1 PAS_8#1
532-569 aa · 38 aa · 4.2% of protein
Raw token
PAS_8:532:0.0000792:569:38:65P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BER28_RS07715
Histidine kinase, Classic
Clostridioides difficile · GCF_001971835
ClassHKTypeClassicLength912 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_001971835#BER28_RS07715Stable P2CS identifier used across views.
GenomeGCF_001971835Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
PAS_8HisKAHATPase_c
Protein length912 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage222 / 912 aa (24.3%)Merged over positioned domains only.
Domain description1 PAS_8,1 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 aa912 aa
Domain-by-domain annotation3 items
2 HisKA#2
655-726 aa · 72 aa · 7.9% of protein
Raw token
HisKA:655:0.00000000195:726:72:643 HATPase_c#3
774-885 aa · 112 aa · 12.3% of protein
Raw token
HATPase_c:774:2e-25:885:112:109- Raw architecture: PAS_8:532:0.0000792:569:38:65#HisKA:655:0.00000000195:726:72:64#HATPase_c:774:2e-25:885:112:109
- Domain description: 1 PAS_8,1 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_001971835::NZ_MTVP01000004.1::G00023
Group size11 locus tag listed below.
HK / RR1 / 0Counts resolved for the local TCS neighborhood.
Context span1448552-1451290Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBER28_001508RefSeq proteinWP_009893087.1
Context group ID
GCF_001971835::NZ_MTVP01000004.1::G00023Context members
BER28_RS07715
Partner locus tags
BER28_RS07715
Partner old locus tags
BER28_001508
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009893087.1Primary protein accession used for annex mappings.
UniProt accessionA0A0H3N2T5Primary UniProt accession resolved in the annex database.
UniProt IDA0A0H3N2T5_CLODCDisplay identifier provided by UniProt.
GO / PubMed3 / 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 tagBER28_RS07715Primary locus identifier stored in the genes table.
Old locus tagBER28_001508Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_MTVP01000004.1Sequence record reported by the local genomic context database.
Genomic interval1 448 552-1 451 290 nt2 739 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span1 448 552-1 451 290 ntGCF_001971835::NZ_MTVP01000004.1::G00023
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_001971835::NZ_MTVP01000004.1::G00023Graphic 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_MTVP01000004.1All displayed genes belong to this local TCS context.
Neighborhood span1 448 552-1 451 290 nt2 739 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
1 448 552 nt1 451 290 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
BER28_RS07715GCF_001971835#BER28_RS07715
HKClassicCurrent focus
1 448 552-1 451 290 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003215#QAC_RS0207350Use this link to inspect the representative gene detail.
PFAM architecturePAS_8 + HisKA + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0387802
Simplified PFAM architecture for HKOC_0387802
PFAM domain coverage: 221 / 912 aa (24.2%)
1 aa912 aa
PAS_8HisKAHATPase_c
- Simplified architecture: PAS_8 + HisKA + HATPase_c
- Raw architecture: PAS_8[532-572] | HisKA[656-724] | HATPase_c[774-884]
- Domain count: 3
- Matched identifier: HKOC_0387802
- Positioned domains: PAS_8 532-572 ; HisKA 656-724 ; HATPase_c 774-884
Cluster members and taxonomy
Representative gene: GCF_000003215#QAC_RS0207350
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_001971835
AssemblyASM197183v1 · Contighaploid
Genome composition4 189 946 bp · 29,0% GCClostridioides difficile
Signal transduction countsGenes 106 · HK 50 · RR 56CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key