1 dCache_1#1
44-287 aa · 244 aa · 40.6% of protein
Raw token
dCache_1:44:1.75e-19:287:248:195P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
CDL25_RS08925
Histidine kinase, Classic
Mediterraneibacter gnavus · GCF_002865355
ClassHKTypeClassicLength601 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_002865355#CDL25_RS08925Stable P2CS identifier used across views.
GenomeGCF_002865355Bacteria; 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 coverage505 / 601 aa (84.0%)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:306:0.00000000000104:375:70:693 His_kinase#3
390-469 aa · 80 aa · 13.3% of protein
Raw token
His_kinase:390:2.78e-36:469:80:804 HATPase_c#4
481-591 aa · 111 aa · 18.5% of protein
Raw token
HATPase_c:481:6.74e-16:591:115:109- Raw architecture: dCache_1:44:1.75e-19:287:248:195#HAMP:306:0.00000000000104:375:70:69#His_kinase:390:2.78e-36:469:80:80#HATPase_c:481:6.74e-16:591:115:109
- 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_002865355::NZ_NIHR01000014.1::G00008
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span28218-31631Genomic interval covered by the local TCS group.
Identifiers
Old locus tagCDL25_08915RefSeq proteinWP_023924249.1
Context group ID
GCF_002865355::NZ_NIHR01000014.1::G00008Context members
CDL25_RS08920CDL25_RS08925
Partner locus tags
CDL25_RS08920CDL25_RS08925
Partner old locus tags
CDL25_08910CDL25_08915
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_023924249.1Primary protein accession used for annex mappings.
UniProt accessionA0A829NH68Primary UniProt accession resolved in the annex database.
UniProt IDA0A829NH68_MEDG5Display identifier provided by UniProt.
GO / PubMed2 / 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 tagCDL25_RS08925Primary locus identifier stored in the genes table.
Old locus tagCDL25_08915Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_NIHR01000014.1Sequence record reported by the local genomic context database.
Genomic interval29 826-31 631 nt1 806 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span28 218-31 631 ntGCF_002865355::NZ_NIHR01000014.1::G00008
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_002865355::NZ_NIHR01000014.1::G00008Graphic 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_NIHR01000014.1All displayed genes belong to this local TCS context.
Neighborhood span28 218-31 631 nt3 414 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
28 218 nt31 631 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
CDL25_RS08920GCF_002865355#CDL25_RS08920
RRunclassified
28 218-29 822 nt · Forward (+)
CDL25_RS08925GCF_002865355#CDL25_RS08925
HKClassicCurrent focus
29 826-31 631 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000169475#RUMGNA_RS04660Use 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_1047501
Simplified PFAM architecture for HKOC_1047501
PFAM domain coverage: 484 / 601 aa (80.5%)
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[484-591]
- Domain count: 4
- Matched identifier: HKOC_1047501
- Positioned domains: dCache_1 45-287 ; HAMP 322-374 ; His_kinase 390-469 ; HATPase_c 484-591
Cluster members and taxonomy
Representative gene: GCF_000169475#RUMGNA_RS04660
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 33 038 · GCF_002865355
AssemblyASM286535v1 · Scaffoldhaploid
Genome composition3 415 781 bp · 43,0% GCMediterraneibacter gnavus
Signal transduction countsGenes 83 · HK 39 · 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