1 Response_reg#1
4-113 aa · 110 aa · 47.0% of protein
Raw token
Response_reg:4:2.95e-38:113:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF3231_RS05405
Response regulator OmpR family
Bifidobacterium longum · GCF_001546275
ClassRRTypeOmpRLength234 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_001546275#HMPREF3231_RS05405Stable P2CS identifier used across views.
GenomeGCF_001546275Bacteria; 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
Biotite-like viewServer-side Python rendering inspired by the Biotite sigma-domain example.
Domain-by-domain annotation2 items
2 Trans_reg_C#2
153-229 aa · 77 aa · 32.9% of protein
Raw token
Trans_reg_C:153:1.37e-33:229:77:77- Raw architecture: Response_reg:4:2.95e-38:113:111:111#Trans_reg_C:153:1.37e-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_001546275::NZ_KQ955997.1::G00005
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span66353-68586Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF3231_01214RefSeq proteinWP_010081148.1
Context group ID
GCF_001546275::NZ_KQ955997.1::G00005Context members
HMPREF3231_RS05405HMPREF3231_RS05410
Partner locus tags
HMPREF3231_RS05405HMPREF3231_RS05410
Partner old locus tags
HMPREF3231_01214HMPREF3231_01215
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_010081148.1Primary protein accession used for annex mappings.
UniProt accessionB3DTQ0Primary UniProt accession resolved in the annex database.
UniProt IDB3DTQ0_BIFLDDisplay identifier provided by UniProt.
GO / PubMed5 / 2Unique 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 tagHMPREF3231_RS05405Primary locus identifier stored in the genes table.
Old locus tagHMPREF3231_01214Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_KQ955997.1Sequence record reported by the local genomic context database.
Genomic interval66 353-67 057 nt705 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span66 353-68 586 ntGCF_001546275::NZ_KQ955997.1::G00005
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_001546275::NZ_KQ955997.1::G00005Graphic 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_KQ955997.1All displayed genes belong to this local TCS context.
Neighborhood span66 353-68 586 nt2 234 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
66 353 nt68 586 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF3231_RS05405GCF_001546275#HMPREF3231_RS05405
RROmpRCurrent focus
66 353-67 057 nt · Reverse (-)
HMPREF3231_RS05410GCF_001546275#HMPREF3231_RS05410
HKClassic
67 255-68 586 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000008945#BLD_RS05425Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1047075
Simplified PFAM architecture for RROC_1047075
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_1047075
- 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_000008945#BLD_RS05425
Displayed with 5 columns and 10 rows per page from the local display config.
Showing members 1 to 20 over 20 total members. Page 1 / 1.
GCF_000008945#BLD_RS05425 (representative) | ||||
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 216 816 · GCF_001546275
AssemblyASM154627v1 · Scaffoldhaploid
Genome composition2 372 082 bp · 60,0% GCBifidobacterium longum
Signal transduction countsGenes 19 · HK 10 · RR 9CheA 0 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key