1 Response_reg#1
5-115 aa · 111 aa · 47.8% of protein
Raw token
Response_reg:5:2.29e-32:115:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
Y_RS16875
Response regulator OmpR family
Yersinia pestis KIM10+ · GCF_000006645
ClassRRTypeOmpRLength232 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000006645#Y_RS16875Stable P2CS identifier used across views.
GenomeGCF_000006645Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Yersiniaceae; Yersinia
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length232 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage183 / 232 aa (78.9%)Merged over positioned domains only.
Domain description1 Response_reg,1 Trans_reg_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 aa232 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
157-228 aa · 72 aa · 31.0% of protein
Raw token
Trans_reg_C:157:3.41e-25:228:72:77- Raw architecture: Response_reg:5:2.29e-32:115:111:111#Trans_reg_C:157:3.41e-25:228:72:77
- Domain description: 1 Response_reg,1 Trans_reg_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_000006645::NC_004088.1::G00027
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span3610259-3612400Genomic interval covered by the local TCS group.
Identifiers
Old locus tagy3280RefSeq proteinWP_002209937.1
Context group ID
GCF_000006645::NC_004088.1::G00027Context members
Y_RS16870Y_RS16875
Partner locus tags
Y_RS16870Y_RS16875
Partner old locus tags
y3279y3280
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_002209937.1Primary protein accession used for annex mappings.
UniProt accessionA0A0H2YKB7Primary UniProt accession resolved in the annex database.
UniProt IDA0A0H2YKB7_YERPNDisplay identifier provided by UniProt.
GO / PubMed6 / 1Unique GO terms and literature references available below.
Reference hubs
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagY_RS16875Primary locus identifier stored in the genes table.
Old locus tagy3280Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_004088.1Sequence record reported by the local genomic context database.
Genomic interval3 611 702-3 612 400 nt699 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span3 610 259-3 612 400 ntGCF_000006645::NC_004088.1::G00027
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000006645::NC_004088.1::G00027Graphic 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 / repliconNC_004088.1All displayed genes belong to this local TCS context.
Neighborhood span3 610 259-3 612 400 nt2 142 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
3 610 259 nt3 612 400 nt
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000006645#Y_RS16875The current gene is the representative for this cluster.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1119299
Simplified PFAM architecture for RROC_1119299
PFAM domain coverage: 184 / 232 aa (79.3%)
1 aa232 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[5-114] | Trans_reg_C[155-228]
- Domain count: 2
- Matched identifier: RROC_1119299
- Positioned domains: Response_reg 5-114 ; Response_reg 5-114 ; Trans_reg_C 155-228 ; Trans_reg_C 155-228
Cluster members and taxonomy
Representative gene: GCF_000006645#Y_RS16875
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 187 410 · GCF_000006645
AssemblyASM664v1 · Complete Genomehaploid
Genome composition4 701 745 bp · 47,5% GCYersinia pestis KIM10+
Signal transduction countsGenes 50 · HK 23 · RR 27CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomPseudomonadatiPhylumPseudomonadotaClassGammaproteobacteriaOrderEnterobacteralesFamilyYersiniaceaeGenusYersinia
Lineage path7 lineage nodes
1Bacteria2Pseudomonadati3Pseudomonadota4Gammaproteobacteria5Enterobacterales6Yersiniaceae7Yersinia
Related genes
Preview from the same derived genome key