1 Response_reg#1
4-111 aa · 108 aa · 46.8% of protein
Raw token
Response_reg:4:2.83e-31:111:108:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
XF_RS01405
Response regulator OmpR family
Xylella fastidiosa 9a5c · GCF_000006725
ClassRRTypeOmpRLength231 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000006725#XF_RS01405Stable P2CS identifier used across views.
GenomeGCF_000006725Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Lysobacterales; Lysobacteraceae; Xylella
Domain signature
Compact overview inferred from the domain field
Response_regTrans_reg_C
Protein length231 aaLength used to scale native and Biotite-like views.
Annotated domains22 with usable coordinates.
Domain coverage182 / 231 aa (78.8%)Merged over positioned domains only.
Domain description1 Response_reg,1 Trans_reg_CSummary 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 aa231 aa
Domain-by-domain annotation2 items
2 Trans_reg_C#2
145-218 aa · 74 aa · 32.0% of protein
Raw token
Trans_reg_C:145:2.91e-21:218:77:77- Raw architecture: Response_reg:4:2.83e-31:111:108:111#Trans_reg_C:145:2.91e-21:218:77:77
- Domain description: 1 Response_reg,1 Trans_reg_C
- 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_000006725::NC_002488.3::G00001
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span338428-340489Genomic interval covered by the local TCS group.
Identifiers
Old locus tagXF0322%2CXF_0322RefSeq proteinWP_010892856.1
Context group ID
GCF_000006725::NC_002488.3::G00001Context members
XF_RS01405XF_RS01410
Partner locus tags
XF_RS01405XF_RS01410
Partner old locus tags
XF0322%2CXF_0322XF0323%2CXF_0323
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_010892856.1Primary protein accession used for annex mappings.
UniProt accessionQ9PGH8Primary UniProt accession resolved in the annex database.
UniProt IDQ9PGH8_XYLFADisplay identifier provided by UniProt.
GO / PubMed5 / 1Unique GO terms and literature references available below.
Reference hubs
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagXF_RS01405Primary locus identifier stored in the genes table.
Old locus tagXF0322%2CXF_0322Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_002488.3Sequence record reported by the local genomic context database.
Genomic interval338 428-339 123 nt696 nt · Forward (+)
StrandForward (+)Strand sign follows the local context database convention.
Local TCS group span338 428-340 489 ntGCF_000006725::NC_002488.3::G00001
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000006725::NC_002488.3::G00001Graphic 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 / repliconNC_002488.3All displayed genes belong to this local TCS context.
Neighborhood span338 428-340 489 nt2 062 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
338 428 nt340 489 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
XF_RS01405GCF_000006725#XF_RS01405
RROmpRCurrent focus
338 428-339 123 nt · Forward (+)
XF_RS01410GCF_000006725#XF_RS01410
HKClassic
339 107-340 489 nt · Forward (+)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000006725#XF_RS01405The current gene is the representative for this cluster.
PFAM architectureResponse_reg + Trans_reg_C2 domains in the representative PFAM annotation.
PFAM architecture for RROC_1157712
Simplified PFAM architecture for RROC_1157712
PFAM domain coverage: 181 / 231 aa (78.4%)
1 aa231 aa
Response_regTrans_reg_C
- Simplified architecture: Response_reg + Trans_reg_C
- Raw architecture: Response_reg[4-111] | Trans_reg_C[145-217]
- Domain count: 2
- Matched identifier: RROC_1157712
- Positioned domains: Response_reg 4-111 ; Response_reg 4-111 ; Trans_reg_C 145-217 ; Trans_reg_C 145-217
Cluster members and taxonomy
Representative gene: GCF_000006725#XF_RS01405
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 160 492 · GCF_000006725
AssemblyASM672v1 · Complete Genomehaploid
Genome composition2 731 750 bp · 52,5% GCXylella fastidiosa 9a5c
Signal transduction countsGenes 30 · HK 12 · RR 17CheA 1 · PP 1
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomPseudomonadatiPhylumPseudomonadotaClassGammaproteobacteriaOrderLysobacteralesFamilyLysobacteraceaeGenusXylella
Lineage path7 lineage nodes
1Bacteria2Pseudomonadati3Pseudomonadota4Gammaproteobacteria5Lysobacterales6Lysobacteraceae7Xylella
Related genes
Preview from the same derived genome key