1 Response_reg#1
6-115 aa · 110 aa · 48.5% of protein
Raw token
Response_reg:6:1.35e-32:115:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
LI129_RS03360
Response regulator OmpR family
Thomasclavelia ramosa · GCF_020559905
ClassRRTypeOmpRLength227 aaTM0ValidatedNoCompleteYesContexttetrad
Gene IDGCF_020559905#LI129_RS03360Stable P2CS identifier used across views.
GenomeGCF_020559905Bacteria; Bacillati; Bacillota; Erysipelotrichia; Erysipelotrichales; Coprobacillaceae; Thomasclavelia
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length227 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage187 / 227 aa (82.4%)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
Native P2CS viewFrontend rendering from the parsed domain string and TMPRED protein features.
1 aa227 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
149-225 aa · 77 aa · 33.9% of protein
Raw token
Trans_reg_C:149:7.3e-26:225:77:77- Raw architecture: Response_reg:6:1.35e-32:115:111:111#Trans_reg_C:149:7.3e-26:225:77:77
- 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 labeltetradGCF_020559905::NZ_JAJCLV010000003.1::G00022
Group size44 locus tags listed below.
HK / RR2 / 2Counts resolved for the local TCS neighborhood.
Context span138263-143837Genomic interval covered by the local TCS group.
Identifiers
Old locus tagLI129_03365RefSeq proteinWP_003535603.1
Context group ID
GCF_020559905::NZ_JAJCLV010000003.1::G00022Context members
LI129_RS03345LI129_RS03350LI129_RS03355LI129_RS03360
Partner locus tags
LI129_RS03345LI129_RS03350LI129_RS03355LI129_RS03360
Partner old locus tags
LI129_03350LI129_03355LI129_03360LI129_03365
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003535603.1Primary protein accession used for annex mappings.
UniProt accessionA0A9Q3A813Primary UniProt accession resolved in the annex database.
UniProt IDA0A9Q3A813_9FIRMDisplay identifier provided by UniProt.
GO / PubMed6 / 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 tagLI129_RS03360Primary locus identifier stored in the genes table.
Old locus tagLI129_03365Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAJCLV010000003.1Sequence record reported by the local genomic context database.
Genomic interval143 154-143 837 nt684 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span138 263-143 837 ntGCF_020559905::NZ_JAJCLV010000003.1::G00022
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_020559905::NZ_JAJCLV010000003.1::G00022Graphic view
Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.
Context labeltetradNeighborhood members are ordered by genomic coordinates.
Contig / repliconNZ_JAJCLV010000003.1All displayed genes belong to this local TCS context.
Neighborhood span138 263-143 837 nt5 575 nt
Members41 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
138 263 nt143 837 nt
Neighborhood gene cards
4 genes in the current local neighborhood.
LI129_RS03345GCF_020559905#LI129_RS03345
HKClassic
138 263-140 953 nt · Forward (+)
LI129_RS03350GCF_020559905#LI129_RS03350
RROmpR
140 946-141 656 nt · Forward (+)
LI129_RS03355GCF_020559905#LI129_RS03355
HKClassic
141 701-143 161 nt · Forward (+)
LI129_RS03360GCF_020559905#LI129_RS03360
RROmpRCurrent focus
143 154-143 837 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000154485#CLORAM_RS03450Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1354482
Simplified PFAM architecture for RROC_1354482
PFAM domain coverage: 187 / 227 aa (82.4%)
1 aa227 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[6-115] | Trans_reg_C[149-225]
- Domain count: 2
- Matched identifier: RROC_1354482
- Positioned domains: Response_reg 6-115 ; Response_reg 6-115 ; Trans_reg_C 149-225 ; Trans_reg_C 149-225
Cluster members and taxonomy
Representative gene: GCF_000154485#CLORAM_RS03450
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 547 · GCF_020559905
AssemblyASM2055990v1 · Contighaploid
Genome composition4 025 160 bp · 33,0% GCThomasclavelia ramosa
Signal transduction countsGenes 57 · HK 24 · RR 32CheA 0 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassErysipelotrichiaOrderErysipelotrichalesFamilyCoprobacillaceaeGenusThomasclavelia
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Erysipelotrichia5Erysipelotrichales6Coprobacillaceae7Thomasclavelia
Related genes
Preview from the same derived genome key