1 Response_reg#1
9-107 aa · 99 aa · 44.4% of protein
Raw token
Response_reg:9:0.00000000000278:107:99:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BIFPSEUDO_RS06860
Response regulator NarL family
Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 = LMG 10505 · GCF_000173435
ClassRRTypeNarLLength223 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_000173435#BIFPSEUDO_RS06860Stable P2CS identifier used across views.
GenomeGCF_000173435Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regHTH_LUXR
Protein length223 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage154 / 223 aa (69.1%)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
Native P2CS viewFrontend rendering from the parsed domain string and TMPRED protein features.
1 aa223 aa
Domain-by-domain annotation2 items
2 HTH_LUXR#2
159-213 aa · 55 aa · 24.7% of protein
Raw token
HTH_LUXR:159:6.28e-19:213:55:58- Raw architecture: Response_reg:9:0.00000000000278:107:99:111#HTH_LUXR:159:6.28e-19:213:55:58
- 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_000173435::NZ_ABXX02000003.1::G00008
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span473740-474411Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBIFPSEUDO_03892RefSeq proteinWP_004222517.1
Context group ID
GCF_000173435::NZ_ABXX02000003.1::G00008Context members
BIFPSEUDO_RS06860
Partner locus tags
BIFPSEUDO_RS06860
Partner old locus tags
BIFPSEUDO_03892
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_004222517.1Primary protein accession used for annex mappings.
UniProt accessionC0BU11Primary UniProt accession resolved in the annex database.
UniProt IDC0BU11_BIFPSDisplay identifier provided by UniProt.
GO / PubMed3 / 0Unique GO terms and literature references available below.
Reference hubs
GO terms
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagBIFPSEUDO_RS06860Primary locus identifier stored in the genes table.
Old locus tagBIFPSEUDO_03892Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_ABXX02000003.1Sequence record reported by the local genomic context database.
Genomic interval473 740-474 411 nt672 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span473 740-474 411 ntGCF_000173435::NZ_ABXX02000003.1::G00008
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000173435::NZ_ABXX02000003.1::G00008Graphic 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_ABXX02000003.1All displayed genes belong to this local TCS context.
Neighborhood span473 740-474 411 nt672 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
473 740 nt474 411 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
BIFPSEUDO_RS06860GCF_000173435#BIFPSEUDO_RS06860
RRNarLCurrent focus
473 740-474 411 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000173435#BIFPSEUDO_RS06860The current gene is the representative for this cluster.
PFAM architectureResponse_reg + GerE2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1587653
Simplified PFAM architecture for RROC_1587653
PFAM domain coverage: 159 / 223 aa (71.3%)
1 aa223 aa
Response_regGerE
- Simplified architecture: Response_reg + GerE
- Raw architecture: Response_reg[9-113] | GerE[160-213]
- Domain count: 2
- Matched identifier: RROC_1587653
- Positioned domains: Response_reg 9-113 ; Response_reg 9-113 ; GerE 160-213 ; GerE 160-213
Cluster members and taxonomy
Representative gene: GCF_000173435#BIFPSEUDO_RS06860
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 547 043 · GCF_000173435
AssemblyASM17343v1 · Contighaploid
Genome composition2 304 808 bp · 56,5% GCBifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 = LMG 10505
Signal transduction countsGenes 28 · HK 11 · RR 14CheA 0 · PP 3
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key