1 Response_reg#1
6-115 aa · 110 aa · 47.0% of protein
Raw token
Response_reg:6:7.21e-39:115:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF1201_RS12500
Response regulator OmpR family
Mediterraneibacter gnavus CC55_001C · GCF_000507805
ClassRRTypeOmpRLength234 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000507805#HMPREF1201_RS12500Stable P2CS identifier used across views.
GenomeGCF_000507805Bacteria; Bacillati; Bacillota; Clostridia; Lachnospirales; Lachnospiraceae; Mediterraneibacter
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
Native P2CS viewFrontend rendering from the parsed domain string and TMPRED protein features.
1 aa234 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
153-229 aa · 77 aa · 32.9% of protein
Raw token
Trans_reg_C:153:2.28e-26:229:77:77- Raw architecture: Response_reg:6:7.21e-39:115:111:111#Trans_reg_C:153:2.28e-26:229:77:77
- 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_000507805::NZ_KI669417.1::G00040
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span119425-121666Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF1201_02521RefSeq proteinWP_004842962.1
Context group ID
GCF_000507805::NZ_KI669417.1::G00040Context members
HMPREF1201_RS12500HMPREF1201_RS12505
Partner locus tags
HMPREF1201_RS12500HMPREF1201_RS12505
Partner old locus tags
HMPREF1201_02521HMPREF1201_02522
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_004842962.1Primary protein accession used for annex mappings.
UniProt accessionA7B347Primary UniProt accession resolved in the annex database.
UniProt IDA7B347_MEDG7Display identifier provided by UniProt.
GO / PubMed6 / 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 tagHMPREF1201_RS12500Primary locus identifier stored in the genes table.
Old locus tagHMPREF1201_02521Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_KI669417.1Sequence record reported by the local genomic context database.
Genomic interval119 425-120 129 nt705 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span119 425-121 666 ntGCF_000507805::NZ_KI669417.1::G00040
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000507805::NZ_KI669417.1::G00040Graphic 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_KI669417.1All displayed genes belong to this local TCS context.
Neighborhood span119 425-121 666 nt2 242 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
119 425 nt121 666 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF1201_RS12500GCF_000507805#HMPREF1201_RS12500
RROmpRCurrent focus
119 425-120 129 nt · Reverse (-)
HMPREF1201_RS12505GCF_000507805#HMPREF1201_RS12505
HKClassic
120 122-121 666 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000169475#RUMGNA_RS08670Use this link to inspect the representative gene detail.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1047556
Simplified PFAM architecture for RROC_1047556
PFAM domain coverage: 186 / 234 aa (79.5%)
1 aa234 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[6-114] | Trans_reg_C[153-229]
- Domain count: 2
- Matched identifier: RROC_1047556
- Positioned domains: Response_reg 6-114 ; Response_reg 6-114 ; Trans_reg_C 153-229 ; Trans_reg_C 153-229
Cluster members and taxonomy
Representative gene: GCF_000169475#RUMGNA_RS08670
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 1 073 375 · GCF_000507805
AssemblyRumi_gnav_CC55_001C_V1 · Scaffoldhaploid
Genome composition3 181 861 bp · 43,0% GCMediterraneibacter gnavus CC55_001C
Signal transduction countsGenes 78 · HK 37 · RR 40CheA 0 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderLachnospiralesFamilyLachnospiraceaeGenusMediterraneibacter
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Lachnospirales6Lachnospiraceae7Mediterraneibacter
Related genes
Preview from the same derived genome key