Gene detail

QAC_RS0202735

Response regulator, CheY family

Clostridioides difficile QCD-66c26 · GCF_000003215

Open genome Open selected cluster RefSeq UniProt

ClassRRTypeCheYLength120 aaTM0ValidatedNoCompleteYesContextorphan

Gene IDGCF_000003215#QAC_RS0202735Stable P2CS identifier used across views.

GenomeGCF_000003215Unknown

Selected clusterRROC_2434048Run 7 · 1168 sequences · id 100% · cov 80% · representative

External referencesWP_003425081.1 · A0A0H3N040 · MIST4 QAC_RS0202735RefSeq · UniProt · MIST4

Domain signature

Compact overview inferred from the domain field

Response_reg

Protein length120 aaLength used to scale native and Biotite-like views.

Annotated domains11 with usable coordinates.

Domain coverage112 / 120 aa (93.3%)Merged over positioned domains only.

Domain description1 Response_regSummary 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 aa120 aa

Domain-by-domain annotation1 item

1 Response_reg#1

5-116 aa · 112 aa · 93.3% of protein

Raw tokenResponse_reg:5:1.16e-33:116:112:111

Raw architecture: Response_reg:5:1.16e-33:116:112:111
Domain description: 1 Response_reg
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::G00009

Group size11 locus tag listed below.

HK / RR0 / 1Counts resolved for the local TCS neighborhood.

Context span511134-511496Genomic interval covered by the local TCS group.

Identifiers

RefSeq proteinWP_003425081.1

Context group IDGCF_000003215::NZ_CM000441.1::G00009

Context members

QAC_RS0202735

Partner locus tags

QAC_RS0202735

Partner protein IDs

WP_003425081.1

External references

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

RefSeqWP_003425081.1Primary protein accession used for annex mappings.

UniProt accessionA0A0H3N040Primary UniProt accession resolved in the annex database.

UniProt IDA0A0H3N040_CLODCDisplay identifier provided by UniProt.

GO / PubMed1 / 1Unique GO terms and literature references available below.

Reference hubs

Open RefSeq Open UniProt accession

GO terms

GO:0000160

PubMed

19781061

Genomic coordinates

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

Current locus tagQAC_RS0202735Primary 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 interval511 134-511 496 nt363 nt · Forward (+)

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

Local TCS group span511 134-511 496 ntGCF_000003215::NZ_CM000441.1::G00009

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_RS020273511 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_RS0202710QAC_RS0202710

QAC_RS0202715QAC_RS0202715

QAC_RS0202720QAC_RS0202720

QAC_RS0202725QAC_RS0202725

QAC_RS0202730QAC_RS0202730

6QAC_RS0202735QAC_RS0202735

QAC_RS0202740QAC_RS0202740

QAC_RS0202745QAC_RS0202745

QAC_RS0202750QAC_RS0202750

10QAC_RS0202755QAC_RS0202755

QAC_RS0202760QAC_RS0202760

Neighborhood gene cards

11 genes in the current genome window.

QAC_RS0202710QAC_RS0202710

Outside P2CS

505 234-506 544 nt · 1 311 nt · Reverse (-)

M20 family metallopeptidase

Protein WP_009888329.1

QAC_RS0202715QAC_RS0202715

Outside P2CS

506 557-507 027 nt · 471 nt · Reverse (-)

hypothetical protein

Protein WP_003417884.1

QAC_RS0202720QAC_RS0202720

Outside P2CS

507 031-507 882 nt · 852 nt · Reverse (-)

DUF3100 domain-containing protein

Protein WP_003439094.1

QAC_RS0202725QAC_RS0202725

Outside P2CS

508 807-509 718 nt · 912 nt · Forward (+)

helix-turn-helix transcriptional regulator

Protein WP_003439096.1

QAC_RS0202730QAC_RS0202730

Outside P2CS

509 893-510 390 nt · 498 nt · Forward (+)

GyrI-like domain-containing protein

Protein WP_009888330.1

QAC_RS0202735QAC_RS0202735

RRCheYCurrent focus

511 134-511 496 nt · 363 nt · Forward (+)

response regulator

Protein WP_003425081.1Response regulator, CheY family

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

3D Structure

Clusters

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

Available memberships1 cluster

RROC_2434048RR

Run 71168 sequencesid 100%cov 80%

PFAM Response_reg

Current gene is the representative sequence.

Selected clusterRROC_2434048Run 7 · RR · 1168 sequences

Representative sequenceGCF_000003215#QAC_RS0202735The current gene is the representative for this cluster.

PFAM architectureResponse_reg1 domain in the representative PFAM annotation.

Open in cluster search

PFAM architecture for RROC_2434048

Simplified PFAM architecture for RROC_2434048

PFAM domain coverage: 111 / 120 aa (92.5%)

1 aa120 aa

Response_reg

Simplified architecture: Response_reg
Raw architecture: Response_reg[5-115]
Domain count: 1
Matched identifier: RROC_2434048
Positioned domains: Response_reg 5-115 ; Response_reg 5-115

Cluster members and taxonomy

Representative gene: GCF_000003215#QAC_RS0202735

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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 RR genes NCBI assembly files

Related genes

Preview from the same derived genome key