1 Response_reg#1
9-119 aa · 111 aa · 45.7% of protein
Raw token
Response_reg:9:8.75e-37:119:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
EK3BL_RS00700
Response regulator OmpR family
Bifidobacterium longum subsp. infantis EK3 · GCF_000730125
ClassRRTypeOmpRLength243 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000730125#EK3BL_RS00700Stable P2CS identifier used across views.
GenomeGCF_000730125Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length243 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage197 / 243 aa (81.1%)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 · 35.4% of protein
Raw token
Trans_reg_C:153:3.93e-29:238:86:77- Raw architecture: Response_reg:9:8.75e-37:119:111:111#Trans_reg_C:153:3.93e-29:238:86:77
- 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_000730125::NZ_JNWB01000038.1::G00021
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span144223-146975Genomic interval covered by the local TCS group.
Identifiers
Old locus tagEK3BL_09015RefSeq proteinWP_012577089.1
Context group ID
GCF_000730125::NZ_JNWB01000038.1::G00021Context members
EK3BL_RS00705EK3BL_RS00700
Partner locus tags
EK3BL_RS00705EK3BL_RS00700
Partner old locus tags
EK3BL_09010EK3BL_09015
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_012577089.1Primary protein accession used for annex mappings.
UniProt accessionB7GPS1Primary UniProt accession resolved in the annex database.
UniProt IDB7GPS1_BIFLSDisplay 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 tagEK3BL_RS00700Primary locus identifier stored in the genes table.
Old locus tagEK3BL_09015Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JNWB01000038.1Sequence record reported by the local genomic context database.
Genomic interval146 244-146 975 nt732 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span144 223-146 975 ntGCF_000730125::NZ_JNWB01000038.1::G00021
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000730125::NZ_JNWB01000038.1::G00021Graphic 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_JNWB01000038.1All displayed genes belong to this local TCS context.
Neighborhood span144 223-146 975 nt2 753 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
144 223 nt146 975 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
EK3BL_RS00705GCF_000730125#EK3BL_RS00705
HKClassic
144 223-146 214 nt · Reverse (-)
EK3BL_RS00700GCF_000730125#EK3BL_RS00700
RROmpRCurrent focus
146 244-146 975 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000020425#BLON_RS03535Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0824695
Simplified PFAM architecture for RROC_0824695
PFAM domain coverage: 196 / 243 aa (80.7%)
1 aa243 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[9-119] | Trans_reg_C[153-237]
- Domain count: 2
- Matched identifier: RROC_0824695
- Positioned domains: Response_reg 9-119 ; Response_reg 9-119 ; Trans_reg_C 153-237 ; Trans_reg_C 153-237
Cluster members and taxonomy
Representative gene: GCF_000020425#BLON_RS03535
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 457 183 · GCF_000730125
AssemblyASM73012v1 · Scaffoldhaploid
Genome composition2 564 809 bp · 59,5% GCBifidobacterium longum subsp. infantis EK3
Signal transduction countsGenes 39 · HK 12 · RR 22CheA 0 · PP 5
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key