1 Response_reg#1
6-119 aa · 114 aa · 21.2% of protein
Raw token
Response_reg:6:3.14e-30:119:114:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF9474_RS08180
Response regulator, unclassified
[Clostridium] symbiosum WAL-14163 · GCF_000189595
ClassRRTypeunclassifiedLength537 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000189595#HMPREF9474_RS08180Stable P2CS identifier used across views.
GenomeGCF_000189595Bacteria; Bacillati; Bacillota; Clostridia; Lachnospirales; Lachnospiraceae; Lachnoclostridium
Domain signature
Compact overview inferred from the domain field
Response_regHTH_AraC
Protein length537 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage186 / 537 aa (34.6%)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 aa537 aa
Domain-by-domain annotation3 items
2 HTH_AraC#2
443-485 aa · 43 aa · 8.0% of protein
Raw token
HTH_AraC:443:0.000000000295:485:43:423 HTH_AraC#3
506-534 aa · 29 aa · 5.4% of protein
Raw token
HTH_AraC:506:0.00000671:534:29:42- Raw architecture: Response_reg:6:3.14e-30:119:114:111#HTH_AraC:443:0.000000000295:485:43:42#HTH_AraC:506:0.00000671:534:29:42
- 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_000189595::NZ_GL834307.1::G00027
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span330066-333479Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF9474_01589RefSeq proteinWP_003507820.1
Context group ID
GCF_000189595::NZ_GL834307.1::G00027Context members
HMPREF9474_RS08175HMPREF9474_RS08180
Partner locus tags
HMPREF9474_RS08175HMPREF9474_RS08180
Partner old locus tags
HMPREF9474_01588HMPREF9474_01589
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003507820.1Primary protein accession used for annex mappings.
UniProt accessionE7GKZ4Primary UniProt accession resolved in the annex database.
UniProt IDE7GKZ4_CLOS6Display identifier provided by UniProt.
GO / PubMed4 / 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 tagHMPREF9474_RS08180Primary locus identifier stored in the genes table.
Old locus tagHMPREF9474_01589Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_GL834307.1Sequence record reported by the local genomic context database.
Genomic interval331 866-333 479 nt1 614 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span330 066-333 479 ntGCF_000189595::NZ_GL834307.1::G00027
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000189595::NZ_GL834307.1::G00027Graphic 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_GL834307.1All displayed genes belong to this local TCS context.
Neighborhood span330 066-333 479 nt3 414 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
330 066 nt333 479 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF9474_RS08175GCF_000189595#HMPREF9474_RS08175
HKClassic
330 066-331 865 nt · Reverse (-)
HMPREF9474_RS08180GCF_000189595#HMPREF9474_RS08180
RRunclassifiedCurrent focus
331 866-333 479 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000189595#HMPREF9474_RS08180The current gene is the representative for this cluster.
PFAM architectureResponse_reg + GGDEF_2 + HTH_183 domains in the representative PFAM annotation.
PFAM architecture for RROC_0096237
Simplified PFAM architecture for RROC_0096237
PFAM domain coverage: 306 / 537 aa (57.0%)
1 aa537 aa
Response_regGGDEF_2HTH_18
- Simplified architecture: Response_reg + GGDEF_2 + HTH_18
- Raw architecture: Response_reg[6-118] | GGDEF_2[182-296] | HTH_18[457-534]
- Domain count: 3
- Matched identifier: RROC_0096237
- Positioned domains: Response_reg 6-118 ; Response_reg 6-118 ; GGDEF_2 182-296 ; GGDEF_2 182-296 ; HTH_18 457-534 ; HTH_18 457-534
Cluster members and taxonomy
Representative gene: GCF_000189595#HMPREF9474_RS08180
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