1 HAMP#1
333-407 aa · 75 aa · 8.2% of protein
Raw token
HAMP:333:0.0000000291:407:75:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
SSON_RS05415
Histidine kinase, Unorthodox
Shigella sonnei Ss046 · GCF_000092525
ClassHKTypeUnorthodoxLength914 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_000092525#SSON_RS05415Stable P2CS identifier used across views.
GenomeGCF_000092525Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Shigella
Domain signature
Compact overview inferred from the domain field
HAMPHisKAHATPase_cResponse_regHpt
Protein length914 aaLength used to scale native and Biotite-like views.
Annotated domains55 with usable coordinates.
Domain coverage433 / 914 aa (47.4%)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 aa914 aa
Domain-by-domain annotation5 items
2 HisKA#2
443-508 aa · 66 aa · 7.2% of protein
Raw token
HisKA:443:3.74e-16:508:66:643 HATPase_c#3
557-663 aa · 107 aa · 11.7% of protein
Raw token
HATPase_c:557:1.78e-34:663:108:1094 Response_reg#4
685-790 aa · 106 aa · 11.6% of protein
Raw token
Response_reg:685:0.00000000000000177:790:106:1115 Hpt#5
827-905 aa · 79 aa · 8.6% of protein
Raw token
Hpt:827:0.0000000000756:905:84:84- Raw architecture: HAMP:333:0.0000000291:407:75:69#HisKA:443:3.74e-16:508:66:64#HATPase_c:557:1.78e-34:663:108:109#Response_reg:685:0.00000000000000177:790:106:111#Hpt:827:0.0000000000756:905:84:84
- 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_000092525::NC_007384.1::G00005
Group size11 locus tag listed below.
HK / RR1 / 0Counts resolved for the local TCS neighborhood.
Context span1073082-1075826Genomic interval covered by the local TCS group.
Identifiers
Old locus tagSSO_1001%2CSSON_1001RefSeq proteinWP_011310173.1
Context group ID
GCF_000092525::NC_007384.1::G00005Context members
SSON_RS05415
Partner locus tags
SSON_RS05415
Partner old locus tags
SSO_1001%2CSSON_1001
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_011310173.1Primary protein accession used for annex mappings.
UniProt accessionA0A8H8Z7H4Primary UniProt accession resolved in the annex database.
UniProt IDA0A8H8Z7H4_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 tagSSON_RS05415Primary locus identifier stored in the genes table.
Old locus tagSSO_1001%2CSSON_1001Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_007384.1Sequence record reported by the local genomic context database.
Genomic interval1 073 082-1 075 826 nt2 745 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span1 073 082-1 075 826 ntGCF_000092525::NC_007384.1::G00005
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000092525::NC_007384.1::G00005Graphic 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_007384.1All displayed genes belong to this local TCS context.
Neighborhood span1 073 082-1 075 826 nt2 745 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
1 073 082 nt1 075 826 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
SSON_RS05415GCF_000092525#SSON_RS05415
HKUnorthodoxCurrent focus
1 073 082-1 075 826 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000092525#SSON_RS05415The current gene is the representative for this cluster.
PFAM architectureTorS_sensor_domain + HAMP + HisKA + HATPase_c + Response_reg + Hpt6 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0383298
Simplified PFAM architecture for HKOC_0383298
PFAM domain coverage: 682 / 914 aa (74.6%)
1 aa914 aa
TorS_sensor_domainHAMPHisKAHATPase_cResponse_regHpt
- Simplified architecture: TorS_sensor_domain + HAMP + HisKA + HATPase_c + Response_reg + Hpt
- Raw architecture: TorS_sensor_domain[46-316] | HAMP[352-402] | HisKA[443-508] | HATPase_c[557-663] | Response_reg[685-792] | Hpt[827-905]
- Domain count: 6
- Matched identifier: HKOC_0383298
- Positioned domains: TorS_sensor_domain 46-316 ; HAMP 352-402 ; HisKA 443-508 ; HATPase_c 557-663 ; Response_reg 685-792 ; Hpt 827-905
Cluster members and taxonomy
Representative gene: GCF_000092525#SSON_RS05415
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 300 269 · GCF_000092525
AssemblyASM9252v1 · Complete Genomehaploid
Genome composition5 055 316 bp · 51,0% GCShigella sonnei Ss046
Signal transduction countsGenes 60 · HK 29 · RR 31CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomPseudomonadatiPhylumPseudomonadotaClassGammaproteobacteriaOrderEnterobacteralesFamilyEnterobacteriaceaeGenusShigella
Lineage path7 lineage nodes
1Bacteria2Pseudomonadati3Pseudomonadota4Gammaproteobacteria5Enterobacterales6Enterobacteriaceae7Shigella
Related genes
Preview from the same derived genome key