1 Response_reg#1
5-112 aa · 108 aa · 45.0% of protein
Raw token
Response_reg:5:7.48e-26:112:108:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF9474_RS12640
Response regulator, AmiR_NasR family
[Clostridium] symbiosum WAL-14163 · GCF_000189595
ClassRRTypeAmiR_NasRLength240 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000189595#HMPREF9474_RS12640Stable P2CS identifier used across views.
GenomeGCF_000189595Bacteria; Bacillati; Bacillota; Clostridia; Lachnospirales; Lachnospiraceae; Lachnoclostridium
Domain signature
Compact overview inferred from the domain field
Response_regANTAR
Protein length240 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage202 / 240 aa (84.2%)Merged over positioned domains only.
Domain description1 Response_reg,2 ANTARSummary 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 aa240 aa
Domain-by-domain annotation3 items
2 ANTAR#2
138-186 aa · 49 aa · 20.4% of protein
Raw token
ANTAR:138:0.000000000121:186:49:493 ANTAR#3
192-236 aa · 45 aa · 18.8% of protein
Raw token
ANTAR:192:0.0000000162:236:45:49- Raw architecture: Response_reg:5:7.48e-26:112:108:111#ANTAR:138:0.000000000121:186:49:49#ANTAR:192:0.0000000162:236:45:49
- Domain description: 1 Response_reg,2 ANTAR
- 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_000189595::NZ_GL834310.1::G00039
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span234240-236019Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF9474_02474RefSeq proteinWP_003500926.1
Context group ID
GCF_000189595::NZ_GL834310.1::G00039Context members
HMPREF9474_RS12635HMPREF9474_RS12640
Partner locus tags
HMPREF9474_RS12635HMPREF9474_RS12640
Partner old locus tags
HMPREF9474_02473HMPREF9474_02474
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003500926.1Primary protein accession used for annex mappings.
UniProt accessionE7GNH9Primary UniProt accession resolved in the annex database.
UniProt IDE7GNH9_CLOS6Display identifier provided by UniProt.
GO / PubMed2 / 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 tagHMPREF9474_RS12640Primary locus identifier stored in the genes table.
Old locus tagHMPREF9474_02474Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_GL834310.1Sequence record reported by the local genomic context database.
Genomic interval235 297-236 019 nt723 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span234 240-236 019 ntGCF_000189595::NZ_GL834310.1::G00039
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000189595::NZ_GL834310.1::G00039Graphic 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_GL834310.1All displayed genes belong to this local TCS context.
Neighborhood span234 240-236 019 nt1 780 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
234 240 nt236 019 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF9474_RS12635GCF_000189595#HMPREF9474_RS12635
HKClassic
234 240-235 295 nt · Reverse (-)
HMPREF9474_RS12640GCF_000189595#HMPREF9474_RS12640
RRAmiR_NasRCurrent focus
235 297-236 019 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000189595#HMPREF9474_RS12640The current gene is the representative for this cluster.
PFAM architectureResponse_reg + ANTAR + ANTAR3 domains in the representative PFAM annotation.
PFAM architecture for RROC_0882385
Simplified PFAM architecture for RROC_0882385
PFAM domain coverage: 203 / 240 aa (84.6%)
1 aa240 aa
Response_regANTARANTAR
- Simplified architecture: Response_reg + ANTAR + ANTAR
- Raw architecture: Response_reg[5-112] | ANTAR[137-186] | ANTAR[192-236]
- Domain count: 3
- Matched identifier: RROC_0882385
- Positioned domains: Response_reg 5-112 ; Response_reg 5-112 ; ANTAR 137-186 ; ANTAR 137-186 ; ANTAR 192-236 ; ANTAR 192-236
Cluster members and taxonomy
Representative gene: GCF_000189595#HMPREF9474_RS12640
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 742 740 · GCF_000189595
AssemblyClos_symb_WAL_14163_V1 · Scaffoldhaploid
Genome composition5 352 498 bp · 47,5% GC[Clostridium] symbiosum WAL-14163
Signal transduction countsGenes 111 · HK 54 · RR 54CheA 0 · PP 3
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderLachnospiralesFamilyLachnospiraceaeGenusLachnoclostridium
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Clostridia5Lachnospirales6Lachnospiraceae7Lachnoclostridium
Related genes
Preview from the same derived genome key