Gene detail

RYX45_RS01625

Histidine kinase, Classic

Alkalihalophilus pseudofirmus · GCF_032843305

Open genome Open selected cluster RefSeq UniProt

ClassHKTypeClassicLength994 aaTM0ValidatedNoCompleteYesContextpaired

Gene IDGCF_032843305#RYX45_RS01625Stable P2CS identifier used across views.

GenomeGCF_032843305Bacteria; Bacillati; Bacillota; Bacilli; Bacillales; Bacillaceae; Alkalihalophilus

Selected clusterHKOC_0294226Run 6 · 2 sequences · id 100% · cov 80% · representative

External referencesWP_323465704.1 · A0AAJ2KV76 · MIST4 RYX45_RS01625RefSeq · UniProt · MIST4

Domain signature

Compact overview inferred from the domain field

MHYTPAS_9PAS_4PAS_8HisKAHATPase_c

Protein length994 aaLength used to scale native and Biotite-like views.

Annotated domains77 with usable coordinates.

Domain coverage587 / 994 aa (59.1%)Merged over positioned domains only.

Domain description1 MHYT,1 PAS_9,2 PAS_4,1 PAS_8,1 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

Domain view

Native Biotite-like

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

1 aa994 aa

Domain-by-domain annotation7 items

1 MHYT#1

59-111 aa · 53 aa · 5.3% of protein

Raw tokenMHYT:59:0.000000000011:111:53:54

2 PAS_9#2

264-365 aa · 102 aa · 10.3% of protein

Raw tokenPAS_9:264:0.0000000398:365:103:102

3 PAS_4#3

398-489 aa · 92 aa · 9.3% of protein

Raw tokenPAS_4:398:0.0000638:489:98:110

4 PAS_8#4

501-555 aa · 55 aa · 5.5% of protein

Raw tokenPAS_8:501:0.000000109:555:55:65

5 PAS_4#5

638-746 aa · 109 aa · 11.0% of protein

Raw tokenPAS_4:638:0.0000000524:746:114:110

6 HisKA#6

768-832 aa · 65 aa · 6.5% of protein

Raw tokenHisKA:768:1.33e-16:832:65:64

7 HATPase_c#7

884-994 aa · 111 aa · 11.2% of protein

Raw tokenHATPase_c:884:2.35e-32:994:111:109

Raw architecture: MHYT:59:0.000000000011:111:53:54#PAS_9:264:0.0000000398:365:103:102#PAS_4:398:0.0000638:489:98:110#PAS_8:501:0.000000109:555:55:65#PAS_4:638:0.0000000524:746:114:110#HisKA:768:1.33e-16:832:65:64#HATPase_c:884:2.35e-32:994:111:109
Domain description: 1 MHYT,1 PAS_9,2 PAS_4,1 PAS_8,1 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_032843305::NZ_JAWJAY010000001.1::G00005

Group size22 locus tags listed below.

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

Context span298515-302279Genomic interval covered by the local TCS group.

Identifiers

Old locus tagRYX45_01620RefSeq proteinWP_323465704.1

Context group IDGCF_032843305::NZ_JAWJAY010000001.1::G00005

Context members

RYX45_RS01625RYX45_RS01630

Partner locus tags

RYX45_RS01625RYX45_RS01630

Partner old locus tags

RYX45_01620RYX45_01625

Partner protein IDs

WP_323465704.1 WP_323465705.1

External references

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

RefSeqWP_323465704.1Primary protein accession used for annex mappings.

UniProt accessionA0AAJ2KV76Primary UniProt accession resolved in the annex database.

UniProt IDA0AAJ2KV76_ALKPSDisplay identifier provided by UniProt.

GO / PubMed4 / 0Unique GO terms and literature references available below.

Reference hubs

Open RefSeq Open UniProt accession

GO terms

GO:0016020 GO:0005524 GO:0000155 GO:0006355

Genomic coordinates

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

Current locus tagRYX45_RS01625Primary locus identifier stored in the genes table.

Old locus tagRYX45_01620Legacy locus tag recovered from the local context mapping.

Contig / repliconNZ_JAWJAY010000001.1Sequence record reported by the local genomic context database.

Genomic interval298 515-301 499 nt2 985 nt · Forward (+)

StrandForward (+)Strand sign follows the local context database convention.

Local TCS group span298 515-302 279 ntGCF_032843305::NZ_JAWJAY010000001.1::G00005

Quick actions

Open genome Search genes in genome

Local neighborhood

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

GCF_032843305::NZ_JAWJAY010000001.1::G00005

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_JAWJAY010000001.1All displayed genes belong to this local TCS context.

Neighborhood span298 515-302 279 nt3 765 nt

Members21 current focus gene

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

298 515 nt302 279 nt

+-RYX45_RS01625 RYX45_RS01630

Neighborhood gene cards

2 genes in the current local neighborhood.

RYX45_RS01625GCF_032843305#RYX45_RS01625

HKClassicCurrent focus

298 515-301 499 nt · Forward (+)

Old locus RYX45_01620RefSeq WP_323465704.1

Open current gene

RYX45_RS01630GCF_032843305#RYX45_RS01630

RRLytTR

301 545-302 279 nt · Forward (+)

Old locus RYX45_01625RefSeq WP_323465705.1

Open gene

Clusters

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

Available memberships1 cluster

HKOC_0294226HK

Run 62 sequencesid 100%cov 80%

PFAM MHYT + PAS_9 + PAS + PAS_8 + HisKA + HATPase_c

Current gene is the representative sequence.

Selected clusterHKOC_0294226Run 6 · HK · 2 sequences

Representative sequenceGCF_032843305#RYX45_RS01625The current gene is the representative for this cluster.

PFAM architectureMHYT + PAS_9 + PAS + PAS_8 + HisKA + HATPase_c6 domains in the representative PFAM annotation.

Open in cluster search

PFAM architecture for HKOC_0294226

Simplified PFAM architecture for HKOC_0294226

PFAM domain coverage: 424 / 994 aa (42.7%)

1 aa994 aa

MHYTPAS_9PASPAS_8HisKAHATPase_c

Simplified architecture: MHYT + PAS_9 + PAS + PAS_8 + HisKA + HATPase_c
Raw architecture: MHYT[58-114] | PAS_9[266-365] | PAS[502-548] | PAS_8[632-677] | HisKA[768-832] | HATPase_c[885-993]
Domain count: 6
Matched identifier: HKOC_0294226
Positioned domains: MHYT 58-114 ; PAS_9 266-365 ; PAS 502-548 ; PAS_8 632-677 ; HisKA 768-832 ; HATPase_c 885-993

Cluster members and taxonomy

Representative gene: GCF_032843305#RYX45_RS01625

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

Genome taxonomy

Unknown

Taxonomy recordUnknownTaxon ID 79 885 · GCF_032843305

AssemblyASM3284330v1 · Contighaploid

Genome composition4 368 590 bp · 40,0% GCAlkalihalophilus pseudofirmus

Signal transduction countsGenes 76 · HK 39 · RR 36CheA 1 · PP 1

Ranked taxonomy7 ranked levels available

SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassBacilliOrderBacillalesFamilyBacillaceaeGenusAlkalihalophilus

Lineage path7 lineage nodes

1Bacteria2Bacillati3Bacillota4Bacilli5Bacillales6Bacillaceae7Alkalihalophilus

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

Related genes

Preview from the same derived genome key