1 Response_reg#1
4-113 aa · 110 aa · 47.0% of protein
Raw token
Response_reg:4:3.08e-38:113:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF1313_RS05640
Response regulator OmpR family
Bifidobacterium longum subsp. longum 1-6B · GCF_000261245
ClassRRTypeOmpRLength234 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000261245#HMPREF1313_RS05640Stable P2CS identifier used across views.
GenomeGCF_000261245Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length234 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage187 / 234 aa (79.9%)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 aa234 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
153-229 aa · 77 aa · 32.9% of protein
Raw token
Trans_reg_C:153:1.5e-33:229:77:77- Raw architecture: Response_reg:4:3.08e-38:113:111:111#Trans_reg_C:153:1.5e-33:229:77:77
- 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_000261245::NZ_AJTF01000085.1::G00009
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span84218-86452Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF1313_0750RefSeq proteinWP_007051437.1
Context group ID
GCF_000261245::NZ_AJTF01000085.1::G00009Context members
HMPREF1313_RS05640HMPREF1313_RS05635
Partner locus tags
HMPREF1313_RS05640HMPREF1313_RS05635
Partner old locus tags
HMPREF1313_0750HMPREF1313_0751
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_007051437.1Primary protein accession used for annex mappings.
UniProt accessionA0AAV3FIJ9Primary UniProt accession resolved in the annex database.
UniProt IDA0AAV3FIJ9_BIFLLDisplay 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 tagHMPREF1313_RS05640Primary locus identifier stored in the genes table.
Old locus tagHMPREF1313_0750Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_AJTF01000085.1Sequence record reported by the local genomic context database.
Genomic interval84 218-84 922 nt705 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span84 218-86 452 ntGCF_000261245::NZ_AJTF01000085.1::G00009
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000261245::NZ_AJTF01000085.1::G00009Graphic 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_AJTF01000085.1All displayed genes belong to this local TCS context.
Neighborhood span84 218-86 452 nt2 235 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
84 218 nt86 452 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF1313_RS05640GCF_000261245#HMPREF1313_RS05640
RROmpRCurrent focus
84 218-84 922 nt · Reverse (-)
HMPREF1313_RS05635GCF_000261245#HMPREF1313_RS05635
HKClassic
85 121-86 452 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000155415#BLIG_RS08270Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1047426
Simplified PFAM architecture for RROC_1047426
PFAM domain coverage: 183 / 234 aa (78.2%)
1 aa234 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[4-113] | Trans_reg_C[156-228]
- Domain count: 2
- Matched identifier: RROC_1047426
- Positioned domains: Response_reg 4-113 ; Response_reg 4-113 ; Trans_reg_C 156-228 ; Trans_reg_C 156-228
Cluster members and taxonomy
Representative gene: GCF_000155415#BLIG_RS08270
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 161 744 · GCF_000261245
AssemblyBlongum16Bv1.0 · Contighaploid
Genome composition2 686 768 bp · 59,5% GCBifidobacterium longum subsp. longum 1-6B
Signal transduction countsGenes 21 · HK 10 · RR 10CheA 0 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key