1 Response_reg#1
5-117 aa · 113 aa · 48.7% of protein
Raw token
Response_reg:5:2.17e-22:117:113:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BER29_RS14655
Response regulator, unclassified
Clostridioides difficile · GCF_001972015
ClassRRTypeunclassifiedLength232 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_001972015#BER29_RS14655Stable P2CS identifier used across views.
GenomeGCF_001972015Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regHTH_AraC
Protein length232 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage154 / 232 aa (66.4%)Merged over positioned domains only.
Domain description1 Response_reg,1 HTH_AraCSummary 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 aa232 aa
Domain-by-domain annotation2 items
2 HTH_AraC#2
186-226 aa · 41 aa · 17.7% of protein
Raw token
HTH_AraC:186:0.0000383:226:41:42- Raw architecture: Response_reg:5:2.17e-22:117:113:111#HTH_AraC:186:0.0000383:226:41:42
- Domain description: 1 Response_reg,1 HTH_AraC
- 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::G00046
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span2863621-2865938Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBER29_002882RefSeq proteinWP_003436119.1
Context group ID
GCF_001972015::NZ_MTVR01000002.1::G00046Context members
BER29_RS14655BER29_RS14660
Partner locus tags
BER29_RS14655BER29_RS14660
Partner old locus tags
BER29_002882BER29_002883
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003436119.1Primary protein accession used for annex mappings.
UniProt accessionA0A0H3NA51Primary UniProt accession resolved in the annex database.
UniProt IDA0A0H3NA51_CLODCDisplay identifier provided by UniProt.
GO / PubMed3 / 1Unique GO terms and literature references available below.
Reference hubs
GO terms
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagBER29_RS14655Primary locus identifier stored in the genes table.
Old locus tagBER29_002882Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_MTVR01000002.1Sequence record reported by the local genomic context database.
Genomic interval2 863 621-2 864 319 nt699 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span2 863 621-2 865 938 ntGCF_001972015::NZ_MTVR01000002.1::G00046
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_001972015::NZ_MTVR01000002.1::G00046Graphic 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 span2 863 621-2 865 938 nt2 318 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
2 863 621 nt2 865 938 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
BER29_RS14655GCF_001972015#BER29_RS14655
RRunclassifiedCurrent focus
2 863 621-2 864 319 nt · Reverse (-)
BER29_RS14660GCF_001972015#BER29_RS14660
HKClassic
2 864 433-2 865 938 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_012276945#GSQ50_RS11900Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + HTH_182 domains in the representative PFAM annotation.
PFAM architecture for RROC_1059373
Simplified PFAM architecture for RROC_1059373
PFAM domain coverage: 189 / 234 aa (80.8%)
1 aa234 aa
Response_regHTH_18
- Simplified architecture: Response_reg + HTH_18
- Raw architecture: Response_reg[5-116] | HTH_18[151-227]
- Domain count: 2
- Matched identifier: RROC_1059373
- Positioned domains: Response_reg 5-116 ; HTH_18 151-227
Cluster members and taxonomy
Representative gene: GCF_012276945#GSQ50_RS11900
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