1 Response_reg#1
5-114 aa · 110 aa · 47.0% of protein
Raw token
Response_reg:5:2.12e-28:114:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
JMW55_RS00410
Response regulator OmpR family
Clostridioides difficile · GCF_016767035
ClassRRTypeOmpRLength234 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_016767035#JMW55_RS00410Stable P2CS identifier used across views.
GenomeGCF_016767035Bacteria; Bacillati; Bacillota; Clostridia; Peptostreptococcales; Peptostreptococcaceae; Clostridioides
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length234 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage181 / 234 aa (77.4%)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
160-230 aa · 71 aa · 30.3% of protein
Raw token
Trans_reg_C:160:8.01e-27:230:74:77- Raw architecture: Response_reg:5:2.12e-28:114:111:111#Trans_reg_C:160:8.01e-27:230:74:77
- 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_016767035::NZ_CP068560.1::G00001
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span96004-98197Genomic interval covered by the local TCS group.
Identifiers
Old locus tagJMW55_00410RefSeq proteinWP_003418745.1
Context group ID
GCF_016767035::NZ_CP068560.1::G00001Context members
JMW55_RS00405JMW55_RS00410
Partner locus tags
JMW55_RS00405JMW55_RS00410
Partner old locus tags
JMW55_00405JMW55_00410
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003418745.1Primary protein accession used for annex mappings.
UniProt accessionD5Q1H1Primary UniProt accession resolved in the annex database.
UniProt IDD5Q1H1_CLODIDisplay identifier provided by UniProt.
GO / PubMed5 / 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 tagJMW55_RS00410Primary locus identifier stored in the genes table.
Old locus tagJMW55_00410Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_CP068560.1Sequence record reported by the local genomic context database.
Genomic interval97 493-98 197 nt705 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span96 004-98 197 ntGCF_016767035::NZ_CP068560.1::G00001
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_016767035::NZ_CP068560.1::G00001Graphic 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_CP068560.1All displayed genes belong to this local TCS context.
Neighborhood span96 004-98 197 nt2 194 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
96 004 nt98 197 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
JMW55_RS00405GCF_016767035#JMW55_RS00405
HKClassic
96 004-97 491 nt · Reverse (-)
JMW55_RS00410GCF_016767035#JMW55_RS00410
RROmpRCurrent focus
97 493-98 197 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000164175#HMPREF0220_RS06710Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1047529
Simplified PFAM architecture for RROC_1047529
PFAM domain coverage: 181 / 234 aa (77.4%)
1 aa234 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[5-113] | Trans_reg_C[159-230]
- Domain count: 2
- Matched identifier: RROC_1047529
- Positioned domains: Response_reg 5-113 ; Response_reg 5-113 ; Trans_reg_C 159-230 ; Trans_reg_C 159-230
Cluster members and taxonomy
Representative gene: GCF_000164175#HMPREF0220_RS06710
Displayed with 5 columns and 10 rows per page from the local display config.
Showing members 1 to 50 over 312 total members. Page 1 / 7.
GCF_000164175#HMPREF0220_RS06710 (representative) | ||||
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 496 · GCF_016767035
AssemblyASM1676703v1 · Complete Genomehaploid
Genome composition3 951 345 bp · 28,5% GCClostridioides difficile
Signal transduction countsGenes 97 · HK 48 · RR 49CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderPeptostreptococcalesFamilyPeptostreptococcaceaeGenusClostridioides
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Peptostreptococcales6Peptostreptococcaceae7Clostridioides
Related genes
Preview from the same derived genome key