1 Response_reg#1
5-114 aa · 110 aa · 48.7% of protein
Raw token
Response_reg:5:1.52e-23:114:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BER38_RS17600
Response regulator OmpR family
Clostridioides difficile · GCF_001972105
ClassRRTypeOmpRLength226 aaTM0ValidatedNoCompleteYesContextpentad
Gene IDGCF_001972105#BER38_RS17600Stable P2CS identifier used across views.
GenomeGCF_001972105Bacteria; 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:150:2.26e-22:223:75:77- Raw architecture: Response_reg:5:1.52e-23:114:111:111#Trans_reg_C:150:2.26e-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_001972105::NZ_MTVZ01000002.1::G00050
Group size55 locus tags listed below.
HK / RR2 / 3Counts resolved for the local TCS neighborhood.
Context span1855806-1861530Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBER38_003468RefSeq proteinWP_003432361.1
Context group ID
GCF_001972105::NZ_MTVZ01000002.1::G00050Context members
BER38_RS17590BER38_RS17595BER38_RS17600BER38_RS17605BER38_RS17610
Partner locus tags
BER38_RS17590BER38_RS17595BER38_RS17600BER38_RS17605BER38_RS17610
Partner old locus tags
BER38_003466BER38_003467BER38_003468BER38_003469BER38_003470
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003432361.1Primary protein accession used for annex mappings.
UniProt accessionQ180B0Primary UniProt accession resolved in the annex database.
UniProt IDQ180B0_CLOD6Display 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 tagBER38_RS17600Primary locus identifier stored in the genes table.
Old locus tagBER38_003468Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_MTVZ01000002.1Sequence record reported by the local genomic context database.
Genomic interval1 858 036-1 858 716 nt681 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span1 855 806-1 861 530 ntGCF_001972105::NZ_MTVZ01000002.1::G00050
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_001972105::NZ_MTVZ01000002.1::G00050Graphic 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_MTVZ01000002.1All displayed genes belong to this local TCS context.
Neighborhood span1 855 806-1 861 530 nt5 725 nt
Members51 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
1 855 806 nt1 861 530 nt
Neighborhood gene cards
5 genes in the current local neighborhood.
BER38_RS17590GCF_001972105#BER38_RS17590
HKClassic
1 855 806-1 856 921 nt · Reverse (-)
BER38_RS17595GCF_001972105#BER38_RS17595
RROmpR
1 856 957-1 857 655 nt · Reverse (-)
BER38_RS17600GCF_001972105#BER38_RS17600
RROmpRCurrent focus
1 858 036-1 858 716 nt · Reverse (-)
BER38_RS17605GCF_001972105#BER38_RS17605
HKClassic
1 858 766-1 860 781 nt · Reverse (-)
BER38_RS17610GCF_001972105#BER38_RS17610
RROmpR
1 860 853-1 861 530 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000009205#CD630_RS17365Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1407979
Simplified PFAM architecture for RROC_1407979
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_1407979
- 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_000009205#CD630_RS17365
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_001972105
AssemblyASM197210v1 · Contighaploid
Genome composition4 200 115 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 97 · HK 47 · RR 50CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key