1 Response_reg#1
7-115 aa · 109 aa · 44.7% of protein
Raw token
Response_reg:7:7.31e-27:115:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BPOF4_RS13775
Response regulator LytTR family
Alkalihalophilus pseudofirmus OF4 · GCF_000005825
ClassRRTypeLytTRLength244 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000005825#BPOF4_RS13775Stable P2CS identifier used across views.
GenomeGCF_000005825Bacteria; Bacillati; Bacillota; Bacilli; Bacillales; Bacillaceae; Alkalihalophilus
Domain signature
Compact overview inferred from the domain field
Response_regLytTR
Protein length244 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage208 / 244 aa (85.2%)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 aa244 aa
Domain-by-domain annotation2 items
2 LytTR#2
145-243 aa · 99 aa · 40.6% of protein
Raw token
LytTR:145:3.68e-25:243:99:98- Raw architecture: Response_reg:7:7.31e-27:115:111:111#LytTR:145:3.68e-25:243:99:98
- 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 labelpairedGCF_000005825::NC_013791.2::G00033
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span2703184-2705659Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBpOF4_02240RefSeq proteinWP_012959793.1
Context group ID
GCF_000005825::NC_013791.2::G00033Context members
BPOF4_RS13775BPOF4_RS13780
Partner locus tags
BPOF4_RS13775BPOF4_RS13780
Partner old locus tags
BpOF4_02240BpOF4_02245
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_012959793.1Primary protein accession used for annex mappings.
UniProt accessionD3FVK0Primary UniProt accession resolved in the annex database.
UniProt IDD3FVK0_ALKPODisplay identifier provided by UniProt.
GO / PubMed2 / 1Unique GO terms and literature references available below.
Reference hubs
GO terms
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagBPOF4_RS13775Primary locus identifier stored in the genes table.
Old locus tagBpOF4_02240Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_013791.2Sequence record reported by the local genomic context database.
Genomic interval2 703 184-2 703 918 nt735 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span2 703 184-2 705 659 ntGCF_000005825::NC_013791.2::G00033
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000005825::NC_013791.2::G00033Graphic 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 / repliconNC_013791.2All displayed genes belong to this local TCS context.
Neighborhood span2 703 184-2 705 659 nt2 476 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
2 703 184 nt2 705 659 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
BPOF4_RS13775GCF_000005825#BPOF4_RS13775
RRLytTRCurrent focus
2 703 184-2 703 918 nt · Reverse (-)
BPOF4_RS13780GCF_000005825#BPOF4_RS13780
HKClassic
2 703 911-2 705 659 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000005825#BPOF4_RS13775The current gene is the representative for this cluster.
PFAM architectureResponse_reg + LytTR2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0805936
Simplified PFAM architecture for RROC_0805936
PFAM domain coverage: 206 / 244 aa (84.4%)
1 aa244 aa
Response_regLytTR
- Simplified architecture: Response_reg + LytTR
- Raw architecture: Response_reg[7-115] | LytTR[146-242]
- Domain count: 2
- Matched identifier: RROC_0805936
- Positioned domains: Response_reg 7-115 ; Response_reg 7-115 ; LytTR 146-242 ; LytTR 146-242
Cluster members and taxonomy
Representative gene: GCF_000005825#BPOF4_RS13775
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 398 511 · GCF_000005825
AssemblyASM582v2 · Complete Genomehaploid
Genome composition4 249 248 bp · 40,0% GCAlkalihalophilus pseudofirmus OF4
Signal transduction countsGenes 76 · HK 40 · RR 36CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassBacilliOrderBacillalesFamilyBacillaceaeGenusAlkalihalophilus
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Bacilli5Bacillales6Bacillaceae7Alkalihalophilus
Related genes
Preview from the same derived genome key