1 HAMP#1
182-247 aa · 66 aa · 7.2% of protein
Raw token
HAMP:182:0.00000000000129:247:66:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
SFV_RS14845
Histidine kinase, Unorthodox
Shigella flexneri 5 str. 8401 · GCF_000013585
ClassHKTypeUnorthodoxLength918 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_000013585#SFV_RS14845Stable P2CS identifier used across views.
GenomeGCF_000013585Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Shigella
Domain signature
Compact overview inferred from the domain field
HAMPHisKAHATPase_cResponse_regHpt
Protein length918 aaLength used to scale native and Biotite-like views.
Annotated domains55 with usable coordinates.
Domain coverage438 / 918 aa (47.7%)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 aa918 aa
Domain-by-domain annotation5 items
2 HisKA#2
293-357 aa · 65 aa · 7.1% of protein
Raw token
HisKA:293:1.14e-19:357:65:643 HATPase_c#3
404-519 aa · 116 aa · 12.6% of protein
Raw token
HATPase_c:404:7.99e-34:519:116:1094 Response_reg#4
670-781 aa · 112 aa · 12.2% of protein
Raw token
Response_reg:670:3.45e-36:781:112:1115 Hpt#5
828-906 aa · 79 aa · 8.6% of protein
Raw token
Hpt:828:0.00000000000000955:906:79:84- Raw architecture: HAMP:182:0.00000000000129:247:66:69#HisKA:293:1.14e-19:357:65:64#HATPase_c:404:7.99e-34:519:116:109#Response_reg:670:3.45e-36:781:112:111#Hpt:828:0.00000000000000955:906:79:84
- 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_000013585::NC_008258.1::G00025
Group size11 locus tag listed below.
HK / RR1 / 0Counts resolved for the local TCS neighborhood.
Context span2743107-2745863Genomic interval covered by the local TCS group.
Identifiers
Old locus tagSFV_2671RefSeq proteinWP_000186424.1
Context group ID
GCF_000013585::NC_008258.1::G00025Context members
SFV_RS14845
Partner locus tags
SFV_RS14845
Partner old locus tags
SFV_2671
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_000186424.1Primary protein accession used for annex mappings.
UniProt accessionQ0T1Q2Primary UniProt accession resolved in the annex database.
UniProt IDQ0T1Q2_SHIF8Display identifier provided by UniProt.
GO / PubMed3 / 1Unique GO terms and literature references available below.
Reference hubs
GO terms
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagSFV_RS14845Primary locus identifier stored in the genes table.
Old locus tagSFV_2671Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_008258.1Sequence record reported by the local genomic context database.
Genomic interval2 743 107-2 745 863 nt2 757 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span2 743 107-2 745 863 ntGCF_000013585::NC_008258.1::G00025
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000013585::NC_008258.1::G00025Graphic 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_008258.1All displayed genes belong to this local TCS context.
Neighborhood span2 743 107-2 745 863 nt2 757 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
2 743 107 nt2 745 863 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
SFV_RS14845GCF_000013585#SFV_RS14845
HKUnorthodoxCurrent focus
2 743 107-2 745 863 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000013585#SFV_RS14845The current gene is the representative for this cluster.
PFAM architecturesCache_4 + HAMP + HisKA + HATPase_c + Response_reg + Hpt6 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0372547
Simplified PFAM architecture for HKOC_0372547
PFAM domain coverage: 572 / 918 aa (62.3%)
1 aa918 aa
sCache_4HAMPHisKAHATPase_cResponse_regHpt
- Simplified architecture: sCache_4 + HAMP + HisKA + HATPase_c + Response_reg + Hpt
- Raw architecture: sCache_4[31-177] | HAMP[198-248] | HisKA[293-357] | HATPase_c[404-518] | Response_reg[670-780] | Hpt[828-910]
- Domain count: 6
- Matched identifier: HKOC_0372547
- Positioned domains: sCache_4 31-177 ; HAMP 198-248 ; HisKA 293-357 ; HATPase_c 404-518 ; Response_reg 670-780 ; Hpt 828-910
Cluster members and taxonomy
Representative gene: GCF_000013585#SFV_RS14845
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 373 384 · GCF_000013585
AssemblyASM1358v1 · Complete Genomehaploid
Genome composition4 574 284 bp · 51,0% GCShigella flexneri 5 str. 8401
Signal transduction countsGenes 55 · HK 25 · RR 30CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomPseudomonadatiPhylumPseudomonadotaClassGammaproteobacteriaOrderEnterobacteralesFamilyEnterobacteriaceaeGenusShigella
Lineage path7 lineage nodes
1Bacteria2Pseudomonadati3Pseudomonadota4Gammaproteobacteria5Enterobacterales6Enterobacteriaceae7Shigella
Related genes
Preview from the same derived genome key