1 PilJ#1
35-128 aa · 94 aa · 15.7% of protein
Raw token
PilJ:35:0.00000000671:128:112:112P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
SF1225
Histidine kinase, Classic
Shigella flexneri 2a str. 301 · GCF_000006925
ClassHKTypeClassicLength598 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000006925#SF1225Stable P2CS identifier used across views.
GenomeGCF_000006925Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Shigella
Domain signature
Compact overview inferred from the domain field
PilJHAMPHisKA_3HATPase_c
Protein length598 aaLength used to scale native and Biotite-like views.
Annotated domains44 with usable coordinates.
Domain coverage314 / 598 aa (52.5%)Merged over positioned domains only.
Domain description1 PilJ,1 HAMP,1 HisKA_3,1 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 aa598 aa
Domain-by-domain annotation4 items
2 HAMP#2
158-225 aa · 68 aa · 11.4% of protein
Raw token
HAMP:158:0.0000000000602:225:69:693 HisKA_3#3
390-453 aa · 64 aa · 10.7% of protein
Raw token
HisKA_3:390:2.26e-17:453:64:684 HATPase_c#4
496-583 aa · 88 aa · 14.7% of protein
Raw token
HATPase_c:496:4.83e-20:583:103:109- Raw architecture: PilJ:35:0.00000000671:128:112:112#HAMP:158:0.0000000000602:225:69:69#HisKA_3:390:2.26e-17:453:64:68#HATPase_c:496:4.83e-20:583:103:109
- Domain description: 1 PilJ,1 HAMP,1 HisKA_3,1 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_000006925::NC_004337.2::G00007
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span1270991-1273430Genomic interval covered by the local TCS group.
Identifiers
Context group ID
GCF_000006925::NC_004337.2::G00007Context members
SF1224SF1225
Partner locus tags
SF1224SF1225
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_707131.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagSF1225Primary 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 271 634-1 273 430 nt1 797 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span1 270 991-1 273 430 ntGCF_000006925::NC_004337.2::G00007
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000006925::NC_004337.2::G00007Graphic 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_004337.2All displayed genes belong to this local TCS context.
Neighborhood span1 270 991-1 273 430 nt2 440 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
1 270 991 nt1 273 430 nt
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000194215#EC970246_RS08200Use this link to inspect the representative gene detail.
PFAM architecturePilJ + HAMP + HisKA_3 + HATPase_c4 domains in the representative PFAM annotation.
PFAM architecture for HKOC_1013071
Simplified PFAM architecture for HKOC_1013071
PFAM domain coverage: 301 / 608 aa (49.5%)
1 aa608 aa
PilJHAMPHisKA_3HATPase_c
- Simplified architecture: PilJ + HAMP + HisKA_3 + HATPase_c
- Raw architecture: PilJ[35-129] | HAMP[173-224] | HisKA_3[390-453] | HATPase_c[496-585]
- Domain count: 4
- Matched identifier: HKOC_1013071
- Positioned domains: PilJ 35-129 ; HAMP 173-224 ; HisKA_3 390-453 ; HATPase_c 496-585
Cluster members and taxonomy
Representative gene: GCF_000194215#EC970246_RS08200
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