1 HAMP#1
184-253 aa · 70 aa · 11.5% of protein
Raw token
HAMP:184:0.00000000000000259:253:70:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BPOF4_RS19055
Histidine kinase, Classic
Alkalihalophilus pseudofirmus OF4 · GCF_000005825
ClassHKTypeClassicLength607 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000005825#BPOF4_RS19055Stable P2CS identifier used across views.
GenomeGCF_000005825Bacteria; Bacillati; Bacillota; Bacilli; Bacillales; Bacillaceae; Alkalihalophilus
Domain signature
Compact overview inferred from the domain field
HAMPPAS_9HisKAHATPase_c
Protein length607 aaLength used to scale native and Biotite-like views.
Annotated domains44 with usable coordinates.
Domain coverage342 / 607 aa (56.3%)Merged over positioned domains only.
Domain description1 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 aa607 aa
Domain-by-domain annotation4 items
2 PAS_9#2
273-369 aa · 97 aa · 16.0% of protein
Raw token
PAS_9:273:0.000000000147:369:102:1023 HisKA#3
377-442 aa · 66 aa · 10.9% of protein
Raw token
HisKA:377:2.58e-19:442:66:644 HATPase_c#4
490-598 aa · 109 aa · 18.0% of protein
Raw token
HATPase_c:490:1.76e-33:598:109:109- Raw architecture: HAMP:184:0.00000000000000259:253:70:69#PAS_9:273:0.000000000147:369:102:102#HisKA:377:2.58e-19:442:66:64#HATPase_c:490:1.76e-33:598:109:109
- Domain description: 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 labelpairedGCF_000005825::NC_013791.2::G00044
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span3831882-3834415Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBpOF4_07825RefSeq proteinWP_012960894.1
Context group ID
GCF_000005825::NC_013791.2::G00044Context members
BPOF4_RS19055BPOF4_RS19060
Partner locus tags
BPOF4_RS19055BPOF4_RS19060
Partner old locus tags
BpOF4_07825BpOF4_07830
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_012960894.1Primary protein accession used for annex mappings.
UniProt accessionD3FQF1Primary UniProt accession resolved in the annex database.
UniProt IDD3FQF1_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_RS19055Primary locus identifier stored in the genes table.
Old locus tagBpOF4_07825Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_013791.2Sequence record reported by the local genomic context database.
Genomic interval3 831 882-3 833 705 nt1 824 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span3 831 882-3 834 415 ntGCF_000005825::NC_013791.2::G00044
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000005825::NC_013791.2::G00044Graphic 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 span3 831 882-3 834 415 nt2 534 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
3 831 882 nt3 834 415 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
BPOF4_RS19055GCF_000005825#BPOF4_RS19055
HKClassicCurrent focus
3 831 882-3 833 705 nt · Reverse (-)
BPOF4_RS19060GCF_000005825#BPOF4_RS19060
RROmpR
3 833 705-3 834 415 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000005825#BPOF4_RS19055The current gene is the representative for this cluster.
PFAM architectureCache_WalK + HAMP + PAS + HisKA + HATPase_c5 domains in the representative PFAM annotation.
PFAM architecture for HKOC_1018687
Simplified PFAM architecture for HKOC_1018687
PFAM domain coverage: 423 / 607 aa (69.7%)
1 aa607 aa
Cache_WalKHAMPPASHisKAHATPase_c
- Simplified architecture: Cache_WalK + HAMP + PAS + HisKA + HATPase_c
- Raw architecture: Cache_WalK[78-168] | HAMP[201-253] | PAS[265-367] | HisKA[377-442] | HATPase_c[490-599]
- Domain count: 5
- Matched identifier: HKOC_1018687
- Positioned domains: Cache_WalK 78-168 ; HAMP 201-253 ; PAS 265-367 ; HisKA 377-442 ; HATPase_c 490-599
Cluster members and taxonomy
Representative gene: GCF_000005825#BPOF4_RS19055
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