1 sCache_like#1
35-151 aa · 117 aa · 19.9% of protein
Raw token
sCache_like:35:4.64e-25:151:117:114P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
RYX45_RS12005
Histidine kinase, Classic
Alkalihalophilus pseudofirmus · GCF_032843305
ClassHKTypeClassicLength589 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_032843305#RYX45_RS12005Stable P2CS identifier used across views.
GenomeGCF_032843305Bacteria; Bacillati; Bacillota; Bacilli; Bacillales; Bacillaceae; Alkalihalophilus
Domain signature
Compact overview inferred from the domain field
sCache_likeHAMPPASHisKAHATPase_c
Protein length589 aaLength used to scale native and Biotite-like views.
Annotated domains55 with usable coordinates.
Domain coverage470 / 589 aa (79.8%)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 aa589 aa
Domain-by-domain annotation5 items
2 HAMP#2
167-236 aa · 70 aa · 11.9% of protein
Raw token
HAMP:167:0.00000000013:236:70:693 PAS#3
246-353 aa · 108 aa · 18.3% of protein
Raw token
PAS:246:0.0000000000312:353:113:1134 HisKA#4
363-428 aa · 66 aa · 11.2% of protein
Raw token
HisKA:363:1.89e-17:428:66:645 HATPase_c#5
474-582 aa · 109 aa · 18.5% of protein
Raw token
HATPase_c:474:4.16e-34:582:109:109- Raw architecture: sCache_like:35:4.64e-25:151:117:114#HAMP:167:0.00000000013:236:70:69#PAS:246:0.0000000000312:353:113:113#HisKA:363:1.89e-17:428:66:64#HATPase_c:474:4.16e-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_032843305::NZ_JAWJAY010000002.1::G00028
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span331014-333501Genomic interval covered by the local TCS group.
Identifiers
Old locus tagRYX45_12005RefSeq proteinWP_323466862.1
Context group ID
GCF_032843305::NZ_JAWJAY010000002.1::G00028Context members
RYX45_RS12005RYX45_RS12010
Partner locus tags
RYX45_RS12005RYX45_RS12010
Partner old locus tags
RYX45_12005RYX45_12010
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_323466862.1Primary protein accession used for annex mappings.
UniProt accessionA0AAJ2NP59Primary UniProt accession resolved in the annex database.
UniProt IDA0AAJ2NP59_ALKPSDisplay identifier provided by UniProt.
GO / PubMed6 / 0Unique GO terms and literature references available below.
Reference hubs
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagRYX45_RS12005Primary locus identifier stored in the genes table.
Old locus tagRYX45_12005Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAWJAY010000002.1Sequence record reported by the local genomic context database.
Genomic interval331 014-332 783 nt1 770 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span331 014-333 501 ntGCF_032843305::NZ_JAWJAY010000002.1::G00028
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_032843305::NZ_JAWJAY010000002.1::G00028Graphic 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 / repliconNZ_JAWJAY010000002.1All displayed genes belong to this local TCS context.
Neighborhood span331 014-333 501 nt2 488 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
331 014 nt333 501 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
RYX45_RS12005GCF_032843305#RYX45_RS12005
HKClassicCurrent focus
331 014-332 783 nt · Reverse (-)
RYX45_RS12010GCF_032843305#RYX45_RS12010
RROmpR
332 776-333 501 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_032843305#RYX45_RS12005The 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_1118393
Simplified PFAM architecture for HKOC_1118393
PFAM domain coverage: 454 / 589 aa (77.1%)
1 aa589 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_1118393
- 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_032843305#RYX45_RS12005
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 79 885 · GCF_032843305
AssemblyASM3284330v1 · Contighaploid
Genome composition4 368 590 bp · 40,0% GCAlkalihalophilus pseudofirmus
Signal transduction countsGenes 76 · HK 39 · RR 36CheA 1 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassBacilliOrderBacillalesFamilyBacillaceaeGenusAlkalihalophilus
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Bacilli5Bacillales6Bacillaceae7Alkalihalophilus
Related genes
Preview from the same derived genome key