1 dCache_1#1
44-287 aa · 244 aa · 40.6% of protein
Raw token
dCache_1:44:1.92e-19:287:248:195P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
CDL21_RS08720
Histidine kinase, Classic
Mediterraneibacter gnavus · GCF_002865385
ClassHKTypeClassicLength601 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_002865385#CDL21_RS08720Stable P2CS identifier used across views.
GenomeGCF_002865385Bacteria; Bacillati; Bacillota; Clostridia; Lachnospirales; Lachnospiraceae; Mediterraneibacter
Domain signature
Compact overview inferred from the domain field
dCache_1HAMPHis_kinaseHATPase_c
Protein length601 aaLength used to scale native and Biotite-like views.
Annotated domains44 with usable coordinates.
Domain coverage501 / 601 aa (83.4%)Merged over positioned domains only.
Domain description1 dCache_1,1 HAMP,1 His_kinase,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 aa601 aa
Domain-by-domain annotation4 items
2 HAMP#2
306-375 aa · 70 aa · 11.6% of protein
Raw token
HAMP:306:0.00000000000106:375:70:693 His_kinase#3
390-469 aa · 80 aa · 13.3% of protein
Raw token
His_kinase:390:2.54e-36:469:80:804 HATPase_c#4
485-591 aa · 107 aa · 17.8% of protein
Raw token
HATPase_c:485:0.00000000000000356:591:111:109- Raw architecture: dCache_1:44:1.92e-19:287:248:195#HAMP:306:0.00000000000106:375:70:69#His_kinase:390:2.54e-36:469:80:80#HATPase_c:485:0.00000000000000356:591:111:109
- Domain description: 1 dCache_1,1 HAMP,1 His_kinase,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_002865385::NZ_NIHV01000011.1::G00007
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span87386-90799Genomic interval covered by the local TCS group.
Identifiers
Old locus tagCDL21_08720RefSeq proteinWP_180955784.1
Context group ID
GCF_002865385::NZ_NIHV01000011.1::G00007Context members
CDL21_RS08715CDL21_RS08720
Partner locus tags
CDL21_RS08715CDL21_RS08720
Partner old locus tags
CDL21_08715CDL21_08720
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
No UniProt / GO / PubMed mapping was found for WP_180955784.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagCDL21_RS08720Primary locus identifier stored in the genes table.
Old locus tagCDL21_08720Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_NIHV01000011.1Sequence record reported by the local genomic context database.
Genomic interval88 994-90 799 nt1 806 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span87 386-90 799 ntGCF_002865385::NZ_NIHV01000011.1::G00007
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_002865385::NZ_NIHV01000011.1::G00007Graphic 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_NIHV01000011.1All displayed genes belong to this local TCS context.
Neighborhood span87 386-90 799 nt3 414 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
87 386 nt90 799 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
CDL21_RS08715GCF_002865385#CDL21_RS08715
RRunclassified
87 386-88 990 nt · Forward (+)
CDL21_RS08720GCF_002865385#CDL21_RS08720
HKClassicCurrent focus
88 994-90 799 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_002865305#CDL24_RS08500Use this link to inspect the representative gene detail.
PFAM architecturedCache_1 + HAMP + His_kinase + HATPase_c4 domains in the representative PFAM annotation.
PFAM architecture for HKOC_1048518
Simplified PFAM architecture for HKOC_1048518
PFAM domain coverage: 480 / 601 aa (79.9%)
1 aa601 aa
dCache_1HAMPHis_kinaseHATPase_c
- Simplified architecture: dCache_1 + HAMP + His_kinase + HATPase_c
- Raw architecture: dCache_1[45-287] | HAMP[322-374] | His_kinase[390-469] | HATPase_c[488-591]
- Domain count: 4
- Matched identifier: HKOC_1048518
- Positioned domains: dCache_1 45-287 ; HAMP 322-374 ; His_kinase 390-469 ; HATPase_c 488-591
Cluster members and taxonomy
Representative gene: GCF_002865305#CDL24_RS08500
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 33 038 · GCF_002865385
AssemblyASM286538v1 · Scaffoldhaploid
Genome composition3 060 122 bp · 43,0% GCMediterraneibacter gnavus
Signal transduction countsGenes 84 · HK 40 · RR 43CheA 0 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderLachnospiralesFamilyLachnospiraceaeGenusMediterraneibacter
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Lachnospirales6Lachnospiraceae7Mediterraneibacter
Related genes
Preview from the same derived genome key