1 Response_reg#1
5-114 aa · 110 aa · 48.7% of protein
Raw token
Response_reg:5:5.04e-22:114:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
EGM11_RS04300
Response regulator OmpR family
Clostridioides difficile · GCF_003863055
ClassRRTypeOmpRLength226 aaTM0ValidatedNoCompleteYesContextpentad
Gene IDGCF_003863055#EGM11_RS04300Stable P2CS identifier used across views.
GenomeGCF_003863055Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length226 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage184 / 226 aa (81.4%)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
150-223 aa · 74 aa · 32.7% of protein
Raw token
Trans_reg_C:150:2.96e-22:223:75:77- Raw architecture: Response_reg:5:5.04e-22:114:111:111#Trans_reg_C:150:2.96e-22:223:75:77
- 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 labelpentadGCF_003863055::NZ_RRAU01000004.1::G00018
Group size55 locus tags listed below.
HK / RR2 / 3Counts resolved for the local TCS neighborhood.
Context span175909-181634Genomic interval covered by the local TCS group.
Identifiers
Old locus tagEGM11_04300RefSeq proteinWP_009891737.1
Context group ID
GCF_003863055::NZ_RRAU01000004.1::G00018Context members
EGM11_RS04290EGM11_RS04295EGM11_RS04300EGM11_RS04305EGM11_RS04310
Partner locus tags
EGM11_RS04290EGM11_RS04295EGM11_RS04300EGM11_RS04305EGM11_RS04310
Partner old locus tags
EGM11_04290EGM11_04295EGM11_04300EGM11_04305EGM11_04310
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009891737.1Primary protein accession used for annex mappings.
UniProt accessionA0A0H3N6A7Primary UniProt accession resolved in the annex database.
UniProt IDA0A0H3N6A7_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 tagEGM11_RS04300Primary locus identifier stored in the genes table.
Old locus tagEGM11_04300Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_RRAU01000004.1Sequence record reported by the local genomic context database.
Genomic interval178 723-179 403 nt681 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span175 909-181 634 ntGCF_003863055::NZ_RRAU01000004.1::G00018
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_003863055::NZ_RRAU01000004.1::G00018Graphic 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_RRAU01000004.1All displayed genes belong to this local TCS context.
Neighborhood span175 909-181 634 nt5 726 nt
Members51 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
175 909 nt181 634 nt
Neighborhood gene cards
5 genes in the current local neighborhood.
EGM11_RS04290GCF_003863055#EGM11_RS04290
RROmpR
175 909-176 586 nt · Forward (+)
EGM11_RS04295GCF_003863055#EGM11_RS04295
HKClassic
176 658-178 673 nt · Forward (+)
EGM11_RS04300GCF_003863055#EGM11_RS04300
RROmpRCurrent focus
178 723-179 403 nt · Forward (+)
EGM11_RS04305GCF_003863055#EGM11_RS04305
RROmpR
179 785-180 483 nt · Forward (+)
EGM11_RS04310GCF_003863055#EGM11_RS04310
HKClassic
180 519-181 634 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003215#QAC_RS0216525Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1407941
Simplified PFAM architecture for RROC_1407941
PFAM domain coverage: 183 / 226 aa (81.0%)
1 aa226 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[5-113] | Trans_reg_C[150-223]
- Domain count: 2
- Matched identifier: RROC_1407941
- Positioned domains: Response_reg 5-113 ; Response_reg 5-113 ; Trans_reg_C 150-223 ; Trans_reg_C 150-223
Cluster members and taxonomy
Representative gene: GCF_000003215#QAC_RS0216525
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_003863055
AssemblyASM386305v1 · Contighaploid
Genome composition4 073 138 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 105 · HK 50 · RR 55CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key