1 Response_reg#1
115-225 aa · 111 aa · 20.5% of protein
Raw token
Response_reg:115:0.0000000000000223:225:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BPOF4_RS06615
Response regulator, PleD family
Alkalihalophilus pseudofirmus OF4 · GCF_000005825
ClassRRTypePleDLength542 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_000005825#BPOF4_RS06615Stable P2CS identifier used across views.
GenomeGCF_000005825Bacteria; Bacillati; Bacillota; Bacilli; Bacillales; Bacillaceae; Alkalihalophilus
Domain signature
Compact overview inferred from the domain field
Response_regGGDEF
Protein length542 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage386 / 542 aa (71.2%)Merged over positioned domains only.
Domain description2 Response_reg,1 GGDEFSummary 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 aa542 aa
Domain-by-domain annotation3 items
2 GGDEF#2
241-397 aa · 157 aa · 29.0% of protein
Raw token
GGDEF:241:1.68e-52:397:159:1603 Response_reg#3
417-534 aa · 118 aa · 21.8% of protein
Raw token
Response_reg:417:5.11e-26:534:118:111- Raw architecture: Response_reg:115:0.0000000000000223:225:111:111#GGDEF:241:1.68e-52:397:159:160#Response_reg:417:5.11e-26:534:118:111
- Domain description: 2 Response_reg,1 GGDEF
- 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_000005825::NC_013791.2::G00019
Group size11 locus tag listed below.
HK / RR0 / 1Counts resolved for the local TCS neighborhood.
Context span1317202-1318830Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBpOF4_14515RefSeq proteinWP_012958314.1
Context group ID
GCF_000005825::NC_013791.2::G00019Context members
BPOF4_RS06615
Partner locus tags
BPOF4_RS06615
Partner old locus tags
BpOF4_14515
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_012958314.1Primary protein accession used for annex mappings.
UniProt accessionD3FZ83Primary UniProt accession resolved in the annex database.
UniProt IDD3FZ83_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_RS06615Primary locus identifier stored in the genes table.
Old locus tagBpOF4_14515Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_013791.2Sequence record reported by the local genomic context database.
Genomic interval1 317 202-1 318 830 nt1 629 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span1 317 202-1 318 830 ntGCF_000005825::NC_013791.2::G00019
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000005825::NC_013791.2::G00019Graphic 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 / repliconNC_013791.2All displayed genes belong to this local TCS context.
Neighborhood span1 317 202-1 318 830 nt1 629 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
1 317 202 nt1 318 830 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
BPOF4_RS06615GCF_000005825#BPOF4_RS06615
RRPleDCurrent focus
1 317 202-1 318 830 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000005825#BPOF4_RS06615The current gene is the representative for this cluster.
PFAM architectureResponse_reg + GGDEF + Response_reg3 domains in the representative PFAM annotation.
PFAM architecture for RROC_0085459
Simplified PFAM architecture for RROC_0085459
PFAM domain coverage: 388 / 542 aa (71.6%)
1 aa542 aa
Response_regGGDEFResponse_reg
- Simplified architecture: Response_reg + GGDEF + Response_reg
- Raw architecture: Response_reg[115-225] | GGDEF[241-397] | Response_reg[415-534]
- Domain count: 3
- Matched identifier: RROC_0085459
- Positioned domains: Response_reg 115-225 ; Response_reg 115-225 ; GGDEF 241-397 ; GGDEF 241-397 ; Response_reg 415-534 ; Response_reg 415-534
Cluster members and taxonomy
Representative gene: GCF_000005825#BPOF4_RS06615
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