1 Response_reg#1
3-114 aa · 112 aa · 25.5% of protein
Raw token
Response_reg:3:9.55e-26:114:112:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
GSQ42_RS16185
Response regulator NtrC family
Clostridioides difficile · GCF_012276925
ClassRRTypeNtrCLength440 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_012276925#GSQ42_RS16185Stable P2CS identifier used across views.
GenomeGCF_012276925Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regAAA_5HTH_8
Protein length440 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage271 / 440 aa (61.6%)Merged over positioned domains only.
Domain description1 Response_reg,1 AAA_5,1 HTH_8Summary 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 aa440 aa
Domain-by-domain annotation3 items
2 AAA_5#2
157-275 aa · 119 aa · 27.0% of protein
Raw token
AAA_5:157:0.00000000275:275:128:1353 HTH_8#3
398-437 aa · 40 aa · 9.1% of protein
Raw token
HTH_8:398:0.00000000256:437:40:40- Raw architecture: Response_reg:3:9.55e-26:114:112:111#AAA_5:157:0.00000000275:275:128:135#HTH_8:398:0.00000000256:437:40:40
- Domain description: 1 Response_reg,1 AAA_5,1 HTH_8
- 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_012276925::NZ_JAAXLN010000226.1::G00025
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span2261-5577Genomic interval covered by the local TCS group.
Identifiers
Old locus tagGSQ42_16240RefSeq proteinWP_168318180.1
Context group ID
GCF_012276925::NZ_JAAXLN010000226.1::G00025Context members
GSQ42_RS16180GSQ42_RS16185
Partner locus tags
GSQ42_RS16180GSQ42_RS16185
Partner old locus tags
GSQ42_16235GSQ42_16240
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_168318180.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagGSQ42_RS16185Primary locus identifier stored in the genes table.
Old locus tagGSQ42_16240Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAAXLN010000226.1Sequence record reported by the local genomic context database.
Genomic interval4 255-5 577 nt1 323 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span2 261-5 577 ntGCF_012276925::NZ_JAAXLN010000226.1::G00025
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_012276925::NZ_JAAXLN010000226.1::G00025Graphic 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_JAAXLN010000226.1All displayed genes belong to this local TCS context.
Neighborhood span2 261-5 577 nt3 317 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
2 261 nt5 577 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
GSQ42_RS16180GCF_012276925#GSQ42_RS16180
HKClassic
2 261-4 255 nt · Forward (+)
GSQ42_RS16185GCF_012276925#GSQ42_RS16185
RRNtrCCurrent focus
4 255-5 577 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_012276925#GSQ42_RS16185The current gene is the representative for this cluster.
PFAM architectureResponse_reg + Sigma54_activat + AAA_lid_14 + HTH_84 domains in the representative PFAM annotation.
PFAM architecture for RROC_0334676
Simplified PFAM architecture for RROC_0334676
PFAM domain coverage: 384 / 440 aa (87.3%)
1 aa440 aa
Response_regSigma54_activatAAA_lid_14HTH_8
- Simplified architecture: Response_reg + Sigma54_activat + AAA_lid_14 + HTH_8
- Raw architecture: Response_reg[3-113] | Sigma54_activat[137-300] | AAA_lid_14[306-375] | HTH_8[397-435]
- Domain count: 4
- Matched identifier: RROC_0334676
- Positioned domains: Response_reg 3-113 ; Sigma54_activat 137-300 ; AAA_lid_14 306-375 ; HTH_8 397-435
Cluster members and taxonomy
Representative gene: GCF_012276925#GSQ42_RS16185
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_012276925
AssemblyASM1227692v1 · Contighaploid
Genome composition4 122 348 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 100 · HK 46 · RR 53CheA 1 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key