Gene detail

HMPREF9547_RS12020

Histidine kinase, Unorthodox

Escherichia coli MS 175-1 · GCF_000164515

Open genome Open selected cluster RefSeq UniProt

ClassHKTypeUnorthodoxLength1197 aaTM0ValidatedNoCompleteYesContextpaired

Gene IDGCF_000164515#HMPREF9547_RS12020Stable P2CS identifier used across views.

GenomeGCF_000164515Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia

Selected clusterHKOC_0067980Run 6 · 1456 sequences · id 100% · cov 80%

External referencesWP_001307321.1 · A0A0E0XZS1 · MIST4 HMPREF9547_RS12020RefSeq · UniProt · MIST4

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 coverage796 / 1197 aa (66.5%)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

Domain view

Native Biotite-like

Native P2CS viewFrontend rendering from the parsed domain string and TMPRED protein features.

1 aa1197 aa

Domain-by-domain annotation6 items

1 PBPb#1

73-276 aa · 204 aa · 17.0% of protein

Raw tokenPBPb:73:5.11e-16:276:209:219

2 PBPb#2

304-519 aa · 216 aa · 18.0% of protein

Raw tokenPBPb:304:1.72e-39:519:223:219

3 HisKA#3

711-777 aa · 67 aa · 5.6% of protein

Raw tokenHisKA:711:1.92e-16:777:67:64

4 HATPase_c#4

825-938 aa · 114 aa · 9.5% of protein

Raw tokenHATPase_c:825:1.58e-32:938:114:109

5 Response_reg#5

961-1070 aa · 110 aa · 9.2% of protein

Raw tokenResponse_reg:961:1.43e-39:1070:110:111

6 Hpt#6

1104-1188 aa · 85 aa · 7.1% of protein

Raw tokenHpt:1104:0.0000000895:1188:85:84

Raw architecture: PBPb:73:5.11e-16:276:209:219#PBPb:304:1.72e-39:519:223:219#HisKA:711:1.92e-16:777:67:64#HATPase_c:825:1.58e-32:938:114:109#Response_reg:961:1.43e-39:1070:110:111#Hpt:1104:0.0000000895:1188:85:84
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_000164515::NZ_GG773677.1::G00023

Group size22 locus tags listed below.

HK / RR1 / 1Counts resolved for the local TCS neighborhood.

Context span26543-30755Genomic interval covered by the local TCS group.

Identifiers

Old locus tagHMPREF9547_02189RefSeq proteinWP_001307321.1

Context group IDGCF_000164515::NZ_GG773677.1::G00023

Context members

HMPREF9547_RS12020HMPREF9547_RS12015

Partner locus tags

HMPREF9547_RS12020HMPREF9547_RS12015

Partner old locus tags

HMPREF9547_02189HMPREF9547_02190

Partner protein IDs

WP_001307321.1 WP_000991370.1

External references

Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table

RefSeqWP_001307321.1Primary protein accession used for annex mappings.

UniProt accessionA0A0E0XZS1Primary UniProt accession resolved in the annex database.

UniProt IDA0A0E0XZS1_ECO1CDisplay identifier provided by UniProt.

GO / PubMed4 / 1Unique GO terms and literature references available below.

Reference hubs

Open RefSeq Open UniProt accession

GO terms

GO:0005886 GO:0005524 GO:0009927 GO:0000155

PubMed

23133618

Genomic coordinates

Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table

Current locus tagHMPREF9547_RS12020Primary locus identifier stored in the genes table.

Old locus tagHMPREF9547_02189Legacy locus tag recovered from the local context mapping.

Contig / repliconNZ_GG773677.1Sequence record reported by the local genomic context database.

Genomic interval26 543-30 136 nt3 594 nt · Reverse (-)

StrandReverse (-)Strand sign follows the local context database convention.

Local TCS group span26 543-30 755 ntGCF_000164515::NZ_GG773677.1::G00023

Quick actions

Open genome Search genes in genome

Local neighborhood

Graphical neighborhood resolved from the local TCS context group on the current contig

GCF_000164515::NZ_GG773677.1::G00023

Graphic view

Compact Biotite-like

Zoom

Full window Focus gene

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 / repliconNZ_GG773677.1All displayed genes belong to this local TCS context.

Neighborhood span26 543-30 755 nt4 213 nt

Members21 current focus gene

Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.

26 543 nt30 755 nt

+-HMPREF9547_RS12020 HMPREF9547_RS12015

Neighborhood gene cards

2 genes in the current local neighborhood.

HMPREF9547_RS12020GCF_000164515#HMPREF9547_RS12020

HKUnorthodoxCurrent focus

26 543-30 136 nt · Reverse (-)

Old locus HMPREF9547_02189RefSeq WP_001307321.1

Open current gene

HMPREF9547_RS12015GCF_000164515#HMPREF9547_RS12015

RRunclassified

30 141-30 755 nt · Reverse (-)

Old locus HMPREF9547_02190RefSeq WP_000991370.1

Open gene

Clusters

CD-HIT memberships and selected cluster details for the current gene class

Available memberships1 cluster

HKOC_0067980HK

Run 61456 sequencesid 100%cov 80%

PFAM Response_reg + GerE + SBP_bac_3 + SBP_bac_3 + HisKA + HATPase_c + Response_reg + Hpt

Representative GCF_031628475#RJP78_RS01035

Selected clusterHKOC_0067980Run 6 · HK · 1456 sequences

Representative sequenceGCF_031628475#RJP78_RS01035Use this link to inspect the representative gene detail.

PFAM architectureResponse_reg + GerE + SBP_bac_3 + SBP_bac_3 + HisKA + HATPase_c + Response_reg + Hpt8 domains in the representative PFAM annotation.

Open in cluster search Open representative gene

PFAM architecture for HKOC_0067980

Simplified PFAM architecture for HKOC_0067980

PFAM domain coverage: 971 / 1403 aa (69.2%)

1 aa1403 aa

Response_regGerESBP_bac_3SBP_bac_3HisKAHATPase_cResponse_regHpt

Simplified architecture: Response_reg + GerE + SBP_bac_3 + SBP_bac_3 + HisKA + HATPase_c + Response_reg + Hpt
Raw architecture: Response_reg[4-114] | GerE[142-198] | SBP_bac_3[268-482] | SBP_bac_3[512-726] | HisKA[917-983] | HATPase_c[1031-1143] | Response_reg[1167-1276] | Hpt[1310-1392]
Domain count: 8
Matched identifier: HKOC_0067980
Positioned domains: Response_reg 4-114 ; GerE 142-198 ; SBP_bac_3 268-482 ; SBP_bac_3 512-726 ; HisKA 917-983 ; HATPase_c 1031-1143 ; Response_reg 1167-1276 ; Hpt 1310-1392

Cluster members and taxonomy

Representative gene: GCF_031628475#RJP78_RS01035

Sankey plot built from the taxonomy of all members in the selected cluster.

Genome taxonomy

Unknown

Taxonomy recordUnknownTaxon ID 749 544 · GCF_000164515

AssemblyASM16451v1 · Scaffoldhaploid

Genome composition4 696 414 bp · 50,5% GCEscherichia coli MS 175-1

Signal transduction countsGenes 62 · HK 30 · RR 32CheA 1 · PP 0

Ranked taxonomy7 ranked levels available

SuperkingdomBacteriaKingdomPseudomonadatiPhylumPseudomonadotaClassGammaproteobacteriaOrderEnterobacteralesFamilyEnterobacteriaceaeGenusEscherichia

Lineage path7 lineage nodes

1Bacteria2Pseudomonadati3Pseudomonadota4Gammaproteobacteria5Enterobacterales6Enterobacteriaceae7Escherichia

Open genome Search genes in genome Search HK genes NCBI assembly files

Related genes

Preview from the same derived genome key