1 Response_reg#1
15-122 aa · 108 aa · 44.6% of protein
Raw token
Response_reg:15:1.55e-36:122:109:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BIFPSEUDO_RS05085
Response regulator OmpR family
Bifidobacterium pseudocatenulatum DSM 20438 = JCM 1200 = LMG 10505 · GCF_000173435
ClassRRTypeOmpRLength242 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000173435#BIFPSEUDO_RS05085Stable 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 length242 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage180 / 242 aa (74.4%)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
Native P2CS viewFrontend rendering from the parsed domain string and TMPRED protein features.
1 aa242 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
164-235 aa · 72 aa · 29.8% of protein
Raw token
Trans_reg_C:164:3.79e-29:235:77:77- Raw architecture: Response_reg:15:1.55e-36:122:109:111#Trans_reg_C:164:3.79e-29:235:77:77
- 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_ABXX02000003.1::G00006
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span68844-70668Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBIFPSEUDO_03469RefSeq proteinWP_004221573.1
Context group ID
GCF_000173435::NZ_ABXX02000003.1::G00006Context members
BIFPSEUDO_RS05080BIFPSEUDO_RS05085
Partner locus tags
BIFPSEUDO_RS05080BIFPSEUDO_RS05085
Partner old locus tags
BIFPSEUDO_03468BIFPSEUDO_03469
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_004221573.1Primary protein accession used for annex mappings.
UniProt accessionC0BSV2Primary UniProt accession resolved in the annex database.
UniProt IDC0BSV2_BIFPSDisplay identifier provided by UniProt.
GO / PubMed5 / 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_RS05085Primary locus identifier stored in the genes table.
Old locus tagBIFPSEUDO_03469Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_ABXX02000003.1Sequence record reported by the local genomic context database.
Genomic interval69 940-70 668 nt729 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span68 844-70 668 ntGCF_000173435::NZ_ABXX02000003.1::G00006
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000173435::NZ_ABXX02000003.1::G00006Graphic 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_ABXX02000003.1All displayed genes belong to this local TCS context.
Neighborhood span68 844-70 668 nt1 825 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
68 844 nt70 668 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
BIFPSEUDO_RS05080GCF_000173435#BIFPSEUDO_RS05080
HKClassic
68 844-69 920 nt · Reverse (-)
BIFPSEUDO_RS05085GCF_000173435#BIFPSEUDO_RS05085
RROmpRCurrent focus
69 940-70 668 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000173435#BIFPSEUDO_RS05085The current gene is the representative for this cluster.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0843732
Simplified PFAM architecture for RROC_0843732
PFAM domain coverage: 180 / 242 aa (74.4%)
1 aa242 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[15-122] | Trans_reg_C[164-235]
- Domain count: 2
- Matched identifier: RROC_0843732
- Positioned domains: Response_reg 15-122 ; Response_reg 15-122 ; Trans_reg_C 164-235 ; Trans_reg_C 164-235
Cluster members and taxonomy
Representative gene: GCF_000173435#BIFPSEUDO_RS05085
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