1 GAF#1
38-179 aa · 142 aa · 16.0% of protein
Raw token
GAF:38:0.00000000509:179:142:133P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
CC1_RS13235
Histidine kinase, Hybrid
Coprococcus catus GD/7 · GCF_000210555
ClassHKTypeHybridLength886 aaTM0ValidatedNoCompleteYesContexttriad
Gene IDGCF_000210555#CC1_RS13235Stable P2CS identifier used across views.
GenomeGCF_000210555Bacteria; Bacillati; Bacillota; Clostridia; Lachnospirales; Lachnospiraceae; Coprococcus
Domain signature
Compact overview inferred from the domain field
GAFHisKAHATPase_cResponse_reg
Protein length886 aaLength used to scale native and Biotite-like views.
Annotated domains44 with usable coordinates.
Domain coverage445 / 886 aa (50.2%)Merged over positioned domains only.
Domain description1 GAF,1 HisKA,1 HATPase_c,1 Response_regSummary 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 aa886 aa
Domain-by-domain annotation4 items
2 HisKA#2
499-565 aa · 67 aa · 7.6% of protein
Raw token
HisKA:499:0.000000000000103:565:67:643 HATPase_c#3
612-729 aa · 118 aa · 13.3% of protein
Raw token
HATPase_c:612:1.1e-29:729:118:1094 Response_reg#4
755-872 aa · 118 aa · 13.3% of protein
Raw token
Response_reg:755:3.14e-25:872:118:111- Raw architecture: GAF:38:0.00000000509:179:142:133#HisKA:499:0.000000000000103:565:67:64#HATPase_c:612:1.1e-29:729:118:109#Response_reg:755:3.14e-25:872:118:111
- Domain description: 1 GAF,1 HisKA,1 HATPase_c,1 Response_reg
- 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 labeltriadGCF_000210555::NC_021009.1::G00025
Group size33 locus tags listed below.
HK / RR2 / 1Counts resolved for the local TCS neighborhood.
Context span2792269-2798063Genomic interval covered by the local TCS group.
Identifiers
Old locus tagCC1_27570RefSeq proteinWP_015514905.1
Context group ID
GCF_000210555::NC_021009.1::G00025Context members
CC1_RS13235CC1_RS13240CC1_RS13245
Partner locus tags
CC1_RS13235CC1_RS13240CC1_RS13245
Partner old locus tags
CC1_27570CC1_27580CC1_27590
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_015514905.1Primary protein accession used for annex mappings.
UniProt accessionD4JAK3Primary UniProt accession resolved in the annex database.
UniProt IDD4JAK3_9FIRMDisplay 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 tagCC1_RS13235Primary locus identifier stored in the genes table.
Old locus tagCC1_27570Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_021009.1Sequence record reported by the local genomic context database.
Genomic interval2 792 269-2 794 929 nt2 661 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span2 792 269-2 798 063 ntGCF_000210555::NC_021009.1::G00025
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000210555::NC_021009.1::G00025Graphic view
Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.
Context labeltriadNeighborhood members are ordered by genomic coordinates.
Contig / repliconNC_021009.1All displayed genes belong to this local TCS context.
Neighborhood span2 792 269-2 798 063 nt5 795 nt
Members31 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
2 792 269 nt2 798 063 nt
Neighborhood gene cards
3 genes in the current local neighborhood.
CC1_RS13235GCF_000210555#CC1_RS13235
HKHybridCurrent focus
2 792 269-2 794 929 nt · Forward (+)
CC1_RS13240GCF_000210555#CC1_RS13240
RRunclassified
2 794 932-2 796 578 nt · Forward (+)
CC1_RS13245GCF_000210555#CC1_RS13245
HKClassic
2 796 582-2 798 063 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000210555#CC1_RS13235The current gene is the representative for this cluster.
PFAM architectureGAF + HisKA + HATPase_c + Response_reg4 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0434057
Simplified PFAM architecture for HKOC_0434057
PFAM domain coverage: 441 / 886 aa (49.8%)
1 aa886 aa
GAFHisKAHATPase_cResponse_reg
- Simplified architecture: GAF + HisKA + HATPase_c + Response_reg
- Raw architecture: GAF[39-179] | HisKA[499-565] | HATPase_c[613-728] | Response_reg[755-871]
- Domain count: 4
- Matched identifier: HKOC_0434057
- Positioned domains: GAF 39-179 ; HisKA 499-565 ; HATPase_c 613-728 ; Response_reg 755-871
Cluster members and taxonomy
Representative gene: GCF_000210555#CC1_RS13235
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 717 962 · GCF_000210555
AssemblyASM21055v1 · Chromosomehaploid
Genome composition3 522 704 bp · 43,0% GCCoprococcus catus GD/7
Signal transduction countsGenes 74 · HK 39 · RR 33CheA 0 · PP 2
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderLachnospiralesFamilyLachnospiraceaeGenusCoprococcus
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Lachnospirales6Lachnospiraceae7Coprococcus
Related genes
Preview from the same derived genome key