1 Response_reg#1
5-112 aa · 108 aa · 48.2% of protein
Raw token
Response_reg:5:2.12e-37:112:110:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BER29_RS02850
Response regulator OmpR family
Clostridioides difficile · GCF_001972015
ClassRRTypeOmpRLength224 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_001972015#BER29_RS02850Stable P2CS identifier used across views.
GenomeGCF_001972015Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length224 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage184 / 224 aa (82.1%)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 aa224 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
147-222 aa · 76 aa · 33.9% of protein
Raw token
Trans_reg_C:147:5.73e-25:222:77:77- Raw architecture: Response_reg:5:2.12e-37:112:110:111#Trans_reg_C:147:5.73e-25:222:77:77
- 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 labelpairedGCF_001972015::NZ_MTVR01000002.1::G00006
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span234335-236157Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBER29_000561RefSeq proteinWP_009888315.1
Context group ID
GCF_001972015::NZ_MTVR01000002.1::G00006Context members
BER29_RS02845BER29_RS02850
Partner locus tags
BER29_RS02845BER29_RS02850
Partner old locus tags
BER29_000560BER29_000561
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009888315.1Primary protein accession used for annex mappings.
UniProt accessionA0A0H3MZ89Primary UniProt accession resolved in the annex database.
UniProt IDA0A0H3MZ89_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 tagBER29_RS02850Primary locus identifier stored in the genes table.
Old locus tagBER29_000561Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_MTVR01000002.1Sequence record reported by the local genomic context database.
Genomic interval235 483-236 157 nt675 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span234 335-236 157 ntGCF_001972015::NZ_MTVR01000002.1::G00006
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_001972015::NZ_MTVR01000002.1::G00006Graphic 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_MTVR01000002.1All displayed genes belong to this local TCS context.
Neighborhood span234 335-236 157 nt1 823 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
234 335 nt236 157 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
BER29_RS02845GCF_001972015#BER29_RS02845
HKClassic
234 335-235 495 nt · Reverse (-)
BER29_RS02850GCF_001972015#BER29_RS02850
RROmpRCurrent focus
235 483-236 157 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003215#QAC_RS0202580Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1528470
Simplified PFAM architecture for RROC_1528470
PFAM domain coverage: 182 / 224 aa (81.3%)
1 aa224 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[5-112] | Trans_reg_C[148-221]
- Domain count: 2
- Matched identifier: RROC_1528470
- Positioned domains: Response_reg 5-112 ; Response_reg 5-112 ; Trans_reg_C 148-221 ; Trans_reg_C 148-221
Cluster members and taxonomy
Representative gene: GCF_000003215#QAC_RS0202580
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_001972015
AssemblyASM197201v1 · Contighaploid
Genome composition4 179 937 bp · 29,0% GCClostridioides difficile
Signal transduction countsGenes 107 · HK 51 · RR 56CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key