1 dCache_1#1
38-271 aa · 234 aa · 32.4% of protein
Raw token
dCache_1:38:0.00000000000979:271:234:195P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BPOF4_RS03975
Histidine kinase, Classic
Alkalihalophilus pseudofirmus OF4 · GCF_000005825
ClassHKTypeClassicLength722 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_000005825#BPOF4_RS03975Stable P2CS identifier used across views.
GenomeGCF_000005825Bacteria; Bacillati; Bacillota; Bacilli; Bacillales; Bacillaceae; Alkalihalophilus
Domain signature
Compact overview inferred from the domain field
dCache_1HAMPPAS_9HisKAHATPase_c
Protein length722 aaLength used to scale native and Biotite-like views.
Annotated domains55 with usable coordinates.
Domain coverage574 / 722 aa (79.5%)Merged over positioned domains only.
Domain description1 dCache_1,1 HAMP,1 PAS_9,1 HisKA,1 HATPase_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 aa722 aa
Domain-by-domain annotation5 items
2 HAMP#2
292-360 aa · 69 aa · 9.6% of protein
Raw token
HAMP:292:0.000000696:360:69:693 PAS_9#3
388-485 aa · 98 aa · 13.6% of protein
Raw token
PAS_9:388:0.0000197:485:98:1024 HisKA#4
503-567 aa · 65 aa · 9.0% of protein
Raw token
HisKA:503:0.0000000000141:567:65:645 HATPase_c#5
610-717 aa · 108 aa · 15.0% of protein
Raw token
HATPase_c:610:4.19e-25:717:112:109- Raw architecture: dCache_1:38:0.00000000000979:271:234:195#HAMP:292:0.000000696:360:69:69#PAS_9:388:0.0000197:485:98:102#HisKA:503:0.0000000000141:567:65:64#HATPase_c:610:4.19e-25:717:112:109
- Domain description: 1 dCache_1,1 HAMP,1 PAS_9,1 HisKA,1 HATPase_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 labelorphanGCF_000005825::NC_013791.2::G00010
Group size11 locus tag listed below.
HK / RR1 / 0Counts resolved for the local TCS neighborhood.
Context span799495-801663Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBpOF4_11805RefSeq proteinWP_012957780.1
Context group ID
GCF_000005825::NC_013791.2::G00010Context members
BPOF4_RS03975
Partner locus tags
BPOF4_RS03975
Partner old locus tags
BpOF4_11805
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_012957780.1Primary protein accession used for annex mappings.
UniProt accessionD3FVY2Primary UniProt accession resolved in the annex database.
UniProt IDD3FVY2_ALKPODisplay identifier provided by UniProt.
GO / PubMed3 / 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_RS03975Primary locus identifier stored in the genes table.
Old locus tagBpOF4_11805Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_013791.2Sequence record reported by the local genomic context database.
Genomic interval799 495-801 663 nt2 169 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span799 495-801 663 ntGCF_000005825::NC_013791.2::G00010
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000005825::NC_013791.2::G00010Graphic 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 span799 495-801 663 nt2 169 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
799 495 nt801 663 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
BPOF4_RS03975GCF_000005825#BPOF4_RS03975
HKClassicCurrent focus
799 495-801 663 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000005825#BPOF4_RS03975The current gene is the representative for this cluster.
PFAM architecturedCache_1 + HisKA + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0728692
Simplified PFAM architecture for HKOC_0728692
PFAM domain coverage: 394 / 722 aa (54.6%)
1 aa722 aa
dCache_1HisKAHATPase_c
- Simplified architecture: dCache_1 + HisKA + HATPase_c
- Raw architecture: dCache_1[37-259] | HisKA[503-566] | HATPase_c[610-716]
- Domain count: 3
- Matched identifier: HKOC_0728692
- Positioned domains: dCache_1 37-259 ; HisKA 503-566 ; HATPase_c 610-716
Cluster members and taxonomy
Representative gene: GCF_000005825#BPOF4_RS03975
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