1 Response_reg#1
4-113 aa · 110 aa · 47.0% of protein
Raw token
Response_reg:4:1.65e-37:113:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BIFPSEUDO_RS01715
Response regulator OmpR family
Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 = LMG 10505 · GCF_000173435
ClassRRTypeOmpRLength234 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000173435#BIFPSEUDO_RS01715Stable P2CS identifier used across views.
GenomeGCF_000173435Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length234 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage187 / 234 aa (79.9%)Merged over positioned domains only.
Domain description1 Response_reg,1 Trans_reg_CSummary 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 Trans_reg_C#2
153-229 aa · 77 aa · 32.9% of protein
Raw token
Trans_reg_C:153:3.21e-33:229:77:77- Raw architecture: Response_reg:4:1.65e-37:113:111:111#Trans_reg_C:153:3.21e-33:229:77:77
- Domain description: 1 Response_reg,1 Trans_reg_C
- 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_ABXX02000001.1::G00015
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span384712-386863Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBIFPSEUDO_02689RefSeq proteinWP_004220077.1
Context group ID
GCF_000173435::NZ_ABXX02000001.1::G00015Context members
BIFPSEUDO_RS01715BIFPSEUDO_RS01720
Partner locus tags
BIFPSEUDO_RS01715BIFPSEUDO_RS01720
Partner old locus tags
BIFPSEUDO_02689BIFPSEUDO_02690
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_004220077.1Primary protein accession used for annex mappings.
UniProt accessionA0A0A7I0W5Primary UniProt accession resolved in the annex database.
UniProt IDA0A0A7I0W5_9BIFIDisplay identifier provided by UniProt.
GO / PubMed5 / 1Unique GO terms and literature references available below.
Reference hubs
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagBIFPSEUDO_RS01715Primary locus identifier stored in the genes table.
Old locus tagBIFPSEUDO_02689Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_ABXX02000001.1Sequence record reported by the local genomic context database.
Genomic interval384 712-385 416 nt705 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span384 712-386 863 ntGCF_000173435::NZ_ABXX02000001.1::G00015
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000173435::NZ_ABXX02000001.1::G00015Graphic 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_ABXX02000001.1All displayed genes belong to this local TCS context.
Neighborhood span384 712-386 863 nt2 152 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
384 712 nt386 863 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
BIFPSEUDO_RS01715GCF_000173435#BIFPSEUDO_RS01715
RROmpRCurrent focus
384 712-385 416 nt · Reverse (-)
BIFPSEUDO_RS01720GCF_000173435#BIFPSEUDO_RS01720
HKClassic
385 499-386 863 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000173435#BIFPSEUDO_RS01715The current gene is the representative for this cluster.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1047578
Simplified PFAM architecture for RROC_1047578
PFAM domain coverage: 184 / 234 aa (78.6%)
1 aa234 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[4-113] | Trans_reg_C[155-228]
- Domain count: 2
- Matched identifier: RROC_1047578
- Positioned domains: Response_reg 4-113 ; Response_reg 4-113 ; Trans_reg_C 155-228 ; Trans_reg_C 155-228
Cluster members and taxonomy
Representative gene: GCF_000173435#BIFPSEUDO_RS01715
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