1 HAMP#1
6-74 aa · 69 aa · 16.1% of protein
Raw token
HAMP:6:0.000000244:74:69:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
QAY_RS13000
Histidine kinase, Classic
Clostridioides difficile CD18 · GCF_000448905
ClassHKTypeClassicLength429 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000448905#QAY_RS13000Stable P2CS identifier used across views.
GenomeGCF_000448905Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
HAMPPAS_9HisKAHATPase_c
Protein length429 aaLength used to scale native and Biotite-like views.
Annotated domains44 with usable coordinates.
Domain coverage340 / 429 aa (79.3%)Merged over positioned domains only.
Domain description1 HAMP,1 PAS_9,1 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
Biotite-like viewServer-side Python rendering inspired by the Biotite sigma-domain example.
Domain-by-domain annotation4 items
2 PAS_9#2
96-195 aa · 100 aa · 23.3% of protein
Raw token
PAS_9:96:0.00000117:195:103:1023 HisKA#3
202-268 aa · 67 aa · 15.6% of protein
Raw token
HisKA:202:2.76e-18:268:67:644 HATPase_c#4
319-422 aa · 104 aa · 24.2% of protein
Raw token
HATPase_c:319:3.5e-30:422:104:109- Raw architecture: HAMP:6:0.000000244:74:69:69#PAS_9:96:0.00000117:195:103:102#HisKA:202:2.76e-18:268:67:64#HATPase_c:319:3.5e-30:422:104:109
- Domain description: 1 HAMP,1 PAS_9,1 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_000448905::NZ_AVGN01000038.1::G00044
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span140856-142866Genomic interval covered by the local TCS group.
Identifiers
Old locus tagQAY_2596RefSeq proteinWP_003426968.1
Context group ID
GCF_000448905::NZ_AVGN01000038.1::G00044Context members
QAY_RS13000QAY_RS13005
Partner locus tags
QAY_RS13000QAY_RS13005
Partner old locus tags
QAY_2596QAY_2597
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003426968.1Primary protein accession used for annex mappings.
UniProt accessionA0A0H3NE71Primary UniProt accession resolved in the annex database.
UniProt IDA0A0H3NE71_CLODCDisplay identifier provided by UniProt.
GO / PubMed6 / 1Unique GO terms and literature references available below.
Reference hubs
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagQAY_RS13000Primary locus identifier stored in the genes table.
Old locus tagQAY_2596Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_AVGN01000038.1Sequence record reported by the local genomic context database.
Genomic interval140 856-142 145 nt1 290 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span140 856-142 866 ntGCF_000448905::NZ_AVGN01000038.1::G00044
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000448905::NZ_AVGN01000038.1::G00044Graphic view
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_AVGN01000038.1All displayed genes belong to this local TCS context.
Neighborhood span140 856-142 866 nt2 011 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
140 856 nt142 866 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
QAY_RS13000GCF_000448905#QAY_RS13000
HKClassicCurrent focus
140 856-142 145 nt · Reverse (-)
QAY_RS13005GCF_000448905#QAY_RS13005
RROmpR
142 174-142 866 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003215#QAC_RS0213315Use this link to inspect the representative gene detail.
PFAM architectureHAMP + PAS + HisKA + HATPase_c4 domains in the representative PFAM annotation.
PFAM architecture for HKOC_2180212
Simplified PFAM architecture for HKOC_2180212
PFAM domain coverage: 324 / 429 aa (75.5%)
1 aa429 aa
HAMPPASHisKAHATPase_c
- Simplified architecture: HAMP + PAS + HisKA + HATPase_c
- Raw architecture: HAMP[30-74] | PAS[87-193] | HisKA[202-267] | HATPase_c[317-422]
- Domain count: 4
- Matched identifier: HKOC_2180212
- Positioned domains: HAMP 30-74 ; PAS 87-193 ; HisKA 202-267 ; HATPase_c 317-422
Cluster members and taxonomy
Representative gene: GCF_000003215#QAC_RS0213315
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 151 257 · GCF_000448905
AssemblyASM44890v2 · Contighaploid
Genome composition3 995 800 bp · 28,0% GCClostridioides difficile CD18
Signal transduction countsGenes 99 · HK 47 · RR 52CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key