1 PAS_3#1
502-558 aa · 57 aa · 4.4% of protein
Raw token
PAS_3:502:0.000000000524:558:60:89P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
I2D69_RS02490
Histidine kinase, Hybrid
Ruminococcus sp. D54t1_190329_F1 · GCF_015551645
ClassHKTypeHybridLength1297 aaTM0ValidatedNoCompleteYesContextorphan
Gene IDGCF_015551645#I2D69_RS02490Stable P2CS identifier used across views.
GenomeGCF_015551645Bacteria; Bacillati; Bacillota; Clostridia; Eubacteriales; Oscillospiraceae; Ruminococcus
Domain signature
Compact overview inferred from the domain field
PAS_3GGDEFHisKAHATPase_cResponse_reg
Protein length1297 aaLength used to scale native and Biotite-like views.
Annotated domains55 with usable coordinates.
Domain coverage483 / 1297 aa (37.2%)Merged over positioned domains only.
Domain description1 PAS_3,1 GGDEF,1 HisKA,1 HATPase_c,1 Response_regSummary 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 aa1297 aa
Domain-by-domain annotation5 items
2 GGDEF#2
605-728 aa · 124 aa · 9.6% of protein
Raw token
GGDEF:605:0.00000313:728:134:1603 HisKA#3
925-991 aa · 67 aa · 5.2% of protein
Raw token
HisKA:925:2.86e-19:991:67:644 HATPase_c#4
1037-1154 aa · 118 aa · 9.1% of protein
Raw token
HATPase_c:1037:3.45e-30:1154:118:1095 Response_reg#5
1176-1292 aa · 117 aa · 9.0% of protein
Raw token
Response_reg:1176:2.72e-30:1292:117:111- Raw architecture: PAS_3:502:0.000000000524:558:60:89#GGDEF:605:0.00000313:728:134:160#HisKA:925:2.86e-19:991:67:64#HATPase_c:1037:3.45e-30:1154:118:109#Response_reg:1176:2.72e-30:1292:117:111
- Domain description: 1 PAS_3,1 GGDEF,1 HisKA,1 HATPase_c,1 Response_reg
- 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 labelorphanGCF_015551645::NZ_JADNDC010000004.1::G00057
Group size11 locus tag listed below.
HK / RR1 / 0Counts resolved for the local TCS neighborhood.
Context span40331-44224Genomic interval covered by the local TCS group.
Identifiers
Context group ID
GCF_015551645::NZ_JADNDC010000004.1::G00057Context members
I2D69_RS02490
Partner locus tags
I2D69_RS02490
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_195379337.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagI2D69_RS02490Primary locus identifier stored in the genes table.
Old locus tagUnavailableNo previous locus tag available for this gene.
Contig / repliconNZ_JADNDC010000004.1Sequence record reported by the local genomic context database.
Genomic interval40 331-44 224 nt3 894 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span40 331-44 224 ntGCF_015551645::NZ_JADNDC010000004.1::G00057
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_015551645::NZ_JADNDC010000004.1::G00057Graphic view
Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.
Context labelorphanNeighborhood members are ordered by genomic coordinates.
Contig / repliconNZ_JADNDC010000004.1All displayed genes belong to this local TCS context.
Neighborhood span40 331-44 224 nt3 894 nt
Members11 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
40 331 nt44 224 nt
Neighborhood gene cards
1 gene in the current local neighborhood.
I2D69_RS02490GCF_015551645#I2D69_RS02490
HKHybridCurrent focus
40 331-44 224 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_015551645#I2D69_RS02490The current gene is the representative for this cluster.
PFAM architecturePAS_3 + GGDEF + HisKA + HATPase_c + Response_reg5 domains in the representative PFAM annotation.
PFAM architecture for HKOC_0125041
Simplified PFAM architecture for HKOC_0125041
PFAM domain coverage: 485 / 1297 aa (37.4%)
1 aa1297 aa
PAS_3GGDEFHisKAHATPase_cResponse_reg
- Simplified architecture: PAS_3 + GGDEF + HisKA + HATPase_c + Response_reg
- Raw architecture: PAS_3[502-559] | GGDEF[600-727] | HisKA[925-991] | HATPase_c[1038-1153] | Response_reg[1176-1291]
- Domain count: 5
- Matched identifier: HKOC_0125041
- Positioned domains: PAS_3 502-559 ; GGDEF 600-727 ; HisKA 925-991 ; HATPase_c 1038-1153 ; Response_reg 1176-1291
Cluster members and taxonomy
Representative gene: GCF_015551645#I2D69_RS02490
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 2 787 114 · GCF_015551645
AssemblyASM1555164v1 · Scaffoldhaploid
Genome composition4 332 946 bp · 43,0% GCRuminococcus sp. D54t1_190329_F1
Signal transduction countsGenes 138 · HK 68 · RR 69CheA 0 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderEubacterialesFamilyOscillospiraceaeGenusRuminococcus
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Eubacteriales6Oscillospiraceae7Ruminococcus
Related genes
Preview from the same derived genome key