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
S_RS19580
Histidine kinase, Classic
Shigella flexneri 2a str. 2457T · GCF_000007405
ClassHKTypeClassicLength457 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000007405#S_RS19580Stable P2CS identifier used across views.
GenomeGCF_000007405Bacteria; 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_000007405::NC_004741.1::G00028
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span3652565-3654633Genomic interval covered by the local TCS group.
Identifiers
Old locus tagS3758%2CS_3758RefSeq proteinWP_000580436.1
Context group ID
GCF_000007405::NC_004741.1::G00028Context members
S_RS19575S_RS19580
Partner locus tags
S_RS19575S_RS19580
Partner old locus tags
S3757%2CS_3757S3758%2CS_3758
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_000580436.1Primary protein accession used for annex mappings.
UniProt accessionA0AB36PK17Primary UniProt accession resolved in the annex database.
UniProt IDA0AB36PK17_SHIFLDisplay identifier provided by UniProt.
GO / PubMed3 / 0Unique GO terms and literature references available below.
Reference hubs
GO terms
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagS_RS19580Primary locus identifier stored in the genes table.
Old locus tagS3758%2CS_3758Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_004741.1Sequence record reported by the local genomic context database.
Genomic interval3 653 260-3 654 633 nt1 374 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span3 652 565-3 654 633 ntGCF_000007405::NC_004741.1::G00028
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000007405::NC_004741.1::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 / repliconNC_004741.1All displayed genes belong to this local TCS context.
Neighborhood span3 652 565-3 654 633 nt2 069 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
3 652 565 nt3 654 633 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 198 215 · GCF_000007405
AssemblyASM740v1 · Complete Genomehaploid
Genome composition4 599 354 bp · 51,0% GCShigella flexneri 2a str. 2457T
Signal transduction countsGenes 52 · HK 24 · RR 28CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomPseudomonadatiPhylumPseudomonadotaClassGammaproteobacteriaOrderEnterobacteralesFamilyEnterobacteriaceaeGenusShigella
Lineage path7 lineage nodes
1Bacteria2Pseudomonadati3Pseudomonadota4Gammaproteobacteria5Enterobacterales6Enterobacteriaceae7Shigella
Related genes
Preview from the same derived genome key