1 Response_reg#1
4-113 aa · 110 aa · 45.8% of protein
Raw token
Response_reg:4:7.82e-36:113:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
MCC10004_RS07735
Response regulator OmpR family
Bifidobacterium longum subsp. longum · GCF_004334065
ClassRRTypeOmpRLength240 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_004334065#MCC10004_RS07735Stable P2CS identifier used across views.
GenomeGCF_004334065Bacteria; 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 coverage187 / 240 aa (77.9%)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
159-235 aa · 77 aa · 32.1% of protein
Raw token
Trans_reg_C:159:1.08e-32:235:77:77- Raw architecture: Response_reg:4:7.82e-36:113:111:111#Trans_reg_C:159:1.08e-32:235:77:77
- 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_004334065::NZ_SHPO01000022.1::G00009
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span181654-184070Genomic interval covered by the local TCS group.
Identifiers
Old locus tagMCC10004_1477RefSeq proteinWP_012471754.1
Context group ID
GCF_004334065::NZ_SHPO01000022.1::G00009Context members
MCC10004_RS07735MCC10004_RS07740
Partner locus tags
MCC10004_RS07735MCC10004_RS07740
Partner old locus tags
MCC10004_1477MCC10004_1478
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_012471754.1Primary protein accession used for annex mappings.
UniProt accessionD6ZVI2Primary UniProt accession resolved in the annex database.
UniProt IDD6ZVI2_BIFLJDisplay 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 tagMCC10004_RS07735Primary locus identifier stored in the genes table.
Old locus tagMCC10004_1477Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_SHPO01000022.1Sequence record reported by the local genomic context database.
Genomic interval181 654-182 376 nt723 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span181 654-184 070 ntGCF_004334065::NZ_SHPO01000022.1::G00009
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_004334065::NZ_SHPO01000022.1::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_SHPO01000022.1All displayed genes belong to this local TCS context.
Neighborhood span181 654-184 070 nt2 417 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
181 654 nt184 070 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
MCC10004_RS07735GCF_004334065#MCC10004_RS07735
RROmpRCurrent focus
181 654-182 376 nt · Forward (+)
MCC10004_RS07740GCF_004334065#MCC10004_RS07740
HKClassic
182 373-184 070 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000008945#BLD_RS00275Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_0881943
Simplified PFAM architecture for RROC_0881943
PFAM domain coverage: 187 / 240 aa (77.9%)
1 aa240 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[4-113] | Trans_reg_C[159-235]
- Domain count: 2
- Matched identifier: RROC_0881943
- Positioned domains: Response_reg 4-113 ; Response_reg 4-113 ; Trans_reg_C 159-235 ; Trans_reg_C 159-235
Cluster members and taxonomy
Representative gene: GCF_000008945#BLD_RS00275
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 679 · GCF_004334065
AssemblyASM433406v1 · Contighaploid
Genome composition2 551 732 bp · 60,0% GCBifidobacterium longum subsp. longum
Signal transduction countsGenes 20 · HK 10 · RR 10CheA 0 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key