1 HAMP#1
62-131 aa · 70 aa · 18.6% of protein
Raw token
HAMP:62:0.0000000000157:131:70:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BER35_RS16540
Histidine kinase, Classic
Clostridioides difficile · GCF_001972065
ClassHKTypeClassicLength376 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_001972065#BER35_RS16540Stable P2CS identifier used across views.
GenomeGCF_001972065Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
HAMPHisKAHATPase_c
Protein length376 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage245 / 376 aa (65.2%)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
Native P2CS viewFrontend rendering from the parsed domain string and TMPRED protein features.
1 aa376 aa
Domain-by-domain annotation3 items
2 HisKA#2
156-221 aa · 66 aa · 17.6% of protein
Raw token
HisKA:156:0.00000000000000452:221:66:643 HATPase_c#3
268-376 aa · 109 aa · 29.0% of protein
Raw token
HATPase_c:268:6.45e-17:376:110:109- Raw architecture: HAMP:62:0.0000000000157:131:70:69#HisKA:156:0.00000000000000452:221:66:64#HATPase_c:268:6.45e-17:376:110:109
- 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_001972065::NZ_MTWE01000004.1::G00048
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span3208884-3210682Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBER35_003253RefSeq proteinWP_003422024.1
Context group ID
GCF_001972065::NZ_MTWE01000004.1::G00048Context members
BER35_RS16540BER35_RS16545
Partner locus tags
BER35_RS16540BER35_RS16545
Partner old locus tags
BER35_003253BER35_003254
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003422024.1Primary protein accession used for annex mappings.
UniProt accessionD5Q7T6Primary UniProt accession resolved in the annex database.
UniProt IDD5Q7T6_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 tagBER35_RS16540Primary locus identifier stored in the genes table.
Old locus tagBER35_003253Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_MTWE01000004.1Sequence record reported by the local genomic context database.
Genomic interval3 208 884-3 210 014 nt1 131 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span3 208 884-3 210 682 ntGCF_001972065::NZ_MTWE01000004.1::G00048
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_001972065::NZ_MTWE01000004.1::G00048Graphic 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_MTWE01000004.1All displayed genes belong to this local TCS context.
Neighborhood span3 208 884-3 210 682 nt1 799 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
3 208 884 nt3 210 682 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
BER35_RS16540GCF_001972065#BER35_RS16540
HKClassicCurrent focus
3 208 884-3 210 014 nt · Reverse (-)
BER35_RS16545GCF_001972065#BER35_RS16545
RROmpR
3 210 011-3 210 682 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000164175#HMPREF0220_RS11745Use this link to inspect the representative gene detail.
PFAM architectureHAMP + HisKA + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_2641496
Simplified PFAM architecture for HKOC_2641496
PFAM domain coverage: 226 / 376 aa (60.1%)
1 aa376 aa
HAMPHisKAHATPase_c
- Simplified architecture: HAMP + HisKA + HATPase_c
- Raw architecture: HAMP[79-131] | HisKA[156-221] | HATPase_c[268-374]
- Domain count: 3
- Matched identifier: HKOC_2641496
- Positioned domains: HAMP 79-131 ; HisKA 156-221 ; HATPase_c 268-374
Cluster members and taxonomy
Representative gene: GCF_000164175#HMPREF0220_RS11745
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_001972065
AssemblyASM197206v1 · Contighaploid
Genome composition4 057 973 bp · 28,5% GCClostridioides difficile
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