1 KdpD#1
5-214 aa · 210 aa · 22.2% of protein
Raw token
KdpD:5:1.51e-121:214:210:210P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
MCC10055_RS05685
Histidine kinase, Classic
Bifidobacterium longum subsp. longum · GCF_004333455
ClassHKTypeClassicLength947 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_004333455#MCC10055_RS05685Stable P2CS identifier used across views.
GenomeGCF_004333455Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
KdpDHisKAHATPase_c
Protein length947 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage387 / 947 aa (40.9%)Merged over positioned domains only.
Domain description1 KdpD,1 HisKA,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
Biotite-like viewServer-side Python rendering inspired by the Biotite sigma-domain example.
Domain-by-domain annotation3 items
2 HisKA#2
644-710 aa · 67 aa · 7.1% of protein
Raw token
HisKA:644:0.00000000124:710:67:643 HATPase_c#3
753-862 aa · 110 aa · 11.6% of protein
Raw token
HATPase_c:753:9.87e-24:862:110:109- Raw architecture: KdpD:5:1.51e-121:214:210:210#HisKA:644:0.00000000124:710:67:64#HATPase_c:753:9.87e-24:862:110:109
- Domain description: 1 KdpD,1 HisKA,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_004333455::NZ_SHRF01000029.1::G00007
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span651-4203Genomic interval covered by the local TCS group.
Identifiers
Old locus tagMCC10055_1059RefSeq proteinWP_131227837.1
Context group ID
GCF_004333455::NZ_SHRF01000029.1::G00007Context members
MCC10055_RS05685MCC10055_RS05690
Partner locus tags
MCC10055_RS05685MCC10055_RS05690
Partner old locus tags
MCC10055_1059MCC10055_1060
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_131227837.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagMCC10055_RS05685Primary locus identifier stored in the genes table.
Old locus tagMCC10055_1059Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_SHRF01000029.1Sequence record reported by the local genomic context database.
Genomic interval651-3 494 nt2 844 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span651-4 203 ntGCF_004333455::NZ_SHRF01000029.1::G00007
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_004333455::NZ_SHRF01000029.1::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_SHRF01000029.1All displayed genes belong to this local TCS context.
Neighborhood span651-4 203 nt3 553 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
651 nt4 203 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
MCC10055_RS05685GCF_004333455#MCC10055_RS05685
HKClassicCurrent focus
651-3 494 nt · Forward (+)
MCC10055_RS05690GCF_004333455#MCC10055_RS05690
RROmpR
3 499-4 203 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_004333455#MCC10055_RS05685The current gene is the representative for this cluster.
PFAM architectureKdpD + Usp + DUF4118 + HisKA + HATPase_c5 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0333034
Simplified PFAM architecture for HKOC_0333034
PFAM domain coverage: 612 / 947 aa (64.6%)
1 aa947 aa
KdpDUspDUF4118HisKAHATPase_c
- Simplified architecture: KdpD + Usp + DUF4118 + HisKA + HATPase_c
- Raw architecture: KdpD[5-214] | Usp[235-358] | DUF4118[388-491] | HisKA[644-709] | HATPase_c[754-861]
- Domain count: 5
- Matched identifier: HKOC_0333034
- Positioned domains: KdpD 5-214 ; Usp 235-358 ; DUF4118 388-491 ; HisKA 644-709 ; HATPase_c 754-861
Cluster members and taxonomy
Representative gene: GCF_004333455#MCC10055_RS05685
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 679 · GCF_004333455
AssemblyASM433345v1 · Contighaploid
Genome composition2 486 026 bp · 60,0% GCBifidobacterium longum subsp. longum
Signal transduction countsGenes 21 · HK 11 · RR 10CheA 0 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key