Gene detail

DXB16_RS00080

Histidine kinase, Hybrid

Dorea longicatena · GCF_003439785

Open genome Open selected cluster RefSeq UniProt

ClassHKTypeHybridLength955 aaTM0ValidatedNoCompleteYesContextpentad

Gene IDGCF_003439785#DXB16_RS00080Stable P2CS identifier used across views.

GenomeGCF_003439785Bacteria; Bacillati; Bacillota; Clostridia; Lachnospirales; Lachnospiraceae; Dorea

Selected clusterHKOC_0322159Run 6 · 1 sequences · id 100% · cov 80% · representative

External referencesWP_117596762.1 · A0A3E5GJC3 · MIST4 DXB16_RS00080RefSeq · UniProt · MIST4

Domain signature

Compact overview inferred from the domain field

SBP_bac_3HisKAHATPase_cResponse_reg

Protein length955 aaLength used to scale native and Biotite-like views.

Annotated domains55 with usable coordinates.

Domain coverage720 / 955 aa (75.4%)Merged over positioned domains only.

Domain description2 SBP_bac_3,1 HisKA,1 HATPase_c,1 Response_regSummary 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

Domain view

Native Biotite-like

Native P2CS viewFrontend rendering from the parsed domain string and TMPRED protein features.

1 aa955 aa

Domain-by-domain annotation5 items

1 SBP_bac_3#1

43-259 aa · 217 aa · 22.7% of protein

Raw tokenSBP_bac_3:43:6.99e-26:259:229:224

2 SBP_bac_3#2

281-482 aa · 202 aa · 21.2% of protein

Raw tokenSBP_bac_3:281:8.54e-18:482:221:224

3 HisKA#3

577-642 aa · 66 aa · 6.9% of protein

Raw tokenHisKA:577:7.72e-18:642:66:64

4 HATPase_c#4

691-808 aa · 118 aa · 12.4% of protein

Raw tokenHATPase_c:691:1.48e-26:808:118:109

5 Response_reg#5

829-945 aa · 117 aa · 12.3% of protein

Raw tokenResponse_reg:829:9.47e-30:945:117:111

Raw architecture: SBP_bac_3:43:6.99e-26:259:229:224#SBP_bac_3:281:8.54e-18:482:221:224#HisKA:577:7.72e-18:642:66:64#HATPase_c:691:1.48e-26:808:118:109#Response_reg:829:9.47e-30:945:117:111
Domain description: 2 SBP_bac_3,1 HisKA,1 HATPase_c,1 Response_reg
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 labelpentadGCF_003439785::NZ_QSVN01000001.1::G00001

Group size55 locus tags listed below.

HK / RR3 / 2Counts resolved for the local TCS neighborhood.

Context span26352-36488Genomic interval covered by the local TCS group.

Identifiers

Old locus tagDXB16_00080RefSeq proteinWP_117596762.1

Context group IDGCF_003439785::NZ_QSVN01000001.1::G00001

Context members

DXB16_RS00080DXB16_RS15555DXB16_RS00090DXB16_RS00095DXB16_RS00105

Partner locus tags

DXB16_RS00080DXB16_RS15555DXB16_RS00090DXB16_RS00095DXB16_RS00105

Partner old locus tags

DXB16_00080DXB16_00085DXB16_00090DXB16_00095DXB16_00105

Partner protein IDs

WP_117596762.1 WP_117596764.1 WP_117596766.1 WP_117596768.1 WP_117596770.1

External references

Resolved via p2cs_annexes.db when the RefSeq protein is present in the annex table

RefSeqWP_117596762.1Primary protein accession used for annex mappings.

UniProt accessionA0A3E5GJC3Primary UniProt accession resolved in the annex database.

UniProt IDA0A3E5GJC3_9FIRMDisplay identifier provided by UniProt.

GO / PubMed1 / 0Unique GO terms and literature references available below.

Reference hubs

Open RefSeq Open UniProt accession

GO terms

GO:0000155

Genomic coordinates

Resolved via p2cs_tcs_context.db when the current locus tag is present in the local context table

Current locus tagDXB16_RS00080Primary locus identifier stored in the genes table.

Old locus tagDXB16_00080Legacy locus tag recovered from the local context mapping.

Contig / repliconNZ_QSVN01000001.1Sequence record reported by the local genomic context database.

Genomic interval26 352-29 219 nt2 868 nt · Forward (+)

StrandForward (+)Strand sign follows the local context database convention.

Local TCS group span26 352-36 488 ntGCF_003439785::NZ_QSVN01000001.1::G00001

Quick actions

Open genome Search genes in genome

Local neighborhood

Graphical neighborhood resolved from the local TCS context group on the current contig

GCF_003439785::NZ_QSVN01000001.1::G00001

Graphic view

Compact Biotite-like

Zoom

Full window Focus gene

Compact keeps a quick overview. Biotite-like switches to a coordinate-aware biological layout with strand and zoom.

Context labelpentadNeighborhood members are ordered by genomic coordinates.

Contig / repliconNZ_QSVN01000001.1All displayed genes belong to this local TCS context.

Neighborhood span26 352-36 488 nt10 137 nt

Members51 current focus gene

Local TCS group mapArrow direction follows strand. The current gene is highlighted with a stronger outline.

26 352 nt36 488 nt

+-DXB16_RS00080 DXB16_RS00090 DXB16_RS00095 DXB16_RS00105

Neighborhood gene cards

5 genes in the current local neighborhood.

DXB16_RS00080GCF_003439785#DXB16_RS00080

HKHybridCurrent focus

26 352-29 219 nt · Forward (+)

Old locus DXB16_00080RefSeq WP_117596762.1

Open current gene

DXB16_RS15555GCF_003439785#DXB16_RS15555

RRCheY

29 290-29 625 nt · Forward (+)

Old locus DXB16_00085RefSeq WP_117596764.1

Open gene

DXB16_RS00090GCF_003439785#DXB16_RS00090

HKHybrid

29 706-32 684 nt · Forward (+)

Old locus DXB16_00090RefSeq WP_117596766.1

Open gene

DXB16_RS00095GCF_003439785#DXB16_RS00095

HKHybrid

32 715-34 775 nt · Forward (+)

Old locus DXB16_00095RefSeq WP_117596768.1

Open gene

DXB16_RS00105GCF_003439785#DXB16_RS00105

RRRpfG

34 989-36 488 nt · Forward (+)

Old locus DXB16_00105RefSeq WP_117596770.1

Open gene

Clusters

CD-HIT memberships and selected cluster details for the current gene class

Available memberships1 cluster

HKOC_0322159HK

Run 61 sequencesid 100%cov 80%

PFAM SBP_bac_3 + HisKA + HATPase_c + Response_reg

Current gene is the representative sequence.

Selected clusterHKOC_0322159Run 6 · HK · 1 sequences

Representative sequenceGCF_003439785#DXB16_RS00080The current gene is the representative for this cluster.

PFAM architectureSBP_bac_3 + HisKA + HATPase_c + Response_reg4 domains in the representative PFAM annotation.

Open in cluster search

PFAM architecture for HKOC_0322159

Simplified PFAM architecture for HKOC_0322159

PFAM domain coverage: 498 / 955 aa (52.1%)

1 aa955 aa

SBP_bac_3HisKAHATPase_cResponse_reg

Simplified architecture: SBP_bac_3 + HisKA + HATPase_c + Response_reg
Raw architecture: SBP_bac_3[51-249] | HisKA[577-642] | HATPase_c[692-807] | Response_reg[829-945]
Domain count: 4
Matched identifier: HKOC_0322159
Positioned domains: SBP_bac_3 51-249 ; HisKA 577-642 ; HATPase_c 692-807 ; Response_reg 829-945

Cluster members and taxonomy

Representative gene: GCF_003439785#DXB16_RS00080

Sankey plot built from the taxonomy of all members in the selected cluster.

Genome taxonomy

Unknown

Taxonomy recordUnknownTaxon ID 88 431 · GCF_003439785

AssemblyASM343978v1 · Scaffoldhaploid

Genome composition3 143 729 bp · 41,5% GCDorea longicatena

Signal transduction countsGenes 83 · HK 42 · RR 40CheA 0 · PP 1

Ranked taxonomy7 ranked levels available

SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderLachnospiralesFamilyLachnospiraceaeGenusDorea

Lineage path7 lineage nodes

1Bacteria2Bacillati3Bacillota4Clostridia5Lachnospirales6Lachnospiraceae7Dorea

Open genome Search genes in genome Search HK genes NCBI assembly files

Related genes

Preview from the same derived genome key