1 Response_reg#1
4-113 aa · 110 aa · 48.2% of protein
Raw token
Response_reg:4:2.17e-34:113:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
GSQ44_RS04870
Response regulator OmpR family
Clostridioides difficile · GCF_012276965
ClassRRTypeOmpRLength228 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_012276965#GSQ44_RS04870Stable P2CS identifier used across views.
GenomeGCF_012276965Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length228 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage188 / 228 aa (82.5%)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 aa228 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
144-221 aa · 78 aa · 34.2% of protein
Raw token
Trans_reg_C:144:1.09e-29:221:78:77- Raw architecture: Response_reg:4:2.17e-34:113:111:111#Trans_reg_C:144:1.09e-29:221:78:77
- 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_012276965::NZ_JAAXLO010000018.1::G00020
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span5792-7454Genomic interval covered by the local TCS group.
Identifiers
Old locus tagGSQ44_04885RefSeq proteinWP_003434895.1
Context group ID
GCF_012276965::NZ_JAAXLO010000018.1::G00020Context members
GSQ44_RS04870GSQ44_RS04875
Partner locus tags
GSQ44_RS04870GSQ44_RS04875
Partner old locus tags
GSQ44_04885GSQ44_04890
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003434895.1Primary protein accession used for annex mappings.
UniProt accessionA0A0H3N8D6Primary UniProt accession resolved in the annex database.
UniProt IDA0A0H3N8D6_CLODCDisplay identifier provided by UniProt.
GO / PubMed5 / 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 tagGSQ44_RS04870Primary locus identifier stored in the genes table.
Old locus tagGSQ44_04885Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAAXLO010000018.1Sequence record reported by the local genomic context database.
Genomic interval5 792-6 478 nt687 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span5 792-7 454 ntGCF_012276965::NZ_JAAXLO010000018.1::G00020
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_012276965::NZ_JAAXLO010000018.1::G00020Graphic 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_JAAXLO010000018.1All displayed genes belong to this local TCS context.
Neighborhood span5 792-7 454 nt1 663 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
5 792 nt7 454 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
GSQ44_RS04870GCF_012276965#GSQ44_RS04870
RROmpRCurrent focus
5 792-6 478 nt · Forward (+)
GSQ44_RS04875GCF_012276965#GSQ44_RS04875
HKClassic
6 465-7 454 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003215#QAC_RS0218300Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1301498
Simplified PFAM architecture for RROC_1301498
PFAM domain coverage: 188 / 228 aa (82.5%)
1 aa228 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[4-113] | Trans_reg_C[144-221]
- Domain count: 2
- Matched identifier: RROC_1301498
- Positioned domains: Response_reg 4-113 ; Response_reg 4-113 ; Trans_reg_C 144-221 ; Trans_reg_C 144-221
Cluster members and taxonomy
Representative gene: GCF_000003215#QAC_RS0218300
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_012276965
AssemblyASM1227696v1 · Contighaploid
Genome composition4 129 981 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 93 · HK 43 · RR 49CheA 1 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key