1 PAS_4#1
246-354 aa · 109 aa · 17.6% of protein
Raw token
PAS_4:246:0.0000000000267:354:115:110P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
AMR88_RS09315
Histidine kinase, Classic
Clostridioides difficile · GCF_002891615
ClassHKTypeClassicLength618 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_002891615#AMR88_RS09315Stable P2CS identifier used across views.
GenomeGCF_002891615Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
PAS_4HisKAHATPase_c
Protein length618 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage290 / 618 aa (46.9%)Merged over positioned domains only.
Domain description1 PAS_4,1 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 aa618 aa
Domain-by-domain annotation3 items
2 HisKA#2
363-432 aa · 70 aa · 11.3% of protein
Raw token
HisKA:363:0.0000000000000012:432:70:643 HATPase_c#3
479-589 aa · 111 aa · 18.0% of protein
Raw token
HATPase_c:479:1.19e-27:589:111:109- Raw architecture: PAS_4:246:0.0000000000267:354:115:110#HisKA:363:0.0000000000000012:432:70:64#HATPase_c:479:1.19e-27:589:111:109
- Domain description: 1 PAS_4,1 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 labelorphanGCF_002891615::NZ_LJCI01000008.1::G00054
Group size11 locus tag listed below.
HK / RR1 / 0Counts resolved for the local TCS neighborhood.
Context span99395-101251Genomic interval covered by the local TCS group.
Identifiers
Context group ID
GCF_002891615::NZ_LJCI01000008.1::G00054Context members
AMR88_RS09315
Partner locus tags
AMR88_RS09315
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009893166.1Primary protein accession used for annex mappings.
UniProt accessionA0A0H3N345Primary UniProt accession resolved in the annex database.
UniProt IDA0A0H3N345_CLODCDisplay identifier provided by UniProt.
GO / PubMed2 / 1Unique GO terms and literature references available below.
Reference hubs
GO terms
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagAMR88_RS09315Primary locus identifier stored in the genes table.
Old locus tagUnavailableNo previous locus tag available for this gene.
Contig / repliconNZ_LJCI01000008.1Sequence record reported by the local genomic context database.
Genomic interval99 395-101 251 nt1 857 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span99 395-101 251 ntGCF_002891615::NZ_LJCI01000008.1::G00054
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_002891615::NZ_LJCI01000008.1::G00054Graphic view
Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.
Context labelorphanNeighborhood members are ordered by genomic coordinates.
Contig / repliconNZ_LJCI01000008.1All displayed genes belong to this local TCS context.
Neighborhood span99 395-101 251 nt1 857 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
99 395 nt101 251 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
AMR88_RS09315GCF_002891615#AMR88_RS09315
HKClassicCurrent focus
99 395-101 251 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003215#QAC_RS0208160Use this link to inspect the representative gene detail.
PFAM architecturePAS_4 + HisKA + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0977572
Simplified PFAM architecture for HKOC_0977572
PFAM domain coverage: 290 / 618 aa (46.9%)
1 aa618 aa
PAS_4HisKAHATPase_c
- Simplified architecture: PAS_4 + HisKA + HATPase_c
- Raw architecture: PAS_4[246-354] | HisKA[363-432] | HATPase_c[479-589]
- Domain count: 3
- Matched identifier: HKOC_0977572
- Positioned domains: PAS_4 246-354 ; HisKA 363-432 ; HATPase_c 479-589
Cluster members and taxonomy
Representative gene: GCF_000003215#QAC_RS0208160
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_002891615
AssemblyASM289161v1 · Scaffoldhaploid
Genome composition4 208 917 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 101 · HK 48 · RR 52CheA 1 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key