1 HAMP#1
252-320 aa · 69 aa · 10.8% of protein
Raw token
HAMP:252:8.39e-16:320:69:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BIFBRE_RS01625
Histidine kinase, Classic
Bifidobacterium breve DSM 20213 = JCM 1192 · GCF_000158015
ClassHKTypeClassicLength641 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000158015#BIFBRE_RS01625Stable P2CS identifier used across views.
GenomeGCF_000158015Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
HAMPHisKAHATPase_c
Protein length641 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage287 / 641 aa (44.8%)Merged over positioned domains only.
Domain description1 HAMP,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
332-401 aa · 70 aa · 10.9% of protein
Raw token
HisKA:332:6.84e-18:401:70:643 HATPase_c#3
465-612 aa · 148 aa · 23.1% of protein
Raw token
HATPase_c:465:5.41e-21:612:148:109- Raw architecture: HAMP:252:8.39e-16:320:69:69#HisKA:332:6.84e-18:401:70:64#HATPase_c:465:5.41e-21:612:148:109
- Domain description: 1 HAMP,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_000158015::NZ_GG729831.1::G00003
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span533280-536013Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBIFBRE_04695RefSeq proteinWP_003830297.1
Context group ID
GCF_000158015::NZ_GG729831.1::G00003Context members
BIFBRE_RS01630BIFBRE_RS01625
Partner locus tags
BIFBRE_RS01630BIFBRE_RS01625
Partner old locus tags
BIFBRE_04694BIFBRE_04695
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003830297.1Primary protein accession used for annex mappings.
UniProt accessionD4BRF9Primary UniProt accession resolved in the annex database.
UniProt IDD4BRF9_BIFBRDisplay 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 tagBIFBRE_RS01625Primary locus identifier stored in the genes table.
Old locus tagBIFBRE_04695Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_GG729831.1Sequence record reported by the local genomic context database.
Genomic interval534 055-536 013 nt1 959 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span533 280-536 013 ntGCF_000158015::NZ_GG729831.1::G00003
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000158015::NZ_GG729831.1::G00003Graphic 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_GG729831.1All displayed genes belong to this local TCS context.
Neighborhood span533 280-536 013 nt2 734 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
533 280 nt536 013 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
BIFBRE_RS01630GCF_000158015#BIFBRE_RS01630
RROmpR
533 280-534 011 nt · Forward (+)
BIFBRE_RS01625GCF_000158015#BIFBRE_RS01625
HKClassicCurrent focus
534 055-536 013 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_001025175#BBBR_RS07180Use this link to inspect the representative gene detail.
PFAM architectureHAMP + HisKA + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0892182
Simplified PFAM architecture for HKOC_0892182
PFAM domain coverage: 268 / 652 aa (41.1%)
1 aa652 aa
HAMPHisKAHATPase_c
- Simplified architecture: HAMP + HisKA + HATPase_c
- Raw architecture: HAMP[280-331] | HisKA[344-412] | HATPase_c[476-622]
- Domain count: 3
- Matched identifier: HKOC_0892182
- Positioned domains: HAMP 280-331 ; HisKA 344-412 ; HATPase_c 476-622
Cluster members and taxonomy
Representative gene: GCF_001025175#BBBR_RS07180
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 518 634 · GCF_000158015
AssemblyASM15801v1 · Scaffoldhaploid
Genome composition2 331 386 bp · 58,5% GCBifidobacterium breve DSM 20213 = JCM 1192
Signal transduction countsGenes 27 · HK 10 · RR 15CheA 0 · PP 2
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key