1 Response_reg#1
19-131 aa · 113 aa · 48.5% of protein
Raw token
Response_reg:19:1.75e-28:131:113:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BIFPSEUDO_RS02835
Response regulator NarL family
Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 = LMG 10505 · GCF_000173435
ClassRRTypeNarLLength233 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_000173435#BIFPSEUDO_RS02835Stable 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 length233 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage170 / 233 aa (73.0%)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
168-224 aa · 57 aa · 24.5% of protein
Raw token
HTH_LUXR:168:1.21e-16:224:58:58- Raw architecture: Response_reg:19:1.75e-28:131:113:111#HTH_LUXR:168:1.21e-16:224:58:58
- 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 labelorphanGCF_000173435::NZ_ABXX02000002.1::G00009
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span55884-56585Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBIFPSEUDO_02954RefSeq proteinWP_004220482.1
Context group ID
GCF_000173435::NZ_ABXX02000002.1::G00009Context members
BIFPSEUDO_RS02835
Partner locus tags
BIFPSEUDO_RS02835
Partner old locus tags
BIFPSEUDO_02954
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_004220482.1Primary protein accession used for annex mappings.
UniProt accessionA0A1V8PR73Primary UniProt accession resolved in the annex database.
UniProt IDA0A1V8PR73_9BIFIDisplay identifier provided by UniProt.
GO / PubMed4 / 0Unique GO terms and literature references available below.
Reference hubs
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagBIFPSEUDO_RS02835Primary locus identifier stored in the genes table.
Old locus tagBIFPSEUDO_02954Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_ABXX02000002.1Sequence record reported by the local genomic context database.
Genomic interval55 884-56 585 nt702 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span55 884-56 585 ntGCF_000173435::NZ_ABXX02000002.1::G00009
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000173435::NZ_ABXX02000002.1::G00009Graphic 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_ABXX02000002.1All displayed genes belong to this local TCS context.
Neighborhood span55 884-56 585 nt702 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
55 884 nt56 585 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
BIFPSEUDO_RS02835GCF_000173435#BIFPSEUDO_RS02835
RRNarLCurrent focus
55 884-56 585 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_039733605#ABHM05_RS03135Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Sigma70_r4_22 domains in the representative PFAM annotation.
PFAM architecture for RROC_0783763
Simplified PFAM architecture for RROC_0783763
PFAM domain coverage: 164 / 246 aa (66.7%)
1 aa246 aa
Response_regSigma70_r4_2
- Simplified architecture: Response_reg + Sigma70_r4_2
- Raw architecture: Response_reg[18-130] | Sigma70_r4_2[162-212]
- Domain count: 2
- Matched identifier: RROC_0783763
- Positioned domains: Response_reg 18-130 ; Sigma70_r4_2 162-212
Cluster members and taxonomy
Representative gene: GCF_039733605#ABHM05_RS03135
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