1 PAS#1
156-266 aa · 111 aa · 14.3% of protein
Raw token
PAS:156:1.74e-19:266:112:113P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
SF3250
Histidine kinase, Unorthodox
Shigella flexneri 2a str. 301 · GCF_000006925
ClassHKTypeUnorthodoxLength778 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_000006925#SF3250Stable P2CS identifier used across views.
GenomeGCF_000006925Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Shigella
Domain signature
Compact overview inferred from the domain field
PASHisKAHATPase_cResponse_regHpt
Protein length778 aaLength used to scale native and Biotite-like views.
Annotated domains55 with usable coordinates.
Domain coverage474 / 778 aa (60.9%)Merged over positioned domains only.
Domain description1 PAS,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 aa778 aa
Domain-by-domain annotation5 items
2 HisKA#2
283-345 aa · 63 aa · 8.1% of protein
Raw token
HisKA:283:0.00000000000000103:345:63:643 HATPase_c#3
394-506 aa · 113 aa · 14.5% of protein
Raw token
HATPase_c:394:7.51e-37:506:113:1094 Response_reg#4
528-640 aa · 113 aa · 14.5% of protein
Raw token
Response_reg:528:2.23e-28:640:114:1115 Hpt#5
686-759 aa · 74 aa · 9.5% of protein
Raw token
Hpt:686:0.00000000000817:759:78:84- Raw architecture: PAS:156:1.74e-19:266:112:113#HisKA:283:0.00000000000000103:345:63:64#HATPase_c:394:7.51e-37:506:113:109#Response_reg:528:2.23e-28:640:114:111#Hpt:686:0.00000000000817:759:78:84
- Domain description: 1 PAS,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::G00026
Group size11 locus tag listed below.
HK / RR1 / 0Counts resolved for the local TCS neighborhood.
Context span3342855-3345191Genomic interval covered by the local TCS group.
Identifiers
Context group ID
GCF_000006925::NC_004337.2::G00026Context members
SF3250
Partner locus tags
SF3250
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 NP_709008.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagSF3250Primary 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 interval3 342 855-3 345 191 nt2 337 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span3 342 855-3 345 191 ntGCF_000006925::NC_004337.2::G00026
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000006925::NC_004337.2::G00026Graphic 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 span3 342 855-3 345 191 nt2 337 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
3 342 855 nt3 345 191 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
SF3250GCF_000006925#SF3250
HKUnorthodoxCurrent focus
3 342 855-3 345 191 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_022494435#HZT08_RS02540Use this link to inspect the representative gene detail.
PFAM architectureHKR_ArcB_TM + PAS + HisKA + HATPase_c + Response_reg + Hpt6 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0597533
Simplified PFAM architecture for HKOC_0597533
PFAM domain coverage: 547 / 779 aa (70.2%)
1 aa779 aa
HKR_ArcB_TMPASHisKAHATPase_cResponse_regHpt
- Simplified architecture: HKR_ArcB_TM + PAS + HisKA + HATPase_c + Response_reg + Hpt
- Raw architecture: HKR_ArcB_TM[15-88] | PAS[156-266] | HisKA[283-345] | HATPase_c[395-505] | Response_reg[528-640] | Hpt[686-760]
- Domain count: 6
- Matched identifier: HKOC_0597533
- Positioned domains: HKR_ArcB_TM 15-88 ; PAS 156-266 ; HisKA 283-345 ; HATPase_c 395-505 ; Response_reg 528-640 ; Hpt 686-760
Cluster members and taxonomy
Representative gene: GCF_022494435#HZT08_RS02540
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