1 2CSK_N#1
26-166 aa · 141 aa · 30.7% of protein
Raw token
2CSK_N:26:4.41e-43:166:141:143P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
XF_RS01410
Histidine kinase, Classic
Xylella fastidiosa 9a5c · GCF_000006725
ClassHKTypeClassicLength460 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000006725#XF_RS01410Stable P2CS identifier used across views.
GenomeGCF_000006725Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Lysobacterales; Lysobacteraceae; Xylella
Domain signature
Compact overview inferred from the domain field
2CSK_NHAMPHisKAHATPase_c
Protein length460 aaLength used to scale native and Biotite-like views.
Annotated domains44 with usable coordinates.
Domain coverage372 / 460 aa (80.9%)Merged over positioned domains only.
Domain description1 2CSK_N,1 HAMP,1 HisKA,1 HATPase_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 aa460 aa
Domain-by-domain annotation4 items
2 HAMP#2
170-238 aa · 69 aa · 15.0% of protein
Raw token
HAMP:170:0.00000446:238:69:693 HisKA#3
243-299 aa · 57 aa · 12.4% of protein
Raw token
HisKA:243:0.00000000009:299:57:644 HATPase_c#4
352-456 aa · 105 aa · 22.8% of protein
Raw token
HATPase_c:352:1.06e-29:456:106:109- Raw architecture: 2CSK_N:26:4.41e-43:166:141:143#HAMP:170:0.00000446:238:69:69#HisKA:243:0.00000000009:299:57:64#HATPase_c:352:1.06e-29:456:106:109
- Domain description: 1 2CSK_N,1 HAMP,1 HisKA,1 HATPase_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 tagXF0323%2CXF_0323RefSeq proteinWP_010892857.1
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_010892857.1Primary protein accession used for annex mappings.
UniProt accessionQ9PGH7Primary UniProt accession resolved in the annex database.
UniProt IDQ9PGH7_XYLFADisplay identifier provided by UniProt.
GO / PubMed2 / 1Unique GO terms and literature references available below.
Reference hubs
GO terms
PubMed
Genomic coordinates
Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table
Current locus tagXF_RS01410Primary locus identifier stored in the genes table.
Old locus tagXF0323%2CXF_0323Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_002488.3Sequence record reported by the local genomic context database.
Genomic interval339 107-340 489 nt1 383 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
RROmpR
338 428-339 123 nt · Forward (+)
XF_RS01410GCF_000006725#XF_RS01410
HKClassicCurrent focus
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_RS01410The current gene is the representative for this cluster.
PFAM architecture2CSK_N + HisKA + HATPase_c3 domains in the representative PFAM annotation.
PFAM architecture for HKOC_1833572
Simplified PFAM architecture for HKOC_1833572
PFAM domain coverage: 307 / 460 aa (66.7%)
1 aa460 aa
2CSK_NHisKAHATPase_c
- Simplified architecture: 2CSK_N + HisKA + HATPase_c
- Raw architecture: 2CSK_N[26-166] | HisKA[243-302] | HATPase_c[352-457]
- Domain count: 3
- Matched identifier: HKOC_1833572
- Positioned domains: 2CSK_N 26-166 ; HisKA 243-302 ; HATPase_c 352-457
Cluster members and taxonomy
Representative gene: GCF_000006725#XF_RS01410
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