1 PAS_9#1
529-629 aa · 101 aa · 11.1% of protein
Raw token
PAS_9:529:0.0000774:629:101:102P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BER29_RS12880
Histidine kinase, Classic
Clostridioides difficile · GCF_001972015
ClassHKTypeClassicLength912 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_001972015#BER29_RS12880Stable P2CS identifier used across views.
GenomeGCF_001972015Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
PAS_9HisKAHATPase_c
Protein length912 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage284 / 912 aa (31.1%)Merged over positioned domains only.
Domain description1 PAS_9,1 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
655-726 aa · 72 aa · 7.9% of protein
Raw token
HisKA:655:0.0000000000000074:726:72:643 HATPase_c#3
773-883 aa · 111 aa · 12.2% of protein
Raw token
HATPase_c:773:3.52e-31:883:111:109- Raw architecture: PAS_9:529:0.0000774:629:101:102#HisKA:655:0.0000000000000074:726:72:64#HATPase_c:773:3.52e-31:883:111:109
- Domain description: 1 PAS_9,1 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_001972015::NZ_MTVR01000002.1::G00039
Group size11 locus tag listed below.
HK / RR1 / 0Counts resolved for the local TCS neighborhood.
Context span2422308-2425046Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBER29_002529RefSeq proteinWP_009893616.1
Context group ID
GCF_001972015::NZ_MTVR01000002.1::G00039Context members
BER29_RS12880
Partner locus tags
BER29_RS12880
Partner old locus tags
BER29_002529
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009893616.1Primary protein accession used for annex mappings.
UniProt accessionA0AB74R1Z9Primary UniProt accession resolved in the annex database.
UniProt IDA0AB74R1Z9_CLODIDisplay identifier provided by UniProt.
GO / PubMed4 / 0Unique GO terms and literature references available below.
Reference hubs
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagBER29_RS12880Primary locus identifier stored in the genes table.
Old locus tagBER29_002529Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_MTVR01000002.1Sequence record reported by the local genomic context database.
Genomic interval2 422 308-2 425 046 nt2 739 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span2 422 308-2 425 046 ntGCF_001972015::NZ_MTVR01000002.1::G00039
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_001972015::NZ_MTVR01000002.1::G00039Graphic 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_MTVR01000002.1All displayed genes belong to this local TCS context.
Neighborhood span2 422 308-2 425 046 nt2 739 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
2 422 308 nt2 425 046 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
BER29_RS12880GCF_001972015#BER29_RS12880
HKClassicCurrent focus
2 422 308-2 425 046 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003215#QAC_RS0212590Use this link to inspect the representative gene detail.
PFAM architecturePAS_8 + PAS_9 + HisKA + HATPase_c4 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0387803
Simplified PFAM architecture for HKOC_0387803
PFAM domain coverage: 340 / 912 aa (37.3%)
1 aa912 aa
PAS_8PAS_9HisKAHATPase_c
- Simplified architecture: PAS_8 + PAS_9 + HisKA + HATPase_c
- Raw architecture: PAS_8[303-355] | PAS_9[529-632] | HisKA[655-726] | HATPase_c[773-883]
- Domain count: 4
- Matched identifier: HKOC_0387803
- Positioned domains: PAS_8 303-355 ; PAS_9 529-632 ; HisKA 655-726 ; HATPase_c 773-883
Cluster members and taxonomy
Representative gene: GCF_000003215#QAC_RS0212590
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_001972015
AssemblyASM197201v1 · Contighaploid
Genome composition4 179 937 bp · 29,0% GCClostridioides difficile
Signal transduction countsGenes 107 · HK 51 · 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