1 HAMP#1
84-152 aa · 69 aa · 17.9% of protein
Raw token
HAMP:84:0.000000674:152:70:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
QAC_RS0202575
Histidine kinase, Classic
Clostridioides difficile QCD-66c26 · GCF_000003215
ClassHKTypeClassicLength386 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000003215#QAC_RS0202575Stable P2CS identifier used across views.
Domain signature
Compact overview inferred from the domain field
HAMPHisKAHATPase_c
Protein length386 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage228 / 386 aa (59.1%)Merged over positioned domains only.
Domain description1 HAMP,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
Native P2CS viewFrontend rendering from the parsed domain string and TMPRED protein features.
1 aa386 aa
Domain-by-domain annotation3 items
2 HisKA#2
164-217 aa · 54 aa · 14.0% of protein
Raw token
HisKA:164:0.0000000565:217:54:643 HATPase_c#3
278-382 aa · 105 aa · 27.2% of protein
Raw token
HATPase_c:278:3.38e-20:382:106:109- Raw architecture: HAMP:84:0.000000674:152:70:69#HisKA:164:0.0000000565:217:54:64#HATPase_c:278:3.38e-20:382:106:109
- Domain description: 1 HAMP,1 HisKA,1 HATPase_c
- 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
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 labelpairedGCF_000003215::NZ_CM000441.1::G00006
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span470315-472137Genomic interval covered by the local TCS group.
Identifiers
Context group ID
GCF_000003215::NZ_CM000441.1::G00006Context members
QAC_RS0202575QAC_RS0202580
Partner locus tags
QAC_RS0202575QAC_RS0202580
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009892649.1Primary protein accession used for annex mappings.
UniProt accessionA0AB74R870Primary UniProt accession resolved in the annex database.
UniProt IDA0AB74R870_CLODIDisplay identifier provided by UniProt.
GO / PubMed2 / 0Unique GO terms and literature references available below.
Reference hubs
GO terms
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagQAC_RS0202575Primary 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 interval470 315-471 475 nt1 161 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span470 315-472 137 ntGCF_000003215::NZ_CM000441.1::G00006
Quick actions
Genome neighborhood
Gene-centered window parsed directly from the configured gzipped GFF annotation
GCF_000003215 · NZ_CM000441.1Graphic view
Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.
Centered locusQAC_RS020257511 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
3
QAC_RS0202560QAC_RS0202560
4
QAC_RS0202565QAC_RS0202565
5
QAC_RS0202570QAC_RS0202570
8
QAC_RS0202585QAC_RS0202585
9
QAC_RS0202590sugE
10
QAC_RS0202595QAC_RS0202595
11
QAC_RS0202600QAC_RS0202600
Neighborhood gene cards
11 genes in the current genome window.
QAC_RS0202550QAC_RS0202550
RROmpR
463 771-464 463 nt · 693 nt · Forward (+)
response regulator transcription factor
QAC_RS0202555QAC_RS0202555
HKClassic
464 737-465 906 nt · 1 170 nt · Forward (+)
HAMP domain-containing sensor histidine kinase
QAC_RS0202560QAC_RS0202560
Outside P2CS
466 146-468 614 nt · 2 469 nt · Reverse (-)
ABC transporter permease
QAC_RS0202565QAC_RS0202565
Outside P2CS
468 617-469 285 nt · 669 nt · Reverse (-)
ABC transporter ATP-binding protein
QAC_RS0202570QAC_RS0202570
Outside P2CS
469 571-470 098 nt · 528 nt · Reverse (-)
CDP-alcohol phosphatidyltransferase family protein
QAC_RS0202575QAC_RS0202575
HKClassicCurrent focus
470 315-471 475 nt · 1 161 nt · Reverse (-)
sensor histidine kinase
QAC_RS0202580QAC_RS0202580
RROmpR
471 463-472 137 nt · 675 nt · Reverse (-)
response regulator transcription factor
QAC_RS0202585QAC_RS0202585
Outside P2CS
472 958-473 785 nt · 828 nt · Reverse (-)
carbon-nitrogen hydrolase family protein
QAC_RS0202590sugE
Outside P2CS
474 167-474 487 nt · 321 nt · Forward (+)
quaternary ammonium compound efflux SMR transporter SugE
QAC_RS0202595QAC_RS0202595
Outside P2CS
474 620-475 300 nt · 681 nt · Reverse (-)
phosphoribosylaminoimidazolesuccinocarboxamide synthase
QAC_RS0202600QAC_RS0202600
Outside P2CS
475 696-476 748 nt · 1 053 nt · Forward (+)
galactitol-1-phosphate 5-dehydrogenase
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_2557600 under /home/biam/MYTOOLS/p2cs-web/DATAS/MassiveFold/work/recovered_by_cluster_all_ranked/clusters.
No UniProt CIF file was found for A0AB74R870 under /mnt/p2cs-s3/P2CS_WEB/DATAS/SP_CIF.
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003215#QAC_RS0202575The current gene is the representative for this cluster.
PFAM architectureHAMP + HisKA + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_2557600
Simplified PFAM architecture for HKOC_2557600
PFAM domain coverage: 219 / 386 aa (56.7%)
1 aa386 aa
HAMPHisKAHATPase_c
- Simplified architecture: HAMP + HisKA + HATPase_c
- Raw architecture: HAMP[106-151] | HisKA[164-231] | HATPase_c[278-382]
- Domain count: 3
- Matched identifier: HKOC_2557600
- Positioned domains: HAMP 106-151 ; HisKA 164-231 ; HATPase_c 278-382
Cluster members and taxonomy
Representative gene: GCF_000003215#QAC_RS0202575
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
Related genes
Preview from the same derived genome key