1 Response_reg#1
4-113 aa · 110 aa · 46.8% of protein
Raw token
Response_reg:4:5.25e-28:113:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF0219_RS09945
Response regulator OmpR family
Clostridioides difficile NAP07 · GCF_000164655
ClassRRTypeOmpRLength235 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000164655#HMPREF0219_RS09945Stable P2CS identifier used across views.
GenomeGCF_000164655Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length235 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage185 / 235 aa (78.7%)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
151-225 aa · 75 aa · 31.9% of protein
Raw token
Trans_reg_C:151:1.14e-31:225:75:77- Raw architecture: Response_reg:4:5.25e-28:113:111:111#Trans_reg_C:151:1.14e-31:225:75:77
- 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_000164655::NZ_GG770747.1::G00028
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span179666-181677Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF0219_0942RefSeq proteinWP_009905963.1
Context group ID
GCF_000164655::NZ_GG770747.1::G00028Context members
HMPREF0219_RS09945HMPREF0219_RS09940
Partner locus tags
HMPREF0219_RS09945HMPREF0219_RS09940
Partner old locus tags
HMPREF0219_0942HMPREF0219_0943
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009905963.1Primary protein accession used for annex mappings.
UniProt accessionA0AAX3H4G1Primary UniProt accession resolved in the annex database.
UniProt IDA0AAX3H4G1_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 tagHMPREF0219_RS09945Primary locus identifier stored in the genes table.
Old locus tagHMPREF0219_0942Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_GG770747.1Sequence record reported by the local genomic context database.
Genomic interval179 666-180 373 nt708 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span179 666-181 677 ntGCF_000164655::NZ_GG770747.1::G00028
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000164655::NZ_GG770747.1::G00028Graphic 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_GG770747.1All displayed genes belong to this local TCS context.
Neighborhood span179 666-181 677 nt2 012 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
179 666 nt181 677 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF0219_RS09945GCF_000164655#HMPREF0219_RS09945
RROmpRCurrent focus
179 666-180 373 nt · Forward (+)
HMPREF0219_RS09940GCF_000164655#HMPREF0219_RS09940
HKClassic
180 367-181 677 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000155065#QAE_RS0212495Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1016719
Simplified PFAM architecture for RROC_1016719
PFAM domain coverage: 185 / 235 aa (78.7%)
1 aa235 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[4-112] | Trans_reg_C[151-226]
- Domain count: 2
- Matched identifier: RROC_1016719
- Positioned domains: Response_reg 4-112 ; Response_reg 4-112 ; Trans_reg_C 151-226 ; Trans_reg_C 151-226
Cluster members and taxonomy
Representative gene: GCF_000155065#QAE_RS0212495
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 525 258 · GCF_000164655
AssemblyASM16465v1 · Scaffoldhaploid
Genome composition3 905 466 bp · 28,5% GCClostridioides difficile NAP07
Signal transduction countsGenes 97 · HK 48 · RR 49CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key