1 PAS_4#1
246-354 aa · 109 aa · 17.6% of protein
Raw token
PAS_4:246:0.00000000227:354:115:110P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF0220_RS03900
Histidine kinase, Classic
Clostridioides difficile NAP08 · GCF_000164175
ClassHKTypeClassicLength618 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_000164175#HMPREF0220_RS03900Stable P2CS identifier used across views.
GenomeGCF_000164175Bacteria; 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
Biotite-like viewServer-side Python rendering inspired by the Biotite sigma-domain example.
Domain-by-domain annotation3 items
2 HisKA#2
363-432 aa · 70 aa · 11.3% of protein
Raw token
HisKA:363:4.28e-16:432:70:643 HATPase_c#3
479-589 aa · 111 aa · 18.0% of protein
Raw token
HATPase_c:479:5.33e-28:589:111:109- Raw architecture: PAS_4:246:0.00000000227:354:115:110#HisKA:363:4.28e-16:432:70:64#HATPase_c:479:5.33e-28:589:111:109
- 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_000164175::NZ_GG770713.1::G00011
Group size11 locus tag listed below.
HK / RR1 / 0Counts resolved for the local TCS neighborhood.
Context span586482-588338Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF0220_2582RefSeq proteinWP_003420176.1
Context group ID
GCF_000164175::NZ_GG770713.1::G00011Context members
HMPREF0220_RS03900
Partner locus tags
HMPREF0220_RS03900
Partner old locus tags
HMPREF0220_2582
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003420176.1Primary protein accession used for annex mappings.
UniProt accessionD5Q6Q0Primary UniProt accession resolved in the annex database.
UniProt IDD5Q6Q0_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 tagHMPREF0220_RS03900Primary locus identifier stored in the genes table.
Old locus tagHMPREF0220_2582Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_GG770713.1Sequence record reported by the local genomic context database.
Genomic interval586 482-588 338 nt1 857 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span586 482-588 338 ntGCF_000164175::NZ_GG770713.1::G00011
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000164175::NZ_GG770713.1::G00011Graphic 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_GG770713.1All displayed genes belong to this local TCS context.
Neighborhood span586 482-588 338 nt1 857 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
586 482 nt588 338 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
HMPREF0220_RS03900GCF_000164175#HMPREF0220_RS03900
HKClassicCurrent focus
586 482-588 338 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000164175#HMPREF0220_RS03900The current gene is the representative for this cluster.
PFAM architecturePAS_4 + HisKA + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0977619
Simplified PFAM architecture for HKOC_0977619
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_0977619
- Positioned domains: PAS_4 246-354 ; HisKA 363-432 ; HATPase_c 479-589
Cluster members and taxonomy
Representative gene: GCF_000164175#HMPREF0220_RS03900
Displayed with 5 columns and 10 rows per page from the local display config.
Showing members 1 to 50 over 276 total members. Page 1 / 6.
GCF_000164175#HMPREF0220_RS03900 (representative) | ||||
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 525 259 · GCF_000164175
AssemblyASM16417v1 · Scaffoldhaploid
Genome composition4 078 686 bp · 29,0% GCClostridioides difficile NAP08
Signal transduction countsGenes 97 · HK 48 · RR 49CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key