1 Response_reg#1
3-114 aa · 112 aa · 25.5% of protein
Raw token
Response_reg:3:6.08e-27:114:112:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
ITJ05_RS16550
Response regulator NtrC family
Clostridioides difficile · GCF_015352255
ClassRRTypeNtrCLength440 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_015352255#ITJ05_RS16550Stable P2CS identifier used across views.
GenomeGCF_015352255Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regAAA_5HTH_8
Protein length440 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage271 / 440 aa (61.6%)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
Biotite-like viewServer-side Python rendering inspired by the Biotite sigma-domain example.
Domain-by-domain annotation3 items
2 AAA_5#2
157-275 aa · 119 aa · 27.0% of protein
Raw token
AAA_5:157:0.0000000021:275:128:1353 HTH_8#3
398-437 aa · 40 aa · 9.1% of protein
Raw token
HTH_8:398:0.0000000000993:437:40:40- Raw architecture: Response_reg:3:6.08e-27:114:112:111#AAA_5:157:0.0000000021:275:128:135#HTH_8:398:0.0000000000993:437:40:40
- 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_015352255::NZ_JADKQU010000063.1::G00043
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span8832-12148Genomic interval covered by the local TCS group.
Identifiers
Old locus tagITJ05_16545RefSeq proteinWP_003423653.1
Context group ID
GCF_015352255::NZ_JADKQU010000063.1::G00043Context members
ITJ05_RS16545ITJ05_RS16550
Partner locus tags
ITJ05_RS16545ITJ05_RS16550
Partner old locus tags
ITJ05_16540ITJ05_16545
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003423653.1Primary protein accession used for annex mappings.
UniProt accessionD5Q520Primary UniProt accession resolved in the annex database.
UniProt IDD5Q520_CLODIDisplay identifier provided by UniProt.
GO / PubMed4 / 0Unique GO terms and literature references available below.
Reference hubs
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagITJ05_RS16550Primary locus identifier stored in the genes table.
Old locus tagITJ05_16545Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JADKQU010000063.1Sequence record reported by the local genomic context database.
Genomic interval10 826-12 148 nt1 323 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span8 832-12 148 ntGCF_015352255::NZ_JADKQU010000063.1::G00043
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_015352255::NZ_JADKQU010000063.1::G00043Graphic 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_JADKQU010000063.1All displayed genes belong to this local TCS context.
Neighborhood span8 832-12 148 nt3 317 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
8 832 nt12 148 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
ITJ05_RS16545GCF_015352255#ITJ05_RS16545
HKClassic
8 832-10 826 nt · Forward (+)
ITJ05_RS16550GCF_015352255#ITJ05_RS16550
RRNtrCCurrent focus
10 826-12 148 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000164175#HMPREF0220_RS12755Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Sigma54_activat + AAA_lid_14 + HTH_84 domains in the representative PFAM annotation.
PFAM architecture for RROC_0333940
Simplified PFAM architecture for RROC_0333940
PFAM domain coverage: 386 / 440 aa (87.7%)
1 aa440 aa
Response_regSigma54_activatAAA_lid_14HTH_8
- Simplified architecture: Response_reg + Sigma54_activat + AAA_lid_14 + HTH_8
- Raw architecture: Response_reg[3-113] | Sigma54_activat[137-300] | AAA_lid_14[306-375] | HTH_8[397-437]
- Domain count: 4
- Matched identifier: RROC_0333940
- Positioned domains: Response_reg 3-113 ; Response_reg 3-113 ; Sigma54_activat 137-300 ; Sigma54_activat 137-300 ; AAA_lid_14 306-375 ; AAA_lid_14 306-375 ; HTH_8 397-437 ; HTH_8 397-437
Cluster members and taxonomy
Representative gene: GCF_000164175#HMPREF0220_RS12755
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_015352255
AssemblyASM1535225v1 · Scaffoldhaploid
Genome composition3 912 632 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 95 · HK 48 · RR 47CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key