1 Response_reg#1
27-138 aa · 112 aa · 46.5% of protein
Raw token
Response_reg:27:6.02e-28:138:112:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
I3K78_RS05880
Response regulator NarL family
Bifidobacterium longum · GCF_018141605
ClassRRTypeNarLLength241 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_018141605#I3K78_RS05880Stable P2CS identifier used across views.
GenomeGCF_018141605Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regHTH_LUXR
Protein length241 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage169 / 241 aa (70.1%)Merged over positioned domains only.
Domain description1 Response_reg,1 HTH_LUXRSummary 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 HTH_LUXR#2
176-232 aa · 57 aa · 23.7% of protein
Raw token
HTH_LUXR:176:6.02e-16:232:58:58- Raw architecture: Response_reg:27:6.02e-28:138:112:111#HTH_LUXR:176:6.02e-16:232:58:58
- Domain description: 1 Response_reg,1 HTH_LUXR
- 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_018141605::NZ_CP065397.1::G00007
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span1365314-1367306Genomic interval covered by the local TCS group.
Identifiers
Old locus tagI3K78_05870RefSeq proteinWP_007056206.1
Context group ID
GCF_018141605::NZ_CP065397.1::G00007Context members
I3K78_RS05875I3K78_RS05880
Partner locus tags
I3K78_RS05875I3K78_RS05880
Partner old locus tags
I3K78_05865I3K78_05870
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_007056206.1Primary protein accession used for annex mappings.
UniProt accessionA0AA87IDU4Primary UniProt accession resolved in the annex database.
UniProt IDA0AA87IDU4_BIFLLDisplay identifier provided by UniProt.
GO / PubMed3 / 1Unique GO terms and literature references available below.
Reference hubs
GO terms
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagI3K78_RS05880Primary locus identifier stored in the genes table.
Old locus tagI3K78_05870Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_CP065397.1Sequence record reported by the local genomic context database.
Genomic interval1 366 581-1 367 306 nt726 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span1 365 314-1 367 306 ntGCF_018141605::NZ_CP065397.1::G00007
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_018141605::NZ_CP065397.1::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_CP065397.1All displayed genes belong to this local TCS context.
Neighborhood span1 365 314-1 367 306 nt1 993 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
1 365 314 nt1 367 306 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
I3K78_RS05875GCF_018141605#I3K78_RS05875
HKClassic
1 365 314-1 366 546 nt · Forward (+)
I3K78_RS05880GCF_018141605#I3K78_RS05880
RRNarLCurrent focus
1 366 581-1 367 306 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003135#HMPREF0175_RS02670Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Sigma70_r4_22 domains in the representative PFAM annotation.
PFAM architecture for RROC_0862556
Simplified PFAM architecture for RROC_0862556
PFAM domain coverage: 165 / 241 aa (68.5%)
1 aa241 aa
Response_regSigma70_r4_2
- Simplified architecture: Response_reg + Sigma70_r4_2
- Raw architecture: Response_reg[25-138] | Sigma70_r4_2[170-220]
- Domain count: 2
- Matched identifier: RROC_0862556
- Positioned domains: Response_reg 25-138 ; Response_reg 25-138 ; Sigma70_r4_2 170-220 ; Sigma70_r4_2 170-220
Cluster members and taxonomy
Representative gene: GCF_000003135#HMPREF0175_RS02670
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 216 816 · GCF_018141605
AssemblyASM1814160v1 · Complete Genomehaploid
Genome composition2 561 296 bp · 59,5% GCBifidobacterium longum
Signal transduction countsGenes 19 · HK 10 · RR 9CheA 0 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key