1 Response_reg#1
5-112 aa · 108 aa · 48.0% of protein
Raw token
Response_reg:5:6.28e-26:112:109:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
ITJ18_RS07940
Response regulator OmpR family
Clostridioides difficile · GCF_015352355
ClassRRTypeOmpRLength225 aaTM0ValidatedNoCompleteYesContextpentad
Gene IDGCF_015352355#ITJ18_RS07940Stable P2CS identifier used across views.
GenomeGCF_015352355Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length225 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage185 / 225 aa (82.2%)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 aa225 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
147-223 aa · 77 aa · 34.2% of protein
Raw token
Trans_reg_C:147:1.15e-29:223:77:77- Raw architecture: Response_reg:5:6.28e-26:112:109:111#Trans_reg_C:147:1.15e-29:223:77:77
- 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 labelpentadGCF_015352355::NZ_JADKRA010000028.1::G00030
Group size55 locus tags listed below.
HK / RR2 / 3Counts resolved for the local TCS neighborhood.
Context span11376-17101Genomic interval covered by the local TCS group.
Identifiers
Old locus tagITJ18_07945RefSeq proteinWP_009891739.1
Context group ID
GCF_015352355::NZ_JADKRA010000028.1::G00030Context members
ITJ18_RS07940ITJ18_RS07945ITJ18_RS07950ITJ18_RS07955ITJ18_RS07960
Partner locus tags
ITJ18_RS07940ITJ18_RS07945ITJ18_RS07950ITJ18_RS07955ITJ18_RS07960
Partner old locus tags
ITJ18_07945ITJ18_07950ITJ18_07955ITJ18_07960ITJ18_07965
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009891739.1Primary protein accession used for annex mappings.
UniProt accessionA0A0H3N6D2Primary UniProt accession resolved in the annex database.
UniProt IDA0A0H3N6D2_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 tagITJ18_RS07940Primary locus identifier stored in the genes table.
Old locus tagITJ18_07945Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JADKRA010000028.1Sequence record reported by the local genomic context database.
Genomic interval11 376-12 053 nt678 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span11 376-17 101 ntGCF_015352355::NZ_JADKRA010000028.1::G00030
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_015352355::NZ_JADKRA010000028.1::G00030Graphic view
Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.
Context labelpentadNeighborhood members are ordered by genomic coordinates.
Contig / repliconNZ_JADKRA010000028.1All displayed genes belong to this local TCS context.
Neighborhood span11 376-17 101 nt5 726 nt
Members51 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
11 376 nt17 101 nt
Neighborhood gene cards
5 genes in the current local neighborhood.
ITJ18_RS07940GCF_015352355#ITJ18_RS07940
RROmpRCurrent focus
11 376-12 053 nt · Forward (+)
ITJ18_RS07945GCF_015352355#ITJ18_RS07945
HKClassic
12 125-14 140 nt · Forward (+)
ITJ18_RS07950GCF_015352355#ITJ18_RS07950
RROmpR
14 190-14 870 nt · Forward (+)
ITJ18_RS07955GCF_015352355#ITJ18_RS07955
RROmpR
15 252-15 950 nt · Forward (+)
ITJ18_RS07960GCF_015352355#ITJ18_RS07960
HKClassic
15 986-17 101 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003215#QAC_RS0216535Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1462539
Simplified PFAM architecture for RROC_1462539
PFAM domain coverage: 185 / 225 aa (82.2%)
1 aa225 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[5-112] | Trans_reg_C[147-223]
- Domain count: 2
- Matched identifier: RROC_1462539
- Positioned domains: Response_reg 5-112 ; Response_reg 5-112 ; Trans_reg_C 147-223 ; Trans_reg_C 147-223
Cluster members and taxonomy
Representative gene: GCF_000003215#QAC_RS0216535
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_015352355
AssemblyASM1535235v1 · Scaffoldhaploid
Genome composition4 181 959 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 107 · HK 50 · RR 57CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key