1 Response_reg#1
9-119 aa · 111 aa · 45.3% of protein
Raw token
Response_reg:9:1.43e-37:119:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
LLJ07_RS03080
Response regulator OmpR family
Bifidobacterium bifidum · GCF_020861855
ClassRRTypeOmpRLength245 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_020861855#LLJ07_RS03080Stable P2CS identifier used across views.
GenomeGCF_020861855Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length245 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage197 / 245 aa (80.4%)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
153-238 aa · 86 aa · 35.1% of protein
Raw token
Trans_reg_C:153:6.3e-28:238:86:77- Raw architecture: Response_reg:9:1.43e-37:119:111:111#Trans_reg_C:153:6.3e-28:238:86:77
- 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_020861855::NZ_JAJHZI010000001.1::G00001
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span747089-749786Genomic interval covered by the local TCS group.
Identifiers
Old locus tagLLJ07_03070RefSeq proteinWP_003812530.1
Context group ID
GCF_020861855::NZ_JAJHZI010000001.1::G00001Context members
LLJ07_RS03080LLJ07_RS03085
Partner locus tags
LLJ07_RS03080LLJ07_RS03085
Partner old locus tags
LLJ07_03070LLJ07_03075
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003812530.1Primary protein accession used for annex mappings.
UniProt accessionA0ABM7EPF8Primary UniProt accession resolved in the annex database.
UniProt IDA0ABM7EPF8_BIFBIDisplay identifier provided by UniProt.
GO / PubMed0 / 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 tagLLJ07_RS03080Primary locus identifier stored in the genes table.
Old locus tagLLJ07_03070Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAJHZI010000001.1Sequence record reported by the local genomic context database.
Genomic interval747 089-747 826 nt738 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span747 089-749 786 ntGCF_020861855::NZ_JAJHZI010000001.1::G00001
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_020861855::NZ_JAJHZI010000001.1::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_JAJHZI010000001.1All displayed genes belong to this local TCS context.
Neighborhood span747 089-749 786 nt2 698 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
747 089 nt749 786 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
LLJ07_RS03080GCF_020861855#LLJ07_RS03080
RROmpRCurrent focus
747 089-747 826 nt · Forward (+)
LLJ07_RS03085GCF_020861855#LLJ07_RS03085
HKClassic
748 023-749 786 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000155395#BBNG_RS02775Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0789476
Simplified PFAM architecture for RROC_0789476
PFAM domain coverage: 195 / 245 aa (79.6%)
1 aa245 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[9-119] | Trans_reg_C[154-237]
- Domain count: 2
- Matched identifier: RROC_0789476
- Positioned domains: Response_reg 9-119 ; Response_reg 9-119 ; Trans_reg_C 154-237 ; Trans_reg_C 154-237
Cluster members and taxonomy
Representative gene: GCF_000155395#BBNG_RS02775
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 681 · GCF_020861855
AssemblyASM2086185v1 · Contighaploid
Genome composition2 288 004 bp · 62,5% GCBifidobacterium bifidum
Signal transduction countsGenes 30 · HK 13 · RR 16CheA 0 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key