1 Response_reg#1
142-253 aa · 112 aa · 32.7% of protein
Raw token
Response_reg:142:1.54e-20:253:113:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
CWE05_RS12120
Response regulator NarL family
Bifidobacterium longum · GCF_003130775
ClassRRTypeNarLLength343 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_003130775#CWE05_RS12120Stable P2CS identifier used across views.
GenomeGCF_003130775Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regHTH_LUXR
Protein length343 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage164 / 343 aa (47.8%)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
284-335 aa · 52 aa · 15.2% of protein
Raw token
HTH_LUXR:284:0.000000000000148:335:52:58- Raw architecture: Response_reg:142:1.54e-20:253:113:111#HTH_LUXR:284:0.000000000000148:335:52:58
- 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 labelorphanGCF_003130775::NZ_PHUM01000023.1::G00002
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span5437-6468Genomic interval covered by the local TCS group.
Identifiers
Context group ID
GCF_003130775::NZ_PHUM01000023.1::G00002Context members
CWE05_RS12120
Partner locus tags
CWE05_RS12120
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
No UniProt / GO / PubMed mapping was found for WP_258305313.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagCWE05_RS12120Primary locus identifier stored in the genes table.
Old locus tagUnavailableNo previous locus tag available for this gene.
Contig / repliconNZ_PHUM01000023.1Sequence record reported by the local genomic context database.
Genomic interval5 437-6 468 nt1 032 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span5 437-6 468 ntGCF_003130775::NZ_PHUM01000023.1::G00002
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_003130775::NZ_PHUM01000023.1::G00002Graphic view
Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.
Context labelorphanNeighborhood members are ordered by genomic coordinates.
Contig / repliconNZ_PHUM01000023.1All displayed genes belong to this local TCS context.
Neighborhood span5 437-6 468 nt1 032 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
5 437 nt6 468 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
CWE05_RS12120GCF_003130775#CWE05_RS12120
RRNarLCurrent focus
5 437-6 468 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_003130775#CWE05_RS12120The current gene is the representative for this cluster.
PFAM architectureResponse_reg + GerE2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0496192
Simplified PFAM architecture for RROC_0496192
PFAM domain coverage: 162 / 343 aa (47.2%)
1 aa343 aa
Response_regGerE
- Simplified architecture: Response_reg + GerE
- Raw architecture: Response_reg[142-251] | GerE[284-335]
- Domain count: 2
- Matched identifier: RROC_0496192
- Positioned domains: Response_reg 142-251 ; Response_reg 142-251 ; GerE 284-335 ; GerE 284-335
Cluster members and taxonomy
Representative gene: GCF_003130775#CWE05_RS12120
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 216 816 · GCF_003130775
AssemblyASM313077v1 · Contighaploid
Genome composition2 392 556 bp · 60,0% GCBifidobacterium longum
Signal transduction countsGenes 25 · HK 11 · RR 13CheA 0 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key