1 HAMP#1
166-232 aa · 67 aa · 14.3% of protein
Raw token
HAMP:166:0.0000201:232:69:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
ITJ05_RS08540
Histidine kinase, Classic
Clostridioides difficile · GCF_015352255
ClassHKTypeClassicLength467 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_015352255#ITJ05_RS08540Stable P2CS identifier used across views.
GenomeGCF_015352255Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
HAMPHisKAHATPase_c
Protein length467 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage241 / 467 aa (51.6%)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
Biotite-like viewServer-side Python rendering inspired by the Biotite sigma-domain example.
Domain-by-domain annotation3 items
2 HisKA#2
245-312 aa · 68 aa · 14.6% of protein
Raw token
HisKA:245:0.0000000000000228:312:68:643 HATPase_c#3
359-464 aa · 106 aa · 22.7% of protein
Raw token
HATPase_c:359:8.85e-25:464:107:109- Raw architecture: HAMP:166:0.0000201:232:69:69#HisKA:245:0.0000000000000228:312:68:64#HATPase_c:359:8.85e-25:464:107:109
- 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
Context mapping
Resolved via p2cs_tcs_context.db when a locus tag match exists
Context labelpairedGCF_015352255::NZ_JADKQU010000018.1::G00005
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span3324-5456Genomic interval covered by the local TCS group.
Identifiers
Old locus tagITJ05_08545RefSeq proteinWP_003420354.1
Context group ID
GCF_015352255::NZ_JADKQU010000018.1::G00005Context members
ITJ05_RS08535ITJ05_RS08540
Partner locus tags
ITJ05_RS08535ITJ05_RS08540
Partner old locus tags
ITJ05_08540ITJ05_08545
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003420354.1Primary protein accession used for annex mappings.
UniProt accessionD5Q6Z1Primary UniProt accession resolved in the annex database.
UniProt IDD5Q6Z1_CLODIDisplay identifier provided by UniProt.
GO / PubMed3 / 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 tagITJ05_RS08540Primary locus identifier stored in the genes table.
Old locus tagITJ05_08545Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JADKQU010000018.1Sequence record reported by the local genomic context database.
Genomic interval4 053-5 456 nt1 404 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span3 324-5 456 ntGCF_015352255::NZ_JADKQU010000018.1::G00005
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_015352255::NZ_JADKQU010000018.1::G00005Graphic 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_JADKQU010000018.1All displayed genes belong to this local TCS context.
Neighborhood span3 324-5 456 nt2 133 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
3 324 nt5 456 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
ITJ05_RS08535GCF_015352255#ITJ05_RS08535
RROmpR
3 324-4 049 nt · Forward (+)
ITJ05_RS08540GCF_015352255#ITJ05_RS08540
HKClassicCurrent focus
4 053-5 456 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000155065#QAE_RS0208280Use this link to inspect the representative gene detail.
PFAM architectureHisKA + HATPase_c2 domains in the representative PFAM annotation.
PFAM architecture for HKOC_1747751
Simplified PFAM architecture for HKOC_1747751
PFAM domain coverage: 172 / 467 aa (36.8%)
1 aa467 aa
HisKAHATPase_c
- Simplified architecture: HisKA + HATPase_c
- Raw architecture: HisKA[245-309] | HATPase_c[359-465]
- Domain count: 2
- Matched identifier: HKOC_1747751
- Positioned domains: HisKA 245-309 ; HATPase_c 359-465
Cluster members and taxonomy
Representative gene: GCF_000155065#QAE_RS0208280
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_015352255
AssemblyASM1535225v1 · Scaffoldhaploid
Genome composition3 912 632 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 95 · HK 48 · RR 47CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key