1 Response_reg#1
9-133 aa · 125 aa · 50.4% of protein
Raw token
Response_reg:9:2.07e-28:133:125:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BIFPSEUDO_RS09090
Response regulator NarL family
Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 = LMG 10505 · GCF_000173435
ClassRRTypeNarLLength248 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000173435#BIFPSEUDO_RS09090Stable 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 length248 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage183 / 248 aa (73.8%)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
185-242 aa · 58 aa · 23.4% of protein
Raw token
HTH_LUXR:185:3.07e-23:242:58:58- Raw architecture: Response_reg:9:2.07e-28:133:125:111#HTH_LUXR:185:3.07e-23:242:58:58
- 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_000173435::NZ_ABXX02000007.1::G00003
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span69160-72592Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBIFPSEUDO_04432RefSeq proteinWP_004223793.1
Context group ID
GCF_000173435::NZ_ABXX02000007.1::G00003Context members
BIFPSEUDO_RS09090BIFPSEUDO_RS09095
Partner locus tags
BIFPSEUDO_RS09090BIFPSEUDO_RS09095
Partner old locus tags
BIFPSEUDO_04432BIFPSEUDO_04433
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_004223793.1Primary protein accession used for annex mappings.
UniProt accessionC0BVI5Primary UniProt accession resolved in the annex database.
UniProt IDC0BVI5_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_RS09090Primary locus identifier stored in the genes table.
Old locus tagBIFPSEUDO_04432Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_ABXX02000007.1Sequence record reported by the local genomic context database.
Genomic interval69 160-69 906 nt747 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span69 160-72 592 ntGCF_000173435::NZ_ABXX02000007.1::G00003
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000173435::NZ_ABXX02000007.1::G00003Graphic 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_ABXX02000007.1All displayed genes belong to this local TCS context.
Neighborhood span69 160-72 592 nt3 433 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
69 160 nt72 592 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
BIFPSEUDO_RS09090GCF_000173435#BIFPSEUDO_RS09090
RRNarLCurrent focus
69 160-69 906 nt · Reverse (-)
BIFPSEUDO_RS09095GCF_000173435#BIFPSEUDO_RS09095
HKClassic
69 983-72 592 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000173435#BIFPSEUDO_RS09090The current gene is the representative for this cluster.
PFAM architectureResponse_reg + GerE2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0743360
Simplified PFAM architecture for RROC_0743360
PFAM domain coverage: 180 / 248 aa (72.6%)
1 aa248 aa
Response_regGerE
- Simplified architecture: Response_reg + GerE
- Raw architecture: Response_reg[9-132] | GerE[187-242]
- Domain count: 2
- Matched identifier: RROC_0743360
- Positioned domains: Response_reg 9-132 ; Response_reg 9-132 ; GerE 187-242 ; GerE 187-242
Cluster members and taxonomy
Representative gene: GCF_000173435#BIFPSEUDO_RS09090
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