1 Response_reg#1
6-99 aa · 94 aa · 43.7% of protein
Raw token
Response_reg:6:8.1e-26:99:94:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
PMN34_RS02560
Response regulator OmpR family
Bifidobacterium pseudocatenulatum · GCF_028314485
ClassRRTypeOmpRLength215 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_028314485#PMN34_RS02560Stable P2CS identifier used across views.
GenomeGCF_028314485Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length215 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage171 / 215 aa (79.5%)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 aa215 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
133-209 aa · 77 aa · 35.8% of protein
Raw token
Trans_reg_C:133:4.93e-29:209:78:77- Raw architecture: Response_reg:6:8.1e-26:99:94:111#Trans_reg_C:133:4.93e-29:209:78:77
- 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_028314485::NZ_JAQKQY010000001.1::G00006
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span516454-518129Genomic interval covered by the local TCS group.
Identifiers
Old locus tagPMN34_02555RefSeq proteinWP_004219669.1
Context group ID
GCF_028314485::NZ_JAQKQY010000001.1::G00006Context members
PMN34_RS02555PMN34_RS02560
Partner locus tags
PMN34_RS02555PMN34_RS02560
Partner old locus tags
PMN34_02555
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_004219669.1Primary protein accession used for annex mappings.
UniProt accessionC0BPX7Primary UniProt accession resolved in the annex database.
UniProt IDC0BPX7_BIFPSDisplay 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 tagPMN34_RS02560Primary locus identifier stored in the genes table.
Old locus tagPMN34_02555Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_JAQKQY010000001.1Sequence record reported by the local genomic context database.
Genomic interval517 482-518 129 nt648 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span516 454-518 129 ntGCF_028314485::NZ_JAQKQY010000001.1::G00006
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_028314485::NZ_JAQKQY010000001.1::G00006Graphic 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_JAQKQY010000001.1All displayed genes belong to this local TCS context.
Neighborhood span516 454-518 129 nt1 676 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
516 454 nt518 129 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
PMN34_RS02555GCF_028314485#PMN34_RS02555
HKClassic
516 454-517 485 nt · Reverse (-)
PMN34_RS02560GCF_028314485#PMN34_RS02560
RROmpRCurrent focus
517 482-518 129 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000173435#BIFPSEUDO_RS00520Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1906849
Simplified PFAM architecture for RROC_1906849
PFAM domain coverage: 169 / 215 aa (78.6%)
1 aa215 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[6-98] | Trans_reg_C[133-208]
- Domain count: 2
- Matched identifier: RROC_1906849
- Positioned domains: Response_reg 6-98 ; Response_reg 6-98 ; Trans_reg_C 133-208 ; Trans_reg_C 133-208
Cluster members and taxonomy
Representative gene: GCF_000173435#BIFPSEUDO_RS00520
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 28 026 · GCF_028314485
AssemblyASM2831448v1 · Scaffoldhaploid
Genome composition2 274 762 bp · 56,5% GCBifidobacterium pseudocatenulatum
Signal transduction countsGenes 24 · HK 11 · RR 12CheA 0 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumActinomycetotaClassActinomycetesOrderBifidobacterialesFamilyBifidobacteriaceaeGenusBifidobacterium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Actinomycetota4Actinomycetes5Bifidobacteriales6Bifidobacteriaceae7Bifidobacterium
Related genes
Preview from the same derived genome key