1 Response_reg#1
4-113 aa · 110 aa · 21.5% of protein
Raw token
Response_reg:4:5.22e-30:113:110:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF1201_RS09715
Response regulator, unclassified
Mediterraneibacter gnavus CC55_001C · GCF_000507805
ClassRRTypeunclassifiedLength512 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000507805#HMPREF1201_RS09715Stable P2CS identifier used across views.
GenomeGCF_000507805Bacteria; Bacillati; Bacillota; Clostridia; Lachnospirales; Lachnospiraceae; Mediterraneibacter
Domain signature
Compact overview inferred from the domain field
Response_regHTH_AraC
Protein length512 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage184 / 512 aa (35.9%)Merged over positioned domains only.
Domain description1 Response_reg,2 HTH_AraCSummary 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 aa512 aa
Domain-by-domain annotation3 items
2 HTH_AraC#2
408-449 aa · 42 aa · 8.2% of protein
Raw token
HTH_AraC:408:0.0000000288:449:42:423 HTH_AraC#3
463-494 aa · 32 aa · 6.3% of protein
Raw token
HTH_AraC:463:0.000000165:494:32:42- Raw architecture: Response_reg:4:5.22e-30:113:110:111#HTH_AraC:408:0.0000000288:449:42:42#HTH_AraC:463:0.000000165:494:32:42
- Domain description: 1 Response_reg,2 HTH_AraC
- 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_KI669416.1::G00029
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span29707-32932Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF1201_01959RefSeq proteinWP_009245652.1
Context group ID
GCF_000507805::NZ_KI669416.1::G00029Context members
HMPREF1201_RS09715HMPREF1201_RS09720
Partner locus tags
HMPREF1201_RS09715HMPREF1201_RS09720
Partner old locus tags
HMPREF1201_01959HMPREF1201_01960
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_009245652.1Primary protein accession used for annex mappings.
UniProt accessionA0A829NHR6Primary UniProt accession resolved in the annex database.
UniProt IDA0A829NHR6_MEDG5Display identifier provided by UniProt.
GO / PubMed3 / 0Unique GO terms and literature references available below.
Reference hubs
GO terms
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagHMPREF1201_RS09715Primary locus identifier stored in the genes table.
Old locus tagHMPREF1201_01959Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_KI669416.1Sequence record reported by the local genomic context database.
Genomic interval29 707-31 245 nt1 539 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span29 707-32 932 ntGCF_000507805::NZ_KI669416.1::G00029
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000507805::NZ_KI669416.1::G00029Graphic 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_KI669416.1All displayed genes belong to this local TCS context.
Neighborhood span29 707-32 932 nt3 226 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
29 707 nt32 932 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF1201_RS09715GCF_000507805#HMPREF1201_RS09715
RRunclassifiedCurrent focus
29 707-31 245 nt · Forward (+)
HMPREF1201_RS09720GCF_000507805#HMPREF1201_RS09720
HKClassic
31 217-32 932 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000507805#HMPREF1201_RS09715The current gene is the representative for this cluster.
PFAM architectureResponse_reg + HTH_182 domains in the representative PFAM annotation.
PFAM architecture for RROC_0143202
Simplified PFAM architecture for RROC_0143202
PFAM domain coverage: 189 / 512 aa (36.9%)
1 aa512 aa
Response_regHTH_18
- Simplified architecture: Response_reg + HTH_18
- Raw architecture: Response_reg[4-113] | HTH_18[421-499]
- Domain count: 2
- Matched identifier: RROC_0143202
- Positioned domains: Response_reg 4-113 ; Response_reg 4-113 ; HTH_18 421-499 ; HTH_18 421-499
Cluster members and taxonomy
Representative gene: GCF_000507805#HMPREF1201_RS09715
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