1 Response_reg#1
4-109 aa · 106 aa · 23.5% of protein
Raw token
Response_reg:4:6e-28:109:106:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
DWY93_RS02125
Response regulator NtrC family
Clostridium sp. AF28-12 · GCF_003435225
ClassRRTypeNtrCLength451 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_003435225#DWY93_RS02125Stable P2CS identifier used across views.
GenomeGCF_003435225Bacteria; Bacillati; Bacillota; Clostridia; Eubacteriales; Clostridiaceae; Clostridium
Domain signature
Compact overview inferred from the domain field
Response_regAAA_5HTH_8
Protein length451 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage264 / 451 aa (58.5%)Merged over positioned domains only.
Domain description1 Response_reg,1 AAA_5,1 HTH_8Summary 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 aa451 aa
Domain-by-domain annotation3 items
2 AAA_5#2
160-279 aa · 120 aa · 26.6% of protein
Raw token
AAA_5:160:0.000000554:279:134:1353 HTH_8#3
412-449 aa · 38 aa · 8.4% of protein
Raw token
HTH_8:412:0.0000000153:449:38:40- Raw architecture: Response_reg:4:6e-28:109:106:111#AAA_5:160:0.000000554:279:134:135#HTH_8:412:0.0000000153:449:38:40
- Domain description: 1 Response_reg,1 AAA_5,1 HTH_8
- 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_003435225::NZ_QWGJ01000001.1::G00006
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span447224-449897Genomic interval covered by the local TCS group.
Identifiers
Old locus tagDWY93_02125RefSeq proteinWP_117471719.1
Context group ID
GCF_003435225::NZ_QWGJ01000001.1::G00006Context members
DWY93_RS02120DWY93_RS02125
Partner locus tags
DWY93_RS02120DWY93_RS02125
Partner old locus tags
DWY93_02120DWY93_02125
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
No UniProt / GO / PubMed mapping was found for WP_117471719.1.
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagDWY93_RS02125Primary locus identifier stored in the genes table.
Old locus tagDWY93_02125Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_QWGJ01000001.1Sequence record reported by the local genomic context database.
Genomic interval448 542-449 897 nt1 356 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span447 224-449 897 ntGCF_003435225::NZ_QWGJ01000001.1::G00006
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_003435225::NZ_QWGJ01000001.1::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_QWGJ01000001.1All displayed genes belong to this local TCS context.
Neighborhood span447 224-449 897 nt2 674 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
447 224 nt449 897 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
DWY93_RS02120GCF_003435225#DWY93_RS02120
HKClassic
447 224-448 564 nt · Forward (+)
DWY93_RS02125GCF_003435225#DWY93_RS02125
RRNtrCCurrent focus
448 542-449 897 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_003435225#DWY93_RS02125The current gene is the representative for this cluster.
PFAM architectureResponse_reg + Sigma54_activat + AAA_lid_14 + HTH_84 domains in the representative PFAM annotation.
PFAM architecture for RROC_0283551
Simplified PFAM architecture for RROC_0283551
PFAM domain coverage: 379 / 451 aa (84.0%)
1 aa451 aa
Response_regSigma54_activatAAA_lid_14HTH_8
- Simplified architecture: Response_reg + Sigma54_activat + AAA_lid_14 + HTH_8
- Raw architecture: Response_reg[4-110] | Sigma54_activat[137-303] | AAA_lid_14[309-375] | HTH_8[412-449]
- Domain count: 4
- Matched identifier: RROC_0283551
- Positioned domains: Response_reg 4-110 ; Response_reg 4-110 ; Sigma54_activat 137-303 ; Sigma54_activat 137-303 ; AAA_lid_14 309-375 ; AAA_lid_14 309-375 ; HTH_8 412-449 ; HTH_8 412-449
Cluster members and taxonomy
Representative gene: GCF_003435225#DWY93_RS02125
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 2 305 241 · GCF_003435225
AssemblyASM343522v1 · Scaffoldhaploid
Genome composition3 514 663 bp · 48,5% GCClostridium sp. AF28-12
Signal transduction countsGenes 67 · HK 31 · RR 34CheA 0 · PP 2
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderEubacterialesFamilyClostridiaceaeGenusClostridium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Eubacteriales6Clostridiaceae7Clostridium
Related genes
Preview from the same derived genome key