1 dCache_1#1
48-264 aa · 217 aa · 38.1% of protein
Raw token
dCache_1:48:0.000000000000105:264:228:195P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF1201_RS08640
Histidine kinase, Classic
Mediterraneibacter gnavus CC55_001C · GCF_000507805
ClassHKTypeClassicLength569 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000507805#HMPREF1201_RS08640Stable P2CS identifier used across views.
GenomeGCF_000507805Bacteria; Bacillati; Bacillota; Clostridia; Lachnospirales; Lachnospiraceae; Mediterraneibacter
Domain signature
Compact overview inferred from the domain field
dCache_1HAMPHis_kinaseHATPase_c
Protein length569 aaLength used to scale native and Biotite-like views.
Annotated domains44 with usable coordinates.
Domain coverage464 / 569 aa (81.5%)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 aa569 aa
Domain-by-domain annotation4 items
2 HAMP#2
283-348 aa · 66 aa · 11.6% of protein
Raw token
HAMP:283:0.00000362:348:67:693 His_kinase#3
369-446 aa · 78 aa · 13.7% of protein
Raw token
His_kinase:369:1.43e-26:446:78:804 HATPase_c#4
462-564 aa · 103 aa · 18.1% of protein
Raw token
HATPase_c:462:0.00000000104:564:117:109- Raw architecture: dCache_1:48:0.000000000000105:264:228:195#HAMP:283:0.00000362:348:67:69#His_kinase:369:1.43e-26:446:78:80#HATPase_c:462:0.00000000104:564:117:109
- 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_000507805::NZ_KI669415.1::G00025
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span669896-673101Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF1201_01744RefSeq proteinWP_009244102.1
Context group ID
GCF_000507805::NZ_KI669415.1::G00025Context members
HMPREF1201_RS08640HMPREF1201_RS08645
Partner locus tags
HMPREF1201_RS08640HMPREF1201_RS08645
Partner old locus tags
HMPREF1201_01744HMPREF1201_01745
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009244102.1Primary protein accession used for annex mappings.
UniProt accessionA0A829NTI0Primary UniProt accession resolved in the annex database.
UniProt IDA0A829NTI0_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 tagHMPREF1201_RS08640Primary locus identifier stored in the genes table.
Old locus tagHMPREF1201_01744Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_KI669415.1Sequence record reported by the local genomic context database.
Genomic interval669 896-671 605 nt1 710 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span669 896-673 101 ntGCF_000507805::NZ_KI669415.1::G00025
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000507805::NZ_KI669415.1::G00025Graphic 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_KI669415.1All displayed genes belong to this local TCS context.
Neighborhood span669 896-673 101 nt3 206 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
669 896 nt673 101 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF1201_RS08640GCF_000507805#HMPREF1201_RS08640
HKClassicCurrent focus
669 896-671 605 nt · Forward (+)
HMPREF1201_RS08645GCF_000507805#HMPREF1201_RS08645
RRunclassified
671 596-673 101 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000507805#HMPREF1201_RS08640The current gene is the representative for this cluster.
PFAM architectureHis_kinase + HATPase_c2 domains in the representative PFAM annotation.
PFAM architecture for HKOC_1216849
Simplified PFAM architecture for HKOC_1216849
PFAM domain coverage: 178 / 569 aa (31.3%)
1 aa569 aa
His_kinaseHATPase_c
- Simplified architecture: His_kinase + HATPase_c
- Raw architecture: His_kinase[368-445] | HATPase_c[464-563]
- Domain count: 2
- Matched identifier: HKOC_1216849
- Positioned domains: His_kinase 368-445 ; HATPase_c 464-563
Cluster members and taxonomy
Representative gene: GCF_000507805#HMPREF1201_RS08640
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 073 375 · GCF_000507805
AssemblyRumi_gnav_CC55_001C_V1 · Scaffoldhaploid
Genome composition3 181 861 bp · 43,0% GCMediterraneibacter gnavus CC55_001C
Signal transduction countsGenes 78 · HK 37 · RR 40CheA 0 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderLachnospiralesFamilyLachnospiraceaeGenusMediterraneibacter
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Lachnospirales6Lachnospiraceae7Mediterraneibacter
Related genes
Preview from the same derived genome key