1 Response_reg#1
15-122 aa · 108 aa · 45.0% of protein
Raw token
Response_reg:15:3.61e-36:122:109:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
DPC6316_RS03465
Response regulator OmpR family
Bifidobacterium longum · GCF_002833015
ClassRRTypeOmpRLength240 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_002833015#DPC6316_RS03465Stable P2CS identifier used across views.
GenomeGCF_002833015Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length240 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage180 / 240 aa (75.0%)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
164-235 aa · 72 aa · 30.0% of protein
Raw token
Trans_reg_C:164:1.73e-30:235:77:77- Raw architecture: Response_reg:15:3.61e-36:122:109:111#Trans_reg_C:164:1.73e-30:235:77:77
- 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_002833015::NZ_PJDR01000006.1::G00003
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span288865-290660Genomic interval covered by the local TCS group.
Identifiers
Old locus tagDPC6316_0649RefSeq proteinWP_007051909.1
Context group ID
GCF_002833015::NZ_PJDR01000006.1::G00003Context members
DPC6316_RS03460DPC6316_RS03465
Partner locus tags
DPC6316_RS03460DPC6316_RS03465
Partner old locus tags
DPC6316_0648DPC6316_0649
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_007051909.1Primary protein accession used for annex mappings.
UniProt accessionD6ZTH4Primary UniProt accession resolved in the annex database.
UniProt IDD6ZTH4_BIFLJDisplay identifier provided by UniProt.
GO / PubMed5 / 1Unique GO terms and literature references available below.
Reference hubs
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagDPC6316_RS03465Primary locus identifier stored in the genes table.
Old locus tagDPC6316_0649Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_PJDR01000006.1Sequence record reported by the local genomic context database.
Genomic interval289 938-290 660 nt723 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span288 865-290 660 ntGCF_002833015::NZ_PJDR01000006.1::G00003
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_002833015::NZ_PJDR01000006.1::G00003Graphic 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_PJDR01000006.1All displayed genes belong to this local TCS context.
Neighborhood span288 865-290 660 nt1 796 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
288 865 nt290 660 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
DPC6316_RS03460GCF_002833015#DPC6316_RS03460
HKClassic
288 865-289 938 nt · Reverse (-)
DPC6316_RS03465GCF_002833015#DPC6316_RS03465
RROmpRCurrent focus
289 938-290 660 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000003135#HMPREF0175_RS08255Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0881917
Simplified PFAM architecture for RROC_0881917
PFAM domain coverage: 180 / 240 aa (75.0%)
1 aa240 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[15-122] | Trans_reg_C[164-235]
- Domain count: 2
- Matched identifier: RROC_0881917
- Positioned domains: Response_reg 15-122 ; Response_reg 15-122 ; Trans_reg_C 164-235 ; Trans_reg_C 164-235
Cluster members and taxonomy
Representative gene: GCF_000003135#HMPREF0175_RS08255
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 216 816 · GCF_002833015
AssemblyASM283301v1 · Contighaploid
Genome composition2 393 969 bp · 60,5% GCBifidobacterium longum
Signal transduction countsGenes 23 · HK 10 · RR 11CheA 0 · PP 2
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key