1 Response_reg#1
5-114 aa · 110 aa · 46.2% of protein
Raw token
Response_reg:5:5.45e-34:114:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
CLOSYM_RS00560
Response regulator OmpR family
[Clostridium] symbiosum ATCC 14940 · GCF_000466485
ClassRRTypeOmpRLength238 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000466485#CLOSYM_RS00560Stable P2CS identifier used across views.
GenomeGCF_000466485Bacteria; Bacillati; Bacillota; Clostridia; Lachnospirales; Lachnospiraceae; Lachnoclostridium
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length238 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage186 / 238 aa (78.2%)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 aa238 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
154-229 aa · 76 aa · 31.9% of protein
Raw token
Trans_reg_C:154:4.31e-22:229:77:77- Raw architecture: Response_reg:5:5.45e-34:114:111:111#Trans_reg_C:154:4.31e-22:229:77:77
- 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_000466485::NZ_KE992793.1::G00002
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span6013-8147Genomic interval covered by the local TCS group.
Identifiers
Old locus tagCLOSYM_03284RefSeq proteinWP_021640539.1
Context group ID
GCF_000466485::NZ_KE992793.1::G00002Context members
CLOSYM_RS00560CLOSYM_RS00565
Partner locus tags
CLOSYM_RS00560CLOSYM_RS00565
Partner old locus tags
CLOSYM_03284CLOSYM_03285
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_021640539.1Primary protein accession used for annex mappings.
UniProt accessionA0ABC9TVE1Primary UniProt accession resolved in the annex database.
UniProt IDA0ABC9TVE1_CLOSYDisplay identifier provided by UniProt.
GO / PubMed3 / 0Unique GO terms and literature references available below.
Reference hubs
GO terms
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagCLOSYM_RS00560Primary locus identifier stored in the genes table.
Old locus tagCLOSYM_03284Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_KE992793.1Sequence record reported by the local genomic context database.
Genomic interval6 013-6 729 nt717 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span6 013-8 147 ntGCF_000466485::NZ_KE992793.1::G00002
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000466485::NZ_KE992793.1::G00002Graphic 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_KE992793.1All displayed genes belong to this local TCS context.
Neighborhood span6 013-8 147 nt2 135 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
6 013 nt8 147 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
CLOSYM_RS00560GCF_000466485#CLOSYM_RS00560
RROmpRCurrent focus
6 013-6 729 nt · Forward (+)
CLOSYM_RS00565GCF_000466485#CLOSYM_RS00565
HKClassic
6 726-8 147 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000466485#CLOSYM_RS00560The current gene is the representative for this cluster.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0934179
Simplified PFAM architecture for RROC_0934179
PFAM domain coverage: 186 / 238 aa (78.2%)
1 aa238 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[5-114] | Trans_reg_C[154-229]
- Domain count: 2
- Matched identifier: RROC_0934179
- Positioned domains: Response_reg 5-114 ; Response_reg 5-114 ; Trans_reg_C 154-229 ; Trans_reg_C 154-229
Cluster members and taxonomy
Representative gene: GCF_000466485#CLOSYM_RS00560
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 411 472 · GCF_000466485
AssemblyASM46648v1 · Scaffoldhaploid
Genome composition4 823 675 bp · 47,5% GC[Clostridium] symbiosum ATCC 14940
Signal transduction countsGenes 113 · HK 55 · RR 55CheA 1 · PP 3
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderLachnospiralesFamilyLachnospiraceaeGenusLachnoclostridium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Lachnospirales6Lachnospiraceae7Lachnoclostridium
Related genes
Preview from the same derived genome key