1 Response_reg#1
2-86 aa · 85 aa · 32.0% of protein
Raw token
Response_reg:2:0.00000000000000688:86:87:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
A0008_RS09480
Response regulator LytTR family
Bifidobacterium bifidum · GCF_001020245
ClassRRTypeLytTRLength266 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_001020245#A0008_RS09480Stable P2CS identifier used across views.
GenomeGCF_001020245Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regLytTR
Protein length266 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage172 / 266 aa (64.7%)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 aa266 aa
Domain-by-domain annotation2 items
2 LytTR#2
105-191 aa · 87 aa · 32.7% of protein
Raw token
LytTR:105:6.51e-16:191:94:98- Raw architecture: Response_reg:2:0.00000000000000688:86:87:111#LytTR:105:6.51e-16:191:94:98
- 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_001020245::NZ_JSDV01000002.1::G00003
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span110407-111177Genomic interval covered by the local TCS group.
Identifiers
Old locus tagA0008_0523RefSeq proteinWP_229041929.1
Context group ID
GCF_001020245::NZ_JSDV01000002.1::G00003Context members
A0008_RS09480
Partner locus tags
A0008_RS09480
Partner old locus tags
A0008_0523
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
No UniProt / GO / PubMed mapping was found for WP_229041929.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagA0008_RS09480Primary locus identifier stored in the genes table.
Old locus tagA0008_0523Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JSDV01000002.1Sequence record reported by the local genomic context database.
Genomic interval110 407-111 177 nt771 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span110 407-111 177 ntGCF_001020245::NZ_JSDV01000002.1::G00003
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_001020245::NZ_JSDV01000002.1::G00003Graphic 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_JSDV01000002.1All displayed genes belong to this local TCS context.
Neighborhood span110 407-111 177 nt771 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
110 407 nt111 177 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
A0008_RS09480GCF_001020245#A0008_RS09480
RRLytTRCurrent focus
110 407-111 177 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_001020245#A0008_RS09480The current gene is the representative for this cluster.
PFAM architectureResponse_reg + LytTR2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0626842
Simplified PFAM architecture for RROC_0626842
PFAM domain coverage: 167 / 266 aa (62.8%)
1 aa266 aa
Response_regLytTR
- Simplified architecture: Response_reg + LytTR
- Raw architecture: Response_reg[5-85] | LytTR[107-192]
- Domain count: 2
- Matched identifier: RROC_0626842
- Positioned domains: Response_reg 5-85 ; Response_reg 5-85 ; LytTR 107-192 ; LytTR 107-192
Cluster members and taxonomy
Representative gene: GCF_001020245#A0008_RS09480
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 681 · GCF_001020245
AssemblyBbif04v4 · Contighaploid
Genome composition2 223 105 bp · 63,0% GCBifidobacterium bifidum
Signal transduction countsGenes 20 · HK 8 · RR 12CheA 0 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key