1 dCache_1#1
42-245 aa · 204 aa · 35.7% of protein
Raw token
dCache_1:42:0.00000000375:245:208:195P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
CDL25_RS05280
Histidine kinase, Classic
Mediterraneibacter gnavus · GCF_002865355
ClassHKTypeClassicLength572 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_002865355#CDL25_RS05280Stable 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 length572 aaLength used to scale native and Biotite-like views.
Annotated domains44 with usable coordinates.
Domain coverage459 / 572 aa (80.2%)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 aa572 aa
Domain-by-domain annotation4 items
2 HAMP#2
281-351 aa · 71 aa · 12.4% of protein
Raw token
HAMP:281:0.00000036:351:71:693 His_kinase#3
367-446 aa · 80 aa · 14.0% of protein
Raw token
His_kinase:367:3.07e-29:446:80:804 HATPase_c#4
463-566 aa · 104 aa · 18.2% of protein
Raw token
HATPase_c:463:0.000000000000937:566:110:109- Raw architecture: dCache_1:42:0.00000000375:245:208:195#HAMP:281:0.00000036:351:71:69#His_kinase:367:3.07e-29:446:80:80#HATPase_c:463:0.000000000000937:566:110:109
- 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_NIHR01000007.1::G00046
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span44827-48059Genomic interval covered by the local TCS group.
Identifiers
Old locus tagCDL25_05280RefSeq proteinWP_009244016.1
Context group ID
GCF_002865355::NZ_NIHR01000007.1::G00046Context members
CDL25_RS05280CDL25_RS05285
Partner locus tags
CDL25_RS05280CDL25_RS05285
Partner old locus tags
CDL25_05280CDL25_05285
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009244016.1Primary protein accession used for annex mappings.
UniProt accessionA0A829NNJ7Primary UniProt accession resolved in the annex database.
UniProt IDA0A829NNJ7_MEDG5Display 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 tagCDL25_RS05280Primary locus identifier stored in the genes table.
Old locus tagCDL25_05280Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_NIHR01000007.1Sequence record reported by the local genomic context database.
Genomic interval44 827-46 545 nt1 719 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span44 827-48 059 ntGCF_002865355::NZ_NIHR01000007.1::G00046
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_002865355::NZ_NIHR01000007.1::G00046Graphic 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_NIHR01000007.1All displayed genes belong to this local TCS context.
Neighborhood span44 827-48 059 nt3 233 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
44 827 nt48 059 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
CDL25_RS05280GCF_002865355#CDL25_RS05280
HKClassicCurrent focus
44 827-46 545 nt · Forward (+)
CDL25_RS05285GCF_002865355#CDL25_RS05285
RRunclassified
46 533-48 059 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000169475#RUMGNA_RS06030Use this link to inspect the representative gene detail.
PFAM architecturedCache_1 + His_kinase + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_1202197
Simplified PFAM architecture for HKOC_1202197
PFAM domain coverage: 384 / 572 aa (67.1%)
1 aa572 aa
dCache_1His_kinaseHATPase_c
- Simplified architecture: dCache_1 + His_kinase + HATPase_c
- Raw architecture: dCache_1[43-245] | His_kinase[367-446] | HATPase_c[465-565]
- Domain count: 3
- Matched identifier: HKOC_1202197
- Positioned domains: dCache_1 43-245 ; His_kinase 367-446 ; HATPase_c 465-565
Cluster members and taxonomy
Representative gene: GCF_000169475#RUMGNA_RS06030
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