1 Response_reg#1
9-146 aa · 138 aa · 46.6% of protein
Raw token
Response_reg:9:7.61e-27:146:138:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF3231_RS09500
Response regulator NarL family
Bifidobacterium longum · GCF_001546275
ClassRRTypeNarLLength296 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_001546275#HMPREF3231_RS09500Stable P2CS identifier used across views.
GenomeGCF_001546275Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regHTH_LUXR
Protein length296 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage196 / 296 aa (66.2%)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
233-290 aa · 58 aa · 19.6% of protein
Raw token
HTH_LUXR:233:5.75e-25:290:58:58- Raw architecture: Response_reg:9:7.61e-27:146:138:111#HTH_LUXR:233:5.75e-25:290:58:58
- 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_001546275::NZ_KQ956006.1::G00009
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span53885-57250Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF3231_02146RefSeq proteinWP_007053424.1
Context group ID
GCF_001546275::NZ_KQ956006.1::G00009Context members
HMPREF3231_RS09495HMPREF3231_RS09500
Partner locus tags
HMPREF3231_RS09495HMPREF3231_RS09500
Partner old locus tags
HMPREF3231_02145HMPREF3231_02146
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_007053424.1Primary protein accession used for annex mappings.
UniProt accessionA0AA46JXS4Primary UniProt accession resolved in the annex database.
UniProt IDA0AA46JXS4_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 tagHMPREF3231_RS09500Primary locus identifier stored in the genes table.
Old locus tagHMPREF3231_02146Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_KQ956006.1Sequence record reported by the local genomic context database.
Genomic interval56 360-57 250 nt891 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span53 885-57 250 ntGCF_001546275::NZ_KQ956006.1::G00009
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_001546275::NZ_KQ956006.1::G00009Graphic 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_KQ956006.1All displayed genes belong to this local TCS context.
Neighborhood span53 885-57 250 nt3 366 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
53 885 nt57 250 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF3231_RS09495GCF_001546275#HMPREF3231_RS09495
HKClassic
53 885-56 338 nt · Forward (+)
HMPREF3231_RS09500GCF_001546275#HMPREF3231_RS09500
RRNarLCurrent focus
56 360-57 250 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003135#HMPREF0175_RS09025Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + GerE2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0580156
Simplified PFAM architecture for RROC_0580156
PFAM domain coverage: 125 / 296 aa (42.2%)
1 aa296 aa
Response_regGerE
- Simplified architecture: Response_reg + GerE
- Raw architecture: Response_reg[9-77] | GerE[235-290]
- Domain count: 2
- Matched identifier: RROC_0580156
- Positioned domains: Response_reg 9-77 ; Response_reg 9-77 ; GerE 235-290 ; GerE 235-290
Cluster members and taxonomy
Representative gene: GCF_000003135#HMPREF0175_RS09025
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 216 816 · GCF_001546275
AssemblyASM154627v1 · Scaffoldhaploid
Genome composition2 372 082 bp · 60,0% 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