1 Response_reg#1
3-124 aa · 122 aa · 45.0% of protein
Raw token
Response_reg:3:4e-20:124:124:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
Q3X78_RS04235
Response regulator LytTR family
Bifidobacterium sp. · GCF_031293485
ClassRRTypeLytTRLength271 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_031293485#Q3X78_RS04235Stable P2CS identifier used across views.
GenomeGCF_031293485Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regLytTR
Protein length271 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage196 / 271 aa (72.3%)Merged over positioned domains only.
Domain description1 Response_reg,1 LytTRSummary 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 aa271 aa
Domain-by-domain annotation2 items
2 LytTR#2
176-249 aa · 74 aa · 27.3% of protein
Raw token
LytTR:176:0.00000722:249:79:98- Raw architecture: Response_reg:3:4e-20:124:124:111#LytTR:176:0.00000722:249:79:98
- Domain description: 1 Response_reg,1 LytTR
- 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_031293485::NZ_JAUMRN010000017.1::G00012
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span98070-98885Genomic interval covered by the local TCS group.
Identifiers
Old locus tagQ3X78_04230RefSeq proteinWP_041777246.1
Context group ID
GCF_031293485::NZ_JAUMRN010000017.1::G00012Context members
Q3X78_RS04235
Partner locus tags
Q3X78_RS04235
Partner old locus tags
Q3X78_04230
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_041777246.1Primary protein accession used for annex mappings.
UniProt accessionA0A1X2Z765Primary UniProt accession resolved in the annex database.
UniProt IDA0A1X2Z765_BIFADDisplay 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 tagQ3X78_RS04235Primary locus identifier stored in the genes table.
Old locus tagQ3X78_04230Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAUMRN010000017.1Sequence record reported by the local genomic context database.
Genomic interval98 070-98 885 nt816 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span98 070-98 885 ntGCF_031293485::NZ_JAUMRN010000017.1::G00012
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_031293485::NZ_JAUMRN010000017.1::G00012Graphic 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_JAUMRN010000017.1All displayed genes belong to this local TCS context.
Neighborhood span98 070-98 885 nt816 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
98 070 nt98 885 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
Q3X78_RS04235GCF_031293485#Q3X78_RS04235
RRLytTRCurrent focus
98 070-98 885 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000010425#BAD_RS01930Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + LytTR2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0611941
Simplified PFAM architecture for RROC_0611941
PFAM domain coverage: 203 / 271 aa (74.9%)
1 aa271 aa
Response_regLytTR
- Simplified architecture: Response_reg + LytTR
- Raw architecture: Response_reg[4-129] | LytTR[176-252]
- Domain count: 2
- Matched identifier: RROC_0611941
- Positioned domains: Response_reg 4-129 ; Response_reg 4-129 ; LytTR 176-252 ; LytTR 176-252
Cluster members and taxonomy
Representative gene: GCF_000010425#BAD_RS01930
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 41 200 · GCF_031293485
AssemblyASM3129348v1 · Contighaploid
Genome composition2 239 565 bp · 56,5% GCBifidobacterium sp.
Signal transduction countsGenes 31 · HK 13 · RR 16CheA 0 · PP 2
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key