1 HAMP#1
50-120 aa · 71 aa · 20.5% of protein
Raw token
HAMP:50:0.0000000000015:120:71:69P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
LD38_RS04135
Histidine kinase, Classic
Agathobacter rectalis · GCF_003122495
ClassHKTypeClassicLength346 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_003122495#LD38_RS04135Stable P2CS identifier used across views.
GenomeGCF_003122495Bacteria; Bacillati; Bacillota; Clostridia; Lachnospirales; Lachnospiraceae; Agathobacter
Domain signature
Compact overview inferred from the domain field
HAMPHisKAHATPase_c
Protein length346 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage245 / 346 aa (70.8%)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
Native P2CS viewFrontend rendering from the parsed domain string and TMPRED protein features.
1 aa346 aa
Domain-by-domain annotation3 items
2 HisKA#2
127-189 aa · 63 aa · 18.2% of protein
Raw token
HisKA:127:0.00000000000000323:189:63:643 HATPase_c#3
233-343 aa · 111 aa · 32.1% of protein
Raw token
HATPase_c:233:8.86e-29:343:111:109- Raw architecture: HAMP:50:0.0000000000015:120:71:69#HisKA:127:0.00000000000000323:189:63:64#HATPase_c:233:8.86e-29:343:111:109
- 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_003122495::NZ_JRFS01000004.1::G00042
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span130960-132671Genomic interval covered by the local TCS group.
Identifiers
Old locus tagLD38_04210RefSeq proteinWP_109257436.1
Context group ID
GCF_003122495::NZ_JRFS01000004.1::G00042Context members
LD38_RS04135LD38_RS04140
Partner locus tags
LD38_RS04135LD38_RS04140
Partner old locus tags
LD38_04210LD38_04215
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_109257436.1Primary protein accession used for annex mappings.
UniProt accessionA0A2U2EJ70Primary UniProt accession resolved in the annex database.
UniProt IDA0A2U2EJ70_9FIRMDisplay 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 tagLD38_RS04135Primary locus identifier stored in the genes table.
Old locus tagLD38_04210Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JRFS01000004.1Sequence record reported by the local genomic context database.
Genomic interval130 960-132 000 nt1 041 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span130 960-132 671 ntGCF_003122495::NZ_JRFS01000004.1::G00042
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_003122495::NZ_JRFS01000004.1::G00042Graphic 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_JRFS01000004.1All displayed genes belong to this local TCS context.
Neighborhood span130 960-132 671 nt1 712 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
130 960 nt132 671 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
LD38_RS04135GCF_003122495#LD38_RS04135
HKClassicCurrent focus
130 960-132 000 nt · Reverse (-)
LD38_RS04140GCF_003122495#LD38_RS04140
RROmpR
132 000-132 671 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_003122495#LD38_RS04135The current gene is the representative for this cluster.
PFAM architectureHAMP + HisKA + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_2816214
Simplified PFAM architecture for HKOC_2816214
PFAM domain coverage: 224 / 346 aa (64.7%)
1 aa346 aa
HAMPHisKAHATPase_c
- Simplified architecture: HAMP + HisKA + HATPase_c
- Raw architecture: HAMP[68-120] | HisKA[126-188] | HATPase_c[235-342]
- Domain count: 3
- Matched identifier: HKOC_2816214
- Positioned domains: HAMP 68-120 ; HisKA 126-188 ; HATPase_c 235-342
Cluster members and taxonomy
Representative gene: GCF_003122495#LD38_RS04135
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 39 491 · GCF_003122495
AssemblyASM312249v1 · Contighaploid
Genome composition3 345 225 bp · 41,5% GCAgathobacter rectalis
Signal transduction countsGenes 91 · HK 40 · RR 50CheA 1 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderLachnospiralesFamilyLachnospiraceaeGenusAgathobacter
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Lachnospirales6Lachnospiraceae7Agathobacter
Related genes
Preview from the same derived genome key