1 HAMP#1
238-312 aa · 75 aa · 9.3% of protein
Raw token
HAMP:238:0.000000169:312:75:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
SF0995
Histidine kinase, Unorthodox
Shigella flexneri 2a str. 301 · GCF_000006925
ClassHKTypeUnorthodoxLength809 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_000006925#SF0995Stable P2CS identifier used across views.
GenomeGCF_000006925Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Shigella
Domain signature
Compact overview inferred from the domain field
HAMPHisKAHATPase_cResponse_regHpt
Protein length809 aaLength used to scale native and Biotite-like views.
Annotated domains55 with usable coordinates.
Domain coverage422 / 809 aa (52.2%)Merged over positioned domains only.
Domain description1 HAMP,1 HisKA,1 HATPase_c,1 Response_reg,1 HptSummary 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 aa809 aa
Domain-by-domain annotation5 items
2 HisKA#2
348-413 aa · 66 aa · 8.2% of protein
Raw token
HisKA:348:0.00000000000000122:413:66:643 HATPase_c#3
462-568 aa · 107 aa · 13.2% of protein
Raw token
HATPase_c:462:7.4e-35:568:108:1094 Response_reg#4
590-695 aa · 106 aa · 13.1% of protein
Raw token
Response_reg:590:0.00000000000000564:695:106:1115 Hpt#5
732-799 aa · 68 aa · 8.4% of protein
Raw token
Hpt:732:0.00000000000797:799:68:84- Raw architecture: HAMP:238:0.000000169:312:75:69#HisKA:348:0.00000000000000122:413:66:64#HATPase_c:462:7.4e-35:568:108:109#Response_reg:590:0.00000000000000564:695:106:111#Hpt:732:0.00000000000797:799:68:84
- Domain description: 1 HAMP,1 HisKA,1 HATPase_c,1 Response_reg,1 Hpt
- 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_000006925::NC_004337.2::G00004
Group size11 locus tag listed below.
HK / RR1 / 0Counts resolved for the local TCS neighborhood.
Context span1041099-1043528Genomic interval covered by the local TCS group.
Identifiers
Context group ID
GCF_000006925::NC_004337.2::G00004Context members
SF0995
Partner locus tags
SF0995
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqNP_706916.1Primary protein accession used for annex mappings.
UniProt accessionQ83MM0Primary UniProt accession resolved in the annex database.
UniProt IDQ83MM0_SHIFLDisplay identifier provided by UniProt.
GO / PubMed2 / 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 tagSF0995Primary locus identifier stored in the genes table.
Old locus tagUnavailableNo previous locus tag available for this gene.
Contig / repliconNC_004337.2Sequence record reported by the local genomic context database.
Genomic interval1 041 099-1 043 528 nt2 430 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span1 041 099-1 043 528 ntGCF_000006925::NC_004337.2::G00004
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000006925::NC_004337.2::G00004Graphic 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_004337.2All displayed genes belong to this local TCS context.
Neighborhood span1 041 099-1 043 528 nt2 430 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
1 041 099 nt1 043 528 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
SF0995GCF_000006925#SF0995
HKUnorthodoxCurrent focus
1 041 099-1 043 528 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
PFAM architectureTorS_sensor_domain + HAMP + HisKA + HATPase_c + Response_reg + Hpt6 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0541854
Simplified PFAM architecture for HKOC_0541854
PFAM domain coverage: 628 / 809 aa (77.6%)
1 aa809 aa
TorS_sensor_domainHAMPHisKAHATPase_cResponse_regHpt
- Simplified architecture: TorS_sensor_domain + HAMP + HisKA + HATPase_c + Response_reg + Hpt
- Raw architecture: TorS_sensor_domain[2-221] | HAMP[257-308] | HisKA[348-413] | HATPase_c[462-568] | Response_reg[590-697] | Hpt[732-806]
- Domain count: 6
- Matched identifier: HKOC_0541854
- Positioned domains: TorS_sensor_domain 2-221 ; HAMP 257-308 ; HisKA 348-413 ; HATPase_c 462-568 ; Response_reg 590-697 ; Hpt 732-806
Cluster members and taxonomy
Representative gene: GCF_000006925#SF0995
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 198 214 · GCF_000006925
AssemblyASM692v2 · Complete Genomereference genome · haploid
Genome composition4 828 820 bp · 50,5% GCShigella flexneri 2a str. 301
Signal transduction countsGenes 54 · HK 25 · RR 29CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomPseudomonadatiPhylumPseudomonadotaClassGammaproteobacteriaOrderEnterobacteralesFamilyEnterobacteriaceaeGenusShigella
Lineage path7 lineage nodes
1Bacteria2Pseudomonadati3Pseudomonadota4Gammaproteobacteria5Enterobacterales6Enterobacteriaceae7Shigella
Related genes
Preview from the same derived genome key