1 Response_reg#1
6-110 aa · 105 aa · 19.1% of protein
Raw token
Response_reg:6:1.06e-29:110:106:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF9474_RS13160
Response regulator, RpfG family
[Clostridium] symbiosum WAL-14163 · GCF_000189595
ClassRRTypeRpfGLength550 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000189595#HMPREF9474_RS13160Stable P2CS identifier used across views.
GenomeGCF_000189595Bacteria; Bacillati; Bacillota; Clostridia; Lachnospirales; Lachnospiraceae; Lachnoclostridium
Domain signature
Compact overview inferred from the domain field
Response_regHDGGDEF
Protein length550 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage356 / 550 aa (64.7%)Merged over positioned domains only.
Domain description1 Response_reg,1 HD,1 GGDEFSummary 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 aa550 aa
Domain-by-domain annotation3 items
2 HD#2
193-300 aa · 108 aa · 19.6% of protein
Raw token
HD:193:0.0000000000000722:300:108:1103 GGDEF#3
390-532 aa · 143 aa · 26.0% of protein
Raw token
GGDEF:390:2.58e-39:532:156:160- Raw architecture: Response_reg:6:1.06e-29:110:106:111#HD:193:0.0000000000000722:300:108:110#GGDEF:390:2.58e-39:532:156:160
- Domain description: 1 Response_reg,1 HD,1 GGDEF
- 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_GL834311.1::G00042
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span10246-14843Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF9474_02575RefSeq proteinWP_003501149.1
Context group ID
GCF_000189595::NZ_GL834311.1::G00042Context members
HMPREF9474_RS13160HMPREF9474_RS13170
Partner locus tags
HMPREF9474_RS13160HMPREF9474_RS13170
Partner old locus tags
HMPREF9474_02575HMPREF9474_02577
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_003501149.1Primary protein accession used for annex mappings.
UniProt accessionE7GNT0Primary UniProt accession resolved in the annex database.
UniProt IDE7GNT0_CLOS6Display identifier provided by UniProt.
GO / PubMed1 / 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_RS13160Primary locus identifier stored in the genes table.
Old locus tagHMPREF9474_02575Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_GL834311.1Sequence record reported by the local genomic context database.
Genomic interval10 246-11 898 nt1 653 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span10 246-14 843 ntGCF_000189595::NZ_GL834311.1::G00042
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000189595::NZ_GL834311.1::G00042Graphic 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_GL834311.1All displayed genes belong to this local TCS context.
Neighborhood span10 246-14 843 nt4 598 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
10 246 nt14 843 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF9474_RS13160GCF_000189595#HMPREF9474_RS13160
RRRpfGCurrent focus
10 246-11 898 nt · Forward (+)
HMPREF9474_RS13170GCF_000189595#HMPREF9474_RS13170
HKHybrid
12 285-14 843 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000189595#HMPREF9474_RS13160The current gene is the representative for this cluster.
PFAM architectureResponse_reg + HD_5 + GGDEF3 domains in the representative PFAM annotation.
PFAM architecture for RROC_0073604
Simplified PFAM architecture for RROC_0073604
PFAM domain coverage: 376 / 550 aa (68.4%)
1 aa550 aa
Response_regHD_5GGDEF
- Simplified architecture: Response_reg + HD_5 + GGDEF
- Raw architecture: Response_reg[6-112] | HD_5[199-323] | GGDEF[390-533]
- Domain count: 3
- Matched identifier: RROC_0073604
- Positioned domains: Response_reg 6-112 ; Response_reg 6-112 ; HD_5 199-323 ; HD_5 199-323 ; GGDEF 390-533 ; GGDEF 390-533
Cluster members and taxonomy
Representative gene: GCF_000189595#HMPREF9474_RS13160
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