1 Response_reg#1
16-125 aa · 110 aa · 44.7% of protein
Raw token
Response_reg:16:1.42e-33:125:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BPOF4_RS04475
Response regulator OmpR family
Alkalihalophilus pseudofirmus OF4 · GCF_000005825
ClassRRTypeOmpRLength246 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000005825#BPOF4_RS04475Stable P2CS identifier used across views.
GenomeGCF_000005825Bacteria; Bacillati; Bacillota; Bacilli; Bacillales; Bacillaceae; Alkalihalophilus
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length246 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage187 / 246 aa (76.0%)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 aa246 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
162-238 aa · 77 aa · 31.3% of protein
Raw token
Trans_reg_C:162:1.44e-33:238:77:77- Raw architecture: Response_reg:16:1.42e-33:125:111:111#Trans_reg_C:162:1.44e-33:238:77:77
- 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_000005825::NC_013791.2::G00011
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span903866-905999Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBpOF4_12320RefSeq proteinWP_012957881.1
Context group ID
GCF_000005825::NC_013791.2::G00011Context members
BPOF4_RS04475BPOF4_RS04480
Partner locus tags
BPOF4_RS04475BPOF4_RS04480
Partner old locus tags
BpOF4_12320BpOF4_12325
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_012957881.1Primary protein accession used for annex mappings.
UniProt accessionD3FWL9Primary UniProt accession resolved in the annex database.
UniProt IDD3FWL9_ALKPODisplay 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 tagBPOF4_RS04475Primary locus identifier stored in the genes table.
Old locus tagBpOF4_12320Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_013791.2Sequence record reported by the local genomic context database.
Genomic interval903 866-904 606 nt741 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span903 866-905 999 ntGCF_000005825::NC_013791.2::G00011
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000005825::NC_013791.2::G00011Graphic 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 span903 866-905 999 nt2 134 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
903 866 nt905 999 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
BPOF4_RS04475GCF_000005825#BPOF4_RS04475
RROmpRCurrent focus
903 866-904 606 nt · Forward (+)
BPOF4_RS04480GCF_000005825#BPOF4_RS04480
HKClassic
904 635-905 999 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000005825#BPOF4_RS04475The current gene is the representative for this cluster.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0769177
Simplified PFAM architecture for RROC_0769177
PFAM domain coverage: 187 / 246 aa (76.0%)
1 aa246 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[16-125] | Trans_reg_C[162-238]
- Domain count: 2
- Matched identifier: RROC_0769177
- Positioned domains: Response_reg 16-125 ; Response_reg 16-125 ; Trans_reg_C 162-238 ; Trans_reg_C 162-238
Cluster members and taxonomy
Representative gene: GCF_000005825#BPOF4_RS04475
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