1 PAS_9#1
137-241 aa · 105 aa · 14.5% of protein
Raw token
PAS_9:137:0.00000000000000427:241:105:102P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
PQ478_RS01235
Histidine kinase, Classic
Alkalihalophilus pseudofirmus · GCF_029094545
ClassHKTypeClassicLength722 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_029094545#PQ478_RS01235Stable P2CS identifier used across views.
GenomeGCF_029094545Bacteria; Bacillati; Bacillota; Bacilli; Bacillales; Bacillaceae; Alkalihalophilus
Domain signature
Compact overview inferred from the domain field
PAS_9PAS_3HisKAHATPase_c
Protein length722 aaLength used to scale native and Biotite-like views.
Annotated domains55 with usable coordinates.
Domain coverage458 / 722 aa (63.4%)Merged over positioned domains only.
Domain description2 PAS_9,1 PAS_3,1 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 PAS_9#2
264-365 aa · 102 aa · 14.1% of protein
Raw token
PAS_9:264:0.00000033:365:107:1023 PAS_3#3
402-482 aa · 81 aa · 11.2% of protein
Raw token
PAS_3:402:1.05e-17:482:84:894 HisKA#4
507-569 aa · 63 aa · 8.7% of protein
Raw token
HisKA:507:0.00000000000000249:569:63:645 HATPase_c#5
613-719 aa · 107 aa · 14.8% of protein
Raw token
HATPase_c:613:1.3e-26:719:110:109- Raw architecture: PAS_9:137:0.00000000000000427:241:105:102#PAS_9:264:0.00000033:365:107:102#PAS_3:402:1.05e-17:482:84:89#HisKA:507:0.00000000000000249:569:63:64#HATPase_c:613:1.3e-26:719:110:109
- Domain description: 2 PAS_9,1 PAS_3,1 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_029094545::NZ_CP117835.1::G00001
Group size11 locus tag listed below.
HK / RR1 / 0Counts resolved for the local TCS neighborhood.
Context span228589-230757Genomic interval covered by the local TCS group.
Identifiers
Old locus tagPQ478_01235RefSeq proteinWP_289236921.1
Context group ID
GCF_029094545::NZ_CP117835.1::G00001Context members
PQ478_RS01235
Partner locus tags
PQ478_RS01235
Partner old locus tags
PQ478_01235
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
No UniProt / GO / PubMed mapping was found for WP_289236921.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagPQ478_RS01235Primary locus identifier stored in the genes table.
Old locus tagPQ478_01235Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_CP117835.1Sequence record reported by the local genomic context database.
Genomic interval228 589-230 757 nt2 169 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span228 589-230 757 ntGCF_029094545::NZ_CP117835.1::G00001
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_029094545::NZ_CP117835.1::G00001Graphic 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 / repliconNZ_CP117835.1All displayed genes belong to this local TCS context.
Neighborhood span228 589-230 757 nt2 169 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
228 589 nt230 757 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
PQ478_RS01235GCF_029094545#PQ478_RS01235
HKClassicCurrent focus
228 589-230 757 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_029094545#PQ478_RS01235The current gene is the representative for this cluster.
PFAM architecturePAS + PAS_9 + PAS_3 + HisKA + HATPase_c5 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0729818
Simplified PFAM architecture for HKOC_0729818
PFAM domain coverage: 450 / 722 aa (62.3%)
1 aa722 aa
PASPAS_9PAS_3HisKAHATPase_c
- Simplified architecture: PAS + PAS_9 + PAS_3 + HisKA + HATPase_c
- Raw architecture: PAS[132-239] | PAS_9[267-365] | PAS_3[402-475] | HisKA[507-568] | HATPase_c[614-720]
- Domain count: 5
- Matched identifier: HKOC_0729818
- Positioned domains: PAS 132-239 ; PAS_9 267-365 ; PAS_3 402-475 ; HisKA 507-568 ; HATPase_c 614-720
Cluster members and taxonomy
Representative gene: GCF_029094545#PQ478_RS01235
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 79 885 · GCF_029094545
AssemblyASM2909454v1 · Complete Genomereference genome · haploid
Genome composition4 239 319 bp · 40,0% GCAlkalihalophilus pseudofirmus
Signal transduction countsGenes 64 · HK 33 · RR 31CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassBacilliOrderBacillalesFamilyBacillaceaeGenusAlkalihalophilus
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Bacilli5Bacillales6Bacillaceae7Alkalihalophilus
Related genes
Preview from the same derived genome key