1 Response_reg#1
4-121 aa · 118 aa · 53.2% of protein
Raw token
Response_reg:4:1.58e-28:121:118:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
APC1472_RS04645
Response regulator NarL family
Bifidobacterium longum · GCF_002833115
ClassRRTypeNarLLength222 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_002833115#APC1472_RS04645Stable P2CS identifier used across views.
GenomeGCF_002833115Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regHTH_LUXR
Protein length222 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage174 / 222 aa (78.4%)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
160-215 aa · 56 aa · 25.2% of protein
Raw token
HTH_LUXR:160:5.29e-16:215:56:58- Raw architecture: Response_reg:4:1.58e-28:121:118:111#HTH_LUXR:160:5.29e-16:215:56:58
- 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_002833115::NZ_PJEA01000011.1::G00007
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span42315-42983Genomic interval covered by the local TCS group.
Identifiers
Old locus tagAPC1472_0869RefSeq proteinWP_012577742.1
Context group ID
GCF_002833115::NZ_PJEA01000011.1::G00007Context members
APC1472_RS04645
Partner locus tags
APC1472_RS04645
Partner old locus tags
APC1472_0869
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_012577742.1Primary protein accession used for annex mappings.
UniProt accessionB7GRR9Primary UniProt accession resolved in the annex database.
UniProt IDB7GRR9_BIFLSDisplay 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 tagAPC1472_RS04645Primary locus identifier stored in the genes table.
Old locus tagAPC1472_0869Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_PJEA01000011.1Sequence record reported by the local genomic context database.
Genomic interval42 315-42 983 nt669 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span42 315-42 983 ntGCF_002833115::NZ_PJEA01000011.1::G00007
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_002833115::NZ_PJEA01000011.1::G00007Graphic 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_PJEA01000011.1All displayed genes belong to this local TCS context.
Neighborhood span42 315-42 983 nt669 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
42 315 nt42 983 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
APC1472_RS04645GCF_002833115#APC1472_RS04645
RRNarLCurrent focus
42 315-42 983 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000020425#BLON_RS07345Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + GerE2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1637417
Simplified PFAM architecture for RROC_1637417
PFAM domain coverage: 171 / 222 aa (77.0%)
1 aa222 aa
Response_regGerE
- Simplified architecture: Response_reg + GerE
- Raw architecture: Response_reg[4-121] | GerE[162-214]
- Domain count: 2
- Matched identifier: RROC_1637417
- Positioned domains: Response_reg 4-121 ; Response_reg 4-121 ; GerE 162-214 ; GerE 162-214
Cluster members and taxonomy
Representative gene: GCF_000020425#BLON_RS07345
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 216 816 · GCF_002833115
AssemblyASM283311v1 · Contighaploid
Genome composition2 364 041 bp · 60,0% GCBifidobacterium 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