1 Response_reg#1
6-116 aa · 111 aa · 23.7% of protein
Raw token
Response_reg:6:7.31e-39:116:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
HMPREF9534_RS08545
Response regulator NtrC family
Escherichia coli MS 69-1 · GCF_000164315
ClassRRTypeNtrCLength469 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000164315#HMPREF9534_RS08545Stable P2CS identifier used across views.
GenomeGCF_000164315Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia
Domain signature
Compact overview inferred from the domain field
Response_regAAA_5HTH_8
Protein length469 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage270 / 469 aa (57.6%)Merged over positioned domains only.
Domain description1 Response_reg,1 AAA_5,1 HTH_8Summary 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 aa469 aa
Domain-by-domain annotation3 items
2 AAA_5#2
163-281 aa · 119 aa · 25.4% of protein
Raw token
AAA_5:163:0.0000000627:281:128:1353 HTH_8#3
427-466 aa · 40 aa · 8.5% of protein
Raw token
HTH_8:427:0.0000000000000167:466:40:40- Raw architecture: Response_reg:6:7.31e-39:116:111:111#AAA_5:163:0.0000000627:281:128:135#HTH_8:427:0.0000000000000167:466:40:40
- Domain description: 1 Response_reg,1 AAA_5,1 HTH_8
- 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_000164315::NZ_GG772427.1::G00014
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span8616-11086Genomic interval covered by the local TCS group.
Identifiers
Old locus tagHMPREF9534_03566RefSeq proteinWP_001188777.1
Context group ID
GCF_000164315::NZ_GG772427.1::G00014Context members
HMPREF9534_RS08545HMPREF9534_RS08540
Partner locus tags
HMPREF9534_RS08545HMPREF9534_RS08540
Partner old locus tags
HMPREF9534_03566HMPREF9534_03567
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_001188777.1Primary protein accession used for annex mappings.
UniProt accessionA0AAV3H3F7Primary UniProt accession resolved in the annex database.
UniProt IDA0AAV3H3F7_ECOLXDisplay 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 tagHMPREF9534_RS08545Primary locus identifier stored in the genes table.
Old locus tagHMPREF9534_03566Legacy locus tag recovered from the local context mapping.
Contig / repliconNZ_GG772427.1Sequence record reported by the local genomic context database.
Genomic interval8 616-10 025 nt1 410 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span8 616-11 086 ntGCF_000164315::NZ_GG772427.1::G00014
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000164315::NZ_GG772427.1::G00014Graphic 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_GG772427.1All displayed genes belong to this local TCS context.
Neighborhood span8 616-11 086 nt2 471 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
8 616 nt11 086 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
HMPREF9534_RS08545GCF_000164315#HMPREF9534_RS08545
RRNtrCCurrent focus
8 616-10 025 nt · Reverse (-)
HMPREF9534_RS08540GCF_000164315#HMPREF9534_RS08540
HKClassic
10 037-11 086 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
PFAM architectureResponse_reg + Sigma54_activat + AAA_lid_14 + HTH_84 domains in the representative PFAM annotation.
PFAM architecture for RROC_0209493
Simplified PFAM architecture for RROC_0209493
PFAM domain coverage: 401 / 469 aa (85.5%)
1 aa469 aa
Response_regSigma54_activatAAA_lid_14HTH_8
- Simplified architecture: Response_reg + Sigma54_activat + AAA_lid_14 + HTH_8
- Raw architecture: Response_reg[6-115] | Sigma54_activat[140-306] | AAA_lid_14[312-395] | HTH_8[427-466]
- Domain count: 4
- Matched identifier: RROC_0209493
- Positioned domains: Response_reg 6-115 ; Response_reg 6-115 ; Sigma54_activat 140-306 ; Sigma54_activat 140-306 ; AAA_lid_14 312-395 ; AAA_lid_14 312-395 ; HTH_8 427-466 ; HTH_8 427-466
Cluster members and taxonomy
Representative gene: GCF_000005845#b3868
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 749 531 · GCF_000164315
AssemblyASM16431v1 · Scaffoldhaploid
Genome composition5 220 755 bp · 50,5% GCEscherichia coli MS 69-1
Signal transduction countsGenes 65 · HK 31 · RR 34CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomPseudomonadatiPhylumPseudomonadotaClassGammaproteobacteriaOrderEnterobacteralesFamilyEnterobacteriaceaeGenusEscherichia
Lineage path7 lineage nodes
1Bacteria2Pseudomonadati3Pseudomonadota4Gammaproteobacteria5Enterobacterales6Enterobacteriaceae7Escherichia
Related genes
Preview from the same derived genome key