1 Response_reg#1
15-122 aa · 108 aa · 45.0% of protein
Raw token
Response_reg:15:7.31e-35:122:109:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF1587_RS03350
Response regulator OmpR family
Bifidobacterium breve JCP7499 · GCF_000466545
ClassRRTypeOmpRLength240 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000466545#HMPREF1587_RS03350Stable P2CS identifier used across views.
GenomeGCF_000466545Bacteria; 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:164:9.03e-31:235:77:77- Raw architecture: Response_reg:15:7.31e-35:122:109:111#Trans_reg_C:164:9.03e-31:235:77:77
- 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_000466545::NZ_KE993246.1::G00012
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span35879-37674Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF1587_00750RefSeq proteinWP_003831206.1
Context group ID
GCF_000466545::NZ_KE993246.1::G00012Context members
HMPREF1587_RS03350HMPREF1587_RS03345
Partner locus tags
HMPREF1587_RS03350HMPREF1587_RS03345
Partner old locus tags
HMPREF1587_00750HMPREF1587_00751
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003831206.1Primary protein accession used for annex mappings.
UniProt accessionA0A0M4M205Primary UniProt accession resolved in the annex database.
UniProt IDA0A0M4M205_BIFBRDisplay identifier provided by UniProt.
GO / PubMed5 / 0Unique 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 tagHMPREF1587_RS03350Primary locus identifier stored in the genes table.
Old locus tagHMPREF1587_00750Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_KE993246.1Sequence record reported by the local genomic context database.
Genomic interval35 879-36 601 nt723 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span35 879-37 674 ntGCF_000466545::NZ_KE993246.1::G00012
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000466545::NZ_KE993246.1::G00012Graphic 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_KE993246.1All displayed genes belong to this local TCS context.
Neighborhood span35 879-37 674 nt1 796 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
35 879 nt37 674 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF1587_RS03350GCF_000466545#HMPREF1587_RS03350
RROmpRCurrent focus
35 879-36 601 nt · Forward (+)
HMPREF1587_RS03345GCF_000466545#HMPREF1587_RS03345
HKClassic
36 601-37 674 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000247755#CECT7263_RS08500Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0882587
Simplified PFAM architecture for RROC_0882587
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_0882587
- 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_000247755#CECT7263_RS08500
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 261 072 · GCF_000466545
AssemblyASM46654v1 · Scaffoldhaploid
Genome composition2 369 717 bp · 58,5% GCBifidobacterium breve JCP7499
Signal transduction countsGenes 26 · HK 9 · RR 15CheA 0 · PP 2
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key