Gene detail

QAC_RS0202765

Histidine kinase, CheA

Clostridioides difficile QCD-66c26 · GCF_000003215

Open genome Open selected cluster RefSeq

ClassHKTypeCheALength700 aaTM0ValidatedNoCompleteYesContextorphan

Gene IDGCF_000003215#QAC_RS0202765Stable P2CS identifier used across views.

GenomeGCF_000003215Unknown

Selected clusterHKOC_0768910Run 6 · 342 sequences · id 100% · cov 80% · representative

External referencesWP_021419288.1 · MIST4 QAC_RS0202765RefSeq · MIST4

Domain signature

Compact overview inferred from the domain field

HptH-kinase_dimHATPase_cCheW

Protein length700 aaLength used to scale native and Biotite-like views.

Annotated domains44 with usable coordinates.

Domain coverage441 / 700 aa (63.0%)Merged over positioned domains only.

Domain description1 Hpt,1 H-kinase_dim,1 HATPase_c,1 CheWSummary 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 aa700 aa

Domain-by-domain annotation4 items

1 Hpt#1

3-106 aa · 104 aa · 14.9% of protein

Raw tokenHpt:3:0.0000000000000119:106:104:84

2 H-kinase_dim#2

312-373 aa · 62 aa · 8.9% of protein

Raw tokenH-kinase_dim:312:0.00000000000000435:373:67:67

3 HATPase_c#3

420-559 aa · 140 aa · 20.0% of protein

Raw tokenHATPase_c:420:1.77e-17:559:140:109

4 CheW#4

564-698 aa · 135 aa · 19.3% of protein

Raw tokenCheW:564:1.64e-22:698:136:138

Raw architecture: Hpt:3:0.0000000000000119:106:104:84#H-kinase_dim:312:0.00000000000000435:373:67:67#HATPase_c:420:1.77e-17:559:140:109#CheW:564:1.64e-22:698:136:138
Domain description: 1 Hpt,1 H-kinase_dim,1 HATPase_c,1 CheW
TM description: N/A
TMPRED source: No TMPRED file loaded
TMPRED segments: N/A
Complete: Yes

Protein sequence

On-demand local amino-acid sequence in FASTA format

Context mapping

Resolved via p2cs_tcs_context.db when a locus tag match exists

Context labelorphanGCF_000003215::NZ_CM000441.1::G00011

Group size11 locus tag listed below.

HK / RR1 / 0Counts resolved for the local TCS neighborhood.

Context span516303-518405Genomic interval covered by the local TCS group.

Identifiers

RefSeq proteinWP_021419288.1

Context group IDGCF_000003215::NZ_CM000441.1::G00011

Context members

QAC_RS0202765

Partner locus tags

QAC_RS0202765

Partner protein IDs

WP_021419288.1

External references

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

No UniProt / GO / PubMed mapping was found for WP_021419288.1.

Genomic coordinates

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

Current locus tagQAC_RS0202765Primary locus identifier stored in the genes table.

Old locus tagUnavailableNo previous locus tag available for this gene.

Contig / repliconNZ_CM000441.1Sequence record reported by the local genomic context database.

Genomic interval516 303-518 405 nt2 103 nt · Forward (+)

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

Local TCS group span516 303-518 405 ntGCF_000003215::NZ_CM000441.1::G00011

Quick actions

Open genome Search genes in genome

Genome neighborhood

Gene-centered window parsed directly from the configured gzipped GFF annotation

GCF_000003215 · NZ_CM000441.1

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.

Centered locusQAC_RS020276511 genes displayed around the current focus.

Configured flank5 upstream / downstreamWindow size loaded from config.ini.

Annotation sourceGCF_000003215.gff.gzResolved as <gff_root_dir>/<genome_id>/<genome_id>.gff.gz when available.

View modeGene-centered orderThis track keeps the current gene in the middle of the context window when possible.

Gene-centered contextFive upstream and five downstream genes can be shown when the configured flank count is set to 5.

Current geneHKRROther P2CSOutside P2CS

QAC_RS0202740QAC_RS0202740

QAC_RS0202745QAC_RS0202745

QAC_RS0202750QAC_RS0202750

4QAC_RS0202755QAC_RS0202755

QAC_RS0202760QAC_RS0202760

6QAC_RS0202765QAC_RS0202765

QAC_RS0202770QAC_RS0202770

QAC_RS0202775QAC_RS0202775

QAC_RS0202780QAC_RS0202780

QAC_RS0202785QAC_RS0202785

QAC_RS0202790QAC_RS0202790

Neighborhood gene cards

11 genes in the current genome window.

QAC_RS0202740QAC_RS0202740

Outside P2CS

511 595-512 179 nt · 585 nt · Forward (+)

chemotaxis protein CheC

Protein WP_225544781.1

QAC_RS0202745QAC_RS0202745

Outside P2CS

512 176-512 661 nt · 486 nt · Forward (+)

chemotaxis protein CheD

Protein WP_003425085.1

QAC_RS0202750QAC_RS0202750

Outside P2CS

512 704-513 222 nt · 519 nt · Forward (+)

chemotaxis protein CheW

Protein WP_009888332.1

QAC_RS0202755QAC_RS0202755

RRPleD

513 358-514 317 nt · 960 nt · Forward (+)

diguanylate cyclase

Protein WP_009892662.1Response regulator, PleD family

QAC_RS0202760QAC_RS0202760

Outside P2CS

514 343-516 046 nt · 1 704 nt · Forward (+)

HAMP domain-containing methyl-accepting chemotaxis protein

Protein WP_009888334.1

QAC_RS0202765QAC_RS0202765

HKCheACurrent focus

516 303-518 405 nt · 2 103 nt · Forward (+)

chemotaxis protein CheA

Protein WP_021419288.1Histidine kinase, CheA

QAC_RS0202770QAC_RS0202770

Outside P2CS

518 418-518 858 nt · 441 nt · Forward (+)

chemotaxis protein CheW

Protein WP_003439104.1

QAC_RS0202775QAC_RS0202775

Outside P2CS

518 894-519 697 nt · 804 nt · Forward (+)

CheR family methyltransferase

Protein WP_009888336.1

QAC_RS0202780QAC_RS0202780

Outside P2CS

519 737-520 333 nt · 597 nt · Forward (+)

CheB methylesterase domain-containing protein

Protein WP_009888337.1

QAC_RS0202785QAC_RS0202785

Outside P2CS

520 439-521 302 nt · 864 nt · Forward (+)

DUF3298 and DUF4163 domain-containing protein

Protein WP_003439108.1

QAC_RS0202790QAC_RS0202790

Outside P2CS

521 369-522 358 nt · 990 nt · Forward (+)

ornithine cyclodeaminase family protein

Protein WP_009888338.1

3D Structure

No local structure root: /mnt/p2cs-s3/P2CS_WEB/DATAS/SP_CIF

No local CIF or PDB file was detected for this record.

No CIF or PDB file was found for HKOC_0768910 under /home/biam/MYTOOLS/p2cs-web/DATAS/MassiveFold/work/recovered_by_cluster_all_ranked/clusters.

No UniProt accession is available for this gene.

Clusters

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

Available memberships1 cluster

HKOC_0768910HK

Run 6342 sequencesid 100%cov 80%

PFAM Hpt + P2 + H-kinase_dim + HATPase_c + CheW

Current gene is the representative sequence.

Selected clusterHKOC_0768910Run 6 · HK · 342 sequences

Representative sequenceGCF_000003215#QAC_RS0202765The current gene is the representative for this cluster.

PFAM architectureHpt + P2 + H-kinase_dim + HATPase_c + CheW5 domains in the representative PFAM annotation.

Open in cluster search

PFAM architecture for HKOC_0768910

Simplified PFAM architecture for HKOC_0768910

PFAM domain coverage: 513 / 700 aa (73.3%)

1 aa700 aa

HptP2H-kinase_dimHATPase_cCheW

Simplified architecture: Hpt + P2 + H-kinase_dim + HATPase_c + CheW
Raw architecture: Hpt[3-104] | P2[164-240] | H-kinase_dim[312-373] | HATPase_c[422-559] | CheW[565-698]
Domain count: 5
Matched identifier: HKOC_0768910
Positioned domains: Hpt 3-104 ; P2 164-240 ; H-kinase_dim 312-373 ; HATPase_c 422-559 ; CheW 565-698

Cluster members and taxonomy

Representative gene: GCF_000003215#QAC_RS0202765

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

Genome taxonomy

Clostridioides difficile QCD-66c26

Taxonomy recordClostridioides difficile QCD-66c26Taxon ID 455 631 · GCF_000003215

AssemblyASM321v1 · Chromosomehaploid

Genome composition4 127 750 bp · 28,5% GCGenome size and GC content from the linked genome record.

Signal transduction countsGenes 106 · HK 50 · RR 56CheA 1 · PP 0

Ranked taxonomy7 ranked levels available

SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides

Lineage path1 lineage nodes

1Unknown

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

Related genes

Preview from the same derived genome key