1 PBPb#1
73-276 aa · 204 aa · 17.0% of protein
Raw token
PBPb:73:0.00000000000000195:276:209:219P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
S_RS13515
Histidine kinase, Unorthodox
Shigella flexneri 2a str. 2457T · GCF_000007405
ClassHKTypeUnorthodoxLength1197 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000007405#S_RS13515Stable P2CS identifier used across views.
GenomeGCF_000007405Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Shigella
Domain signature
Compact overview inferred from the domain field
PBPbHisKAHATPase_cResponse_regHpt
Protein length1197 aaLength used to scale native and Biotite-like views.
Annotated domains66 with usable coordinates.
Domain coverage797 / 1197 aa (66.6%)Merged over positioned domains only.
Domain description2 PBPb,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 aa1197 aa
Domain-by-domain annotation6 items
2 PBPb#2
303-519 aa · 217 aa · 18.1% of protein
Raw token
PBPb:303:7.77e-39:519:224:2193 HisKA#3
711-777 aa · 67 aa · 5.6% of protein
Raw token
HisKA:711:1.92e-16:777:67:644 HATPase_c#4
825-938 aa · 114 aa · 9.5% of protein
Raw token
HATPase_c:825:1.06e-31:938:114:1095 Response_reg#5
961-1070 aa · 110 aa · 9.2% of protein
Raw token
Response_reg:961:1.23e-39:1070:110:1116 Hpt#6
1104-1188 aa · 85 aa · 7.1% of protein
Raw token
Hpt:1104:0.000000404:1188:85:84- Raw architecture: PBPb:73:0.00000000000000195:276:209:219#PBPb:303:7.77e-39:519:224:219#HisKA:711:1.92e-16:777:67:64#HATPase_c:825:1.06e-31:938:114:109#Response_reg:961:1.23e-39:1070:110:111#Hpt:1104:0.000000404:1188:85:84
- Domain description: 2 PBPb,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 labelpairedGCF_000007405::NC_004741.1::G00018
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span2464957-2469169Genomic interval covered by the local TCS group.
Identifiers
Old locus tagS2574%2CS_2574RefSeq proteinWP_011110608.1
Context group ID
GCF_000007405::NC_004741.1::G00018Context members
S_RS13510S_RS13515
Partner locus tags
S_RS13510S_RS13515
Partner old locus tags
S2573%2CS_2573S2574%2CS_2574
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_011110608.1Primary protein accession used for annex mappings.
UniProt accessionA0A0H2VW50Primary UniProt accession resolved in the annex database.
UniProt IDA0A0H2VW50_SHIFLDisplay identifier provided by UniProt.
GO / PubMed4 / 1Unique GO terms and literature references available below.
Reference hubs
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagS_RS13515Primary locus identifier stored in the genes table.
Old locus tagS2574%2CS_2574Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_004741.1Sequence record reported by the local genomic context database.
Genomic interval2 465 576-2 469 169 nt3 594 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span2 464 957-2 469 169 ntGCF_000007405::NC_004741.1::G00018
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000007405::NC_004741.1::G00018Graphic 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 span2 464 957-2 469 169 nt4 213 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
2 464 957 nt2 469 169 nt
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000007405#S_RS13515The current gene is the representative for this cluster.
PFAM architectureSBP_bac_3 + SBP_bac_3 + HisKA + HATPase_c + Response_reg5 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0161005
Simplified PFAM architecture for HKOC_0161005
PFAM domain coverage: 720 / 1197 aa (60.2%)
1 aa1197 aa
SBP_bac_3SBP_bac_3HisKAHATPase_cResponse_reg
- Simplified architecture: SBP_bac_3 + SBP_bac_3 + HisKA + HATPase_c + Response_reg
- Raw architecture: SBP_bac_3[62-276] | SBP_bac_3[306-520] | HisKA[711-777] | HATPase_c[825-937] | Response_reg[961-1070]
- Domain count: 5
- Matched identifier: HKOC_0161005
- Positioned domains: SBP_bac_3 62-276 ; SBP_bac_3 306-520 ; HisKA 711-777 ; HATPase_c 825-937 ; Response_reg 961-1070
Cluster members and taxonomy
Representative gene: GCF_000007405#S_RS13515
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