1 sCache_like#1
35-151 aa · 117 aa · 19.7% of protein
Raw token
sCache_like:35:5.05e-25:151:117:114P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BPOF4_RS14850
Histidine kinase, Classic
Alkalihalophilus pseudofirmus OF4 · GCF_000005825
ClassHKTypeClassicLength593 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000005825#BPOF4_RS14850Stable P2CS identifier used across views.
GenomeGCF_000005825Bacteria; Bacillati; Bacillota; Bacilli; Bacillales; Bacillaceae; Alkalihalophilus
Domain signature
Compact overview inferred from the domain field
sCache_likeHAMPPASHisKAHATPase_c
Protein length593 aaLength used to scale native and Biotite-like views.
Annotated domains55 with usable coordinates.
Domain coverage470 / 593 aa (79.3%)Merged over positioned domains only.
Domain description1 sCache_like,1 HAMP,1 PAS,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 aa593 aa
Domain-by-domain annotation5 items
2 HAMP#2
167-236 aa · 70 aa · 11.8% of protein
Raw token
HAMP:167:0.0000000000328:236:70:693 PAS#3
246-353 aa · 108 aa · 18.2% of protein
Raw token
PAS:246:0.0000000000554:353:113:1134 HisKA#4
363-428 aa · 66 aa · 11.1% of protein
Raw token
HisKA:363:2.76e-17:428:66:645 HATPase_c#5
474-582 aa · 109 aa · 18.4% of protein
Raw token
HATPase_c:474:2.39e-34:582:109:109- Raw architecture: sCache_like:35:5.05e-25:151:117:114#HAMP:167:0.0000000000328:236:70:69#PAS:246:0.0000000000554:353:113:113#HisKA:363:2.76e-17:428:66:64#HATPase_c:474:2.39e-34:582:109:109
- Domain description: 1 sCache_like,1 HAMP,1 PAS,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 labelpairedGCF_000005825::NC_013791.2::G00037
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span2941058-2943557Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBpOF4_03345RefSeq proteinWP_012960012.1
Context group ID
GCF_000005825::NC_013791.2::G00037Context members
BPOF4_RS14850BPOF4_RS14855
Partner locus tags
BPOF4_RS14850BPOF4_RS14855
Partner old locus tags
BpOF4_03345BpOF4_03350
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_012960012.1Primary protein accession used for annex mappings.
UniProt accessionD3FWY0Primary UniProt accession resolved in the annex database.
UniProt IDD3FWY0_ALKPODisplay identifier provided by UniProt.
GO / PubMed6 / 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_RS14850Primary locus identifier stored in the genes table.
Old locus tagBpOF4_03345Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_013791.2Sequence record reported by the local genomic context database.
Genomic interval2 941 058-2 942 839 nt1 782 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span2 941 058-2 943 557 ntGCF_000005825::NC_013791.2::G00037
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000005825::NC_013791.2::G00037Graphic 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 941 058-2 943 557 nt2 500 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
2 941 058 nt2 943 557 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
BPOF4_RS14850GCF_000005825#BPOF4_RS14850
HKClassicCurrent focus
2 941 058-2 942 839 nt · Reverse (-)
BPOF4_RS14855GCF_000005825#BPOF4_RS14855
RROmpR
2 942 832-2 943 557 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000005825#BPOF4_RS14850The current gene is the representative for this cluster.
PFAM architecturesCache_like + HAMP + PAS + HisKA + HATPase_c5 domains in the representative PFAM annotation.
PFAM architecture for HKOC_1092771
Simplified PFAM architecture for HKOC_1092771
PFAM domain coverage: 454 / 593 aa (76.6%)
1 aa593 aa
sCache_likeHAMPPASHisKAHATPase_c
- Simplified architecture: sCache_like + HAMP + PAS + HisKA + HATPase_c
- Raw architecture: sCache_like[33-151] | HAMP[185-235] | PAS[246-353] | HisKA[363-428] | HATPase_c[474-583]
- Domain count: 5
- Matched identifier: HKOC_1092771
- Positioned domains: sCache_like 33-151 ; HAMP 185-235 ; PAS 246-353 ; HisKA 363-428 ; HATPase_c 474-583
Cluster members and taxonomy
Representative gene: GCF_000005825#BPOF4_RS14850
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