1 Response_reg#1
5-116 aa · 112 aa · 48.7% of protein
Raw token
Response_reg:5:1.95e-34:116:112:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF1122_RS14080
Response regulator OmpR family
Clostridioides difficile 002-P50-2011 · GCF_000235825
ClassRRTypeOmpRLength230 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000235825#HMPREF1122_RS14080Stable P2CS identifier used across views.
GenomeGCF_000235825Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length230 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage188 / 230 aa (81.7%)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
Biotite-like viewServer-side Python rendering inspired by the Biotite sigma-domain example.
Domain-by-domain annotation2 items
2 Trans_reg_C#2
154-229 aa · 76 aa · 33.0% of protein
Raw token
Trans_reg_C:154:2.87e-36:229:76:77- Raw architecture: Response_reg:5:1.95e-34:116:112:111#Trans_reg_C:154:2.87e-36:229:76:77
- 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_000235825::NZ_JH379533.1::G00014
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span39393-41403Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF1122_00907RefSeq proteinWP_003416112.1
Context group ID
GCF_000235825::NZ_JH379533.1::G00014Context members
HMPREF1122_RS14085HMPREF1122_RS14080
Partner locus tags
HMPREF1122_RS14085HMPREF1122_RS14080
Partner old locus tags
HMPREF1122_00906HMPREF1122_00907
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003416112.1Primary protein accession used for annex mappings.
UniProt accessionD5Q206Primary UniProt accession resolved in the annex database.
UniProt IDD5Q206_CLODIDisplay identifier provided by UniProt.
GO / PubMed5 / 0Unique GO terms and literature references available below.
Reference hubs
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagHMPREF1122_RS14080Primary locus identifier stored in the genes table.
Old locus tagHMPREF1122_00907Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JH379533.1Sequence record reported by the local genomic context database.
Genomic interval40 711-41 403 nt693 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span39 393-41 403 ntGCF_000235825::NZ_JH379533.1::G00014
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000235825::NZ_JH379533.1::G00014Graphic 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_JH379533.1All displayed genes belong to this local TCS context.
Neighborhood span39 393-41 403 nt2 011 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
39 393 nt41 403 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF1122_RS14085GCF_000235825#HMPREF1122_RS14085
HKClassic
39 393-40 682 nt · Reverse (-)
HMPREF1122_RS14080GCF_000235825#HMPREF1122_RS14080
RROmpRCurrent focus
40 711-41 403 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003215#QAC_RS0213320Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1199617
Simplified PFAM architecture for RROC_1199617
PFAM domain coverage: 187 / 230 aa (81.3%)
1 aa230 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[5-116] | Trans_reg_C[154-228]
- Domain count: 2
- Matched identifier: RROC_1199617
- Positioned domains: Response_reg 5-116 ; Response_reg 5-116 ; Trans_reg_C 154-228 ; Trans_reg_C 154-228
Cluster members and taxonomy
Representative gene: GCF_000003215#QAC_RS0213320
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 997 827 · GCF_000235825
AssemblyASM23582v1 · Scaffoldhaploid
Genome composition4 103 061 bp · 28,5% GCClostridioides difficile 002-P50-2011
Signal transduction countsGenes 100 · HK 48 · RR 52CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key