1 dCache_1#1
42-221 aa · 180 aa · 31.5% of protein
Raw token
dCache_1:42:0.00000721:221:181:195P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
G4978_RS09405
Histidine kinase, Classic
Mediterraneibacter gnavus · GCF_013303465
ClassHKTypeClassicLength571 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_013303465#G4978_RS09405Stable P2CS identifier used across views.
GenomeGCF_013303465Bacteria; Bacillati; Bacillota; Clostridia; Lachnospirales; Lachnospiraceae; Mediterraneibacter
Domain signature
Compact overview inferred from the domain field
dCache_1HAMPHis_kinaseHATPase_c
Protein length571 aaLength used to scale native and Biotite-like views.
Annotated domains44 with usable coordinates.
Domain coverage430 / 571 aa (75.3%)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 aa571 aa
Domain-by-domain annotation4 items
2 HAMP#2
281-347 aa · 67 aa · 11.7% of protein
Raw token
HAMP:281:0.0000000000104:347:67:693 His_kinase#3
362-441 aa · 80 aa · 14.0% of protein
Raw token
His_kinase:362:1.97e-28:441:80:804 HATPase_c#4
458-560 aa · 103 aa · 18.0% of protein
Raw token
HATPase_c:458:0.00000000000015:560:112:109- Raw architecture: dCache_1:42:0.00000721:221:181:195#HAMP:281:0.0000000000104:347:67:69#His_kinase:362:1.97e-28:441:80:80#HATPase_c:458:0.00000000000015:560:112:109
- 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_013303465::NZ_JAAIRI010000014.1::G00007
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span33133-36358Genomic interval covered by the local TCS group.
Identifiers
Old locus tagG4978_09355RefSeq proteinWP_022037122.1
Context group ID
GCF_013303465::NZ_JAAIRI010000014.1::G00007Context members
G4978_RS09405G4978_RS09410
Partner locus tags
G4978_RS09405G4978_RS09410
Partner old locus tags
G4978_09355G4978_09360
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_022037122.1Primary protein accession used for annex mappings.
UniProt accessionA0A412NFL5Primary UniProt accession resolved in the annex database.
UniProt IDA0A412NFL5_MEDGNDisplay identifier provided by UniProt.
GO / PubMed2 / 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 tagG4978_RS09405Primary locus identifier stored in the genes table.
Old locus tagG4978_09355Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAAIRI010000014.1Sequence record reported by the local genomic context database.
Genomic interval33 133-34 848 nt1 716 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span33 133-36 358 ntGCF_013303465::NZ_JAAIRI010000014.1::G00007
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_013303465::NZ_JAAIRI010000014.1::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_JAAIRI010000014.1All displayed genes belong to this local TCS context.
Neighborhood span33 133-36 358 nt3 226 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
33 133 nt36 358 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
G4978_RS09405GCF_013303465#G4978_RS09405
HKClassicCurrent focus
33 133-34 848 nt · Reverse (-)
G4978_RS09410GCF_013303465#G4978_RS09410
RRunclassified
34 820-36 358 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_001406655#ARA00_RS12340Use this link to inspect the representative gene detail.
PFAM architectureHAMP + His_kinase + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_1207823
Simplified PFAM architecture for HKOC_1207823
PFAM domain coverage: 230 / 571 aa (40.3%)
1 aa571 aa
HAMPHis_kinaseHATPase_c
- Simplified architecture: HAMP + His_kinase + HATPase_c
- Raw architecture: HAMP[295-346] | His_kinase[363-439] | HATPase_c[459-559]
- Domain count: 3
- Matched identifier: HKOC_1207823
- Positioned domains: HAMP 295-346 ; His_kinase 363-439 ; HATPase_c 459-559
Cluster members and taxonomy
Representative gene: GCF_001406655#ARA00_RS12340
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 33 038 · GCF_013303465
AssemblyASM1330346v1 · Contighaploid
Genome composition3 848 275 bp · 42,5% GCMediterraneibacter gnavus
Signal transduction countsGenes 107 · HK 52 · RR 54CheA 0 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderLachnospiralesFamilyLachnospiraceaeGenusMediterraneibacter
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Lachnospirales6Lachnospiraceae7Mediterraneibacter
Related genes
Preview from the same derived genome key