1 HAMP#1
165-234 aa · 70 aa · 15.3% of protein
Raw token
HAMP:165:0.000000000000953:234:70:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
SF3990
Histidine kinase, Classic
Shigella flexneri 2a str. 301 · GCF_000006925
ClassHKTypeClassicLength457 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000006925#SF3990Stable P2CS identifier used across views.
GenomeGCF_000006925Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Shigella
Domain signature
Compact overview inferred from the domain field
HAMPHisKAHATPase_c
Protein length457 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage241 / 457 aa (52.7%)Merged over positioned domains only.
Domain description1 HAMP,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 aa457 aa
Domain-by-domain annotation3 items
2 HisKA#2
238-299 aa · 62 aa · 13.6% of protein
Raw token
HisKA:238:8.13e-17:299:63:643 HATPase_c#3
345-453 aa · 109 aa · 23.9% of protein
Raw token
HATPase_c:345:7.06e-30:453:110:109- Raw architecture: HAMP:165:0.000000000000953:234:70:69#HisKA:238:8.13e-17:299:63:64#HATPase_c:345:7.06e-30:453:110:109
- Domain description: 1 HAMP,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_000006925::NC_004337.2::G00030
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span4118585-4120653Genomic interval covered by the local TCS group.
Identifiers
Context group ID
GCF_000006925::NC_004337.2::G00030Context members
SF3990SF3991
Partner locus tags
SF3990SF3991
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_709717.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagSF3990Primary 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 interval4 118 585-4 119 958 nt1 374 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span4 118 585-4 120 653 ntGCF_000006925::NC_004337.2::G00030
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000006925::NC_004337.2::G00030Graphic 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 span4 118 585-4 120 653 nt2 069 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
4 118 585 nt4 120 653 nt
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
PFAM architectureCpxA_peri + HAMP + HisKA + HATPase_c4 domains in the representative PFAM annotation.
PFAM architecture for HKOC_1873336
Simplified PFAM architecture for HKOC_1873336
PFAM domain coverage: 293 / 457 aa (64.1%)
1 aa457 aa
CpxA_periHAMPHisKAHATPase_c
- Simplified architecture: CpxA_peri + HAMP + HisKA + HATPase_c
- Raw architecture: CpxA_peri[82-150] | HAMP[181-233] | HisKA[239-299] | HATPase_c[345-454]
- Domain count: 4
- Matched identifier: HKOC_1873336
- Positioned domains: CpxA_peri 82-150 ; HAMP 181-233 ; HisKA 239-299 ; HATPase_c 345-454
Cluster members and taxonomy
Representative gene: GCF_000006925#SF3990
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