1 Response_reg#1
4-115 aa · 112 aa · 48.3% of protein
Raw token
Response_reg:4:2.84e-35:115:113:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
MCC10008_RS04185
Response regulator OmpR family
Bifidobacterium longum subsp. longum · GCF_004334035
ClassRRTypeOmpRLength232 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_004334035#MCC10008_RS04185Stable P2CS identifier used across views.
GenomeGCF_004334035Bacteria; Bacillati; Actinomycetota; Actinomycetes; Bifidobacteriales; Bifidobacteriaceae; Bifidobacterium
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length232 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage186 / 232 aa (80.2%)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
155-228 aa · 74 aa · 31.9% of protein
Raw token
Trans_reg_C:155:8.55e-35:228:74:77- Raw architecture: Response_reg:4:2.84e-35:115:113:111#Trans_reg_C:155:8.55e-35:228:74:77
- 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_004334035::NZ_SHPR01000018.1::G00005
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span86087-87705Genomic interval covered by the local TCS group.
Identifiers
Old locus tagMCC10008_0781RefSeq proteinWP_002347245.1
Context group ID
GCF_004334035::NZ_SHPR01000018.1::G00005Context members
MCC10008_RS04180MCC10008_RS04185
Partner locus tags
MCC10008_RS04180MCC10008_RS04185
Partner old locus tags
MCC10008_0780MCC10008_0781
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_002347245.1Primary protein accession used for annex mappings.
UniProt accessionA0A6N4TFU3Primary UniProt accession resolved in the annex database.
UniProt IDA0A6N4TFU3_9FIRMDisplay 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 tagMCC10008_RS04185Primary locus identifier stored in the genes table.
Old locus tagMCC10008_0781Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_SHPR01000018.1Sequence record reported by the local genomic context database.
Genomic interval87 007-87 705 nt699 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span86 087-87 705 ntGCF_004334035::NZ_SHPR01000018.1::G00005
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_004334035::NZ_SHPR01000018.1::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_SHPR01000018.1All displayed genes belong to this local TCS context.
Neighborhood span86 087-87 705 nt1 619 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
86 087 nt87 705 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
MCC10008_RS04180GCF_004334035#MCC10008_RS04180
HKClassic
86 087-87 004 nt · Reverse (-)
MCC10008_RS04185GCF_004334035#MCC10008_RS04185
RROmpRCurrent focus
87 007-87 705 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000242355#MUI_RS0116835Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1120360
Simplified PFAM architecture for RROC_1120360
PFAM domain coverage: 186 / 232 aa (80.2%)
1 aa232 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[4-115] | Trans_reg_C[155-228]
- Domain count: 2
- Matched identifier: RROC_1120360
- Positioned domains: Response_reg 4-115 ; Response_reg 4-115 ; Trans_reg_C 155-228 ; Trans_reg_C 155-228
Cluster members and taxonomy
Representative gene: GCF_000242355#MUI_RS0116835
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 679 · GCF_004334035
AssemblyASM433403v1 · Contighaploid
Genome composition2 543 674 bp · 60,0% GCBifidobacterium longum subsp. longum
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