
EK3BL_RS05640GCF_000730125#EK3BL_RS05640
RROmpRCurrent focus
95 321-96 043 nt · Forward (+)
EK3BL_RS05635GCF_000730125#EK3BL_RS05635
HKClassic
96 043-97 116 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000020425#BLON_RS09145Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0882065
Simplified PFAM architecture for RROC_0882065
PFAM domain coverage: 180 / 240 aa (75.0%)
1 aa240 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[15-122] | Trans_reg_C[164-235]
- Domain count: 2
- Matched identifier: RROC_0882065
- Positioned domains: Response_reg 15-122 ; Response_reg 15-122 ; Trans_reg_C 164-235 ; Trans_reg_C 164-235
Cluster members and taxonomy
Representative gene: GCF_000020425#BLON_RS09145
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 457 183 · GCF_000730125
AssemblyASM73012v1 · Scaffoldhaploid
Genome composition2 564 809 bp · 59,5% GCBifidobacterium longum subsp. infantis EK3
Signal transduction countsGenes 39 · HK 12 · RR 22CheA 0 · PP 5
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key