1 Response_reg#1
4-113 aa · 110 aa · 24.3% of protein
Raw token
Response_reg:4:1.06e-27:113:111:111P2CS-Web
Two-component systems, rebuilt for exploration
Gene detail
BPOF4_RS13935
Response regulator NtrC family
Alkalihalophilus pseudofirmus OF4 · GCF_000005825
ClassRRTypeNtrCLength453 aaTM0ValidatedNoCompleteYesContextpaired
Gene IDGCF_000005825#BPOF4_RS13935Stable P2CS identifier used across views.
GenomeGCF_000005825Bacteria; Bacillati; Bacillota; Bacilli; Bacillales; Bacillaceae; Alkalihalophilus
Domain signature
Compact overview inferred from the domain field
Response_regAAA_5HTH_8
Protein length453 aaLength used to scale native and Biotite-like views.
Annotated domains33 with usable coordinates.
Domain coverage269 / 453 aa (59.4%)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 aa453 aa
Domain-by-domain annotation3 items
2 AAA_5#2
164-282 aa · 119 aa · 26.3% of protein
Raw token
AAA_5:164:0.000000254:282:125:1353 HTH_8#3
409-448 aa · 40 aa · 8.8% of protein
Raw token
HTH_8:409:0.000000000103:448:40:40- Raw architecture: Response_reg:4:1.06e-27:113:111:111#AAA_5:164:0.000000254:282:125:135#HTH_8:409:0.000000000103:448:40:40
- 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_000005825::NC_013791.2::G00034
Group size22 locus tags listed below.
HK / RR1 / 1Counts resolved for the local TCS neighborhood.
Context span2740191-2743531Genomic interval covered by the local TCS group.
Identifiers
Old locus tagBpOF4_02410RefSeq proteinWP_012959827.1
Context group ID
GCF_000005825::NC_013791.2::G00034Context members
BPOF4_RS13935BPOF4_RS13940
Partner locus tags
BPOF4_RS13935BPOF4_RS13940
Partner old locus tags
BpOF4_02410BpOF4_02415
Partner protein IDs
External references
Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table
RefSeqWP_012959827.1Primary protein accession used for annex mappings.
UniProt accessionD3FVN4Primary UniProt accession resolved in the annex database.
UniProt IDD3FVN4_ALKPODisplay identifier provided by UniProt.
GO / PubMed4 / 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 tagBPOF4_RS13935Primary locus identifier stored in the genes table.
Old locus tagBpOF4_02410Legacy locus tag recovered from the local context mapping.
Contig / repliconNC_013791.2Sequence record reported by the local genomic context database.
Genomic interval2 740 191-2 741 552 nt1 362 nt · Reverse (-)
StrandReverse (-)Strand sign follows the local context database convention.
Local TCS group span2 740 191-2 743 531 ntGCF_000005825::NC_013791.2::G00034
Quick actions
Local neighborhood
Graphical neighborhood resolved from the local TCS context group on the current contig
GCF_000005825::NC_013791.2::G00034Graphic 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_013791.2All displayed genes belong to this local TCS context.
Neighborhood span2 740 191-2 743 531 nt3 341 nt
Members21 current focus gene
Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.
2 740 191 nt2 743 531 nt
Neighborhood gene cards
2 genes in the current local neighborhood.
BPOF4_RS13935GCF_000005825#BPOF4_RS13935
RRNtrCCurrent focus
2 740 191-2 741 552 nt · Reverse (-)
BPOF4_RS13940GCF_000005825#BPOF4_RS13940
HKClassic
2 741 549-2 743 531 nt · Reverse (-)
Clusters
CD-HIT memberships and selected cluster details for the current gene class
Available memberships1 cluster
Representative sequenceGCF_000005825#BPOF4_RS13935The current gene is the representative for this cluster.
PFAM architectureResponse_reg + Sigma54_activat + AAA_lid_14 + HTH_84 domains in the representative PFAM annotation.
PFAM architecture for RROC_0273256
Simplified PFAM architecture for RROC_0273256
PFAM domain coverage: 400 / 453 aa (88.3%)
1 aa453 aa
Response_regSigma54_activatAAA_lid_14HTH_8
- Simplified architecture: Response_reg + Sigma54_activat + AAA_lid_14 + HTH_8
- Raw architecture: Response_reg[4-112] | Sigma54_activat[141-308] | AAA_lid_14[313-393] | HTH_8[407-448]
- Domain count: 4
- Matched identifier: RROC_0273256
- Positioned domains: Response_reg 4-112 ; Response_reg 4-112 ; Sigma54_activat 141-308 ; Sigma54_activat 141-308 ; AAA_lid_14 313-393 ; AAA_lid_14 313-393 ; HTH_8 407-448 ; HTH_8 407-448
Cluster members and taxonomy
Representative gene: GCF_000005825#BPOF4_RS13935
Sankey plot built from the taxonomy of all members in the selected cluster.
Genome taxonomy
Unknown
Taxonomy recordUnknownTaxon ID 398 511 · GCF_000005825
AssemblyASM582v2 · Complete Genomehaploid
Genome composition4 249 248 bp · 40,0% GCAlkalihalophilus pseudofirmus OF4
Signal transduction countsGenes 76 · HK 40 · RR 36CheA 1 · PP 0
Ranked taxonomy7 ranked levels available
SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassBacilliOrderBacillalesFamilyBacillaceaeGenusAlkalihalophilus
Lineage path7 lineage nodes
1Bacteria2Bacillati3Bacillota4Bacilli5Bacillales6Bacillaceae7Alkalihalophilus
Related genes
Preview from the same derived genome key