Gene detail

LC479_RS05850

Histidine kinase, Hybrid

Blautia sp. RD014232 · GCF_020509505

Open genome Open selected cluster RefSeq UniProt

ClassHKTypeHybridLength1546 aaTM0ValidatedNoCompleteYesContextorphan

Gene IDGCF_020509505#LC479_RS05850Stable P2CS identifier used across views.

GenomeGCF_020509505Bacteria; Bacillati; Bacillota; Clostridia; Lachnospirales; Lachnospiraceae; Blautia

Selected clusterHKOC_0043495Run 6 · 12 sequences · id 100% · cov 80%

External referencesWP_103731578.1 · A0ABR7FH30 · MIST4 LC479_RS05850RefSeq · UniProt · MIST4

Domain signature

Compact overview inferred from the domain field

PAS_3HisKAHATPase_cResponse_reg

Protein length1546 aaLength used to scale native and Biotite-like views.

Annotated domains77 with usable coordinates.

Domain coverage635 / 1546 aa (41.1%)Merged over positioned domains only.

Domain description4 PAS_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 aa1546 aa

Domain-by-domain annotation7 items

1 PAS_3#1

154-250 aa · 97 aa · 6.3% of protein

Raw tokenPAS_3:154:0.000000000427:250:97:89

2 PAS_3#2

286-368 aa · 83 aa · 5.4% of protein

Raw tokenPAS_3:286:0.0000000000114:368:83:89

3 PAS_3#3

409-479 aa · 71 aa · 4.6% of protein

Raw tokenPAS_3:409:0.0000000000000431:479:73:89

4 PAS_3#4

648-736 aa · 89 aa · 5.8% of protein

Raw tokenPAS_3:648:0.00000000152:736:90:89

5 HisKA#5

1160-1224 aa · 65 aa · 4.2% of protein

Raw tokenHisKA:1160:1.54e-18:1224:65:64

6 HATPase_c#6

1273-1386 aa · 114 aa · 7.4% of protein

Raw tokenHATPase_c:1273:3.11e-29:1386:114:109

7 Response_reg#7

1420-1535 aa · 116 aa · 7.5% of protein

Raw tokenResponse_reg:1420:4.35e-25:1535:116:111

Raw architecture: PAS_3:154:0.000000000427:250:97:89#PAS_3:286:0.0000000000114:368:83:89#PAS_3:409:0.0000000000000431:479:73:89#PAS_3:648:0.00000000152:736:90:89#HisKA:1160:1.54e-18:1224:65:64#HATPase_c:1273:3.11e-29:1386:114:109#Response_reg:1420:4.35e-25:1535:116:111
Domain description: 4 PAS_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 labelorphanGCF_020509505::NZ_JAIXOC010000001.1::G00030

Group size11 locus tag listed below.

HK / RR1 / 0Counts resolved for the local TCS neighborhood.

Context span1287489-1292129Genomic interval covered by the local TCS group.

Identifiers

Old locus tagLC479_05850RefSeq proteinWP_103731578.1

Context group IDGCF_020509505::NZ_JAIXOC010000001.1::G00030

Context members

LC479_RS05850

Partner locus tags

LC479_RS05850

Partner old locus tags

LC479_05850

Partner protein IDs

WP_103731578.1

External references

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

RefSeqWP_103731578.1Primary protein accession used for annex mappings.

UniProt accessionA0ABR7FH30Primary UniProt accession resolved in the annex database.

UniProt IDA0ABR7FH30_9FIRMDisplay identifier provided by UniProt.

GO / PubMed0 / 0Unique GO terms and literature references available below.

Reference hubs

Open RefSeq Open UniProt accession

Genomic coordinates

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

Current locus tagLC479_RS05850Primary locus identifier stored in the genes table.

Old locus tagLC479_05850Legacy locus tag recovered from the local context mapping.

Contig / repliconNZ_JAIXOC010000001.1Sequence record reported by the local genomic context database.

Genomic interval1 287 489-1 292 129 nt4 641 nt · Forward (+)

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

Local TCS group span1 287 489-1 292 129 ntGCF_020509505::NZ_JAIXOC010000001.1::G00030

Quick actions

Open genome Search genes in genome

Local neighborhood

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

GCF_020509505::NZ_JAIXOC010000001.1::G00030

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 labelorphanNeighborhood members are ordered by genomic coordinates.

Contig / repliconNZ_JAIXOC010000001.1All displayed genes belong to this local TCS context.

Neighborhood span1 287 489-1 292 129 nt4 641 nt

Members11 current focus gene

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

1 287 489 nt1 292 129 nt

+-LC479_RS05850

Neighborhood gene cards

1 gene in the current local neighborhood.

LC479_RS05850GCF_020509505#LC479_RS05850

HKHybridCurrent focus

1 287 489-1 292 129 nt · Forward (+)

Old locus LC479_05850RefSeq WP_103731578.1

Open current gene

Clusters

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

Available memberships1 cluster

HKOC_0043495HK

Run 612 sequencesid 100%cov 80%

PFAM PAS_8 + PAS_3 + PAS_3 + PAS_3 + PAS_3 + HisKA + HATPase_c + Response_reg

Representative GCF_003478165#DXA40_RS09350

Selected clusterHKOC_0043495Run 6 · HK · 12 sequences

Representative sequenceGCF_003478165#DXA40_RS09350Use this link to inspect the representative gene detail.

PFAM architecturePAS_8 + PAS_3 + PAS_3 + PAS_3 + PAS_3 + HisKA + HATPase_c + Response_reg8 domains in the representative PFAM annotation.

Open in cluster search Open representative gene

PFAM architecture for HKOC_0043495

Simplified PFAM architecture for HKOC_0043495

PFAM domain coverage: 648 / 1546 aa (41.9%)

1 aa1546 aa

PAS_8PAS_3PAS_3PAS_3PAS_3HisKAHATPase_cResponse_reg

Simplified architecture: PAS_8 + PAS_3 + PAS_3 + PAS_3 + PAS_3 + HisKA + HATPase_c + Response_reg
Raw architecture: PAS_8[12-49] | PAS_3[155-230] | PAS_3[286-365] | PAS_3[410-481] | PAS_3[648-735] | HisKA[1160-1224] | HATPase_c[1273-1386] | Response_reg[1420-1534]
Domain count: 8
Matched identifier: HKOC_0043495
Positioned domains: PAS_8 12-49 ; PAS_3 155-230 ; PAS_3 286-365 ; PAS_3 410-481 ; PAS_3 648-735 ; HisKA 1160-1224 ; HATPase_c 1273-1386 ; Response_reg 1420-1534

Cluster members and taxonomy

Representative gene: GCF_003478165#DXA40_RS09350

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

Genome taxonomy

Unknown

Taxonomy recordUnknownTaxon ID 2 877 528 · GCF_020509505

AssemblyASM2050950v1 · Contighaploid

Genome composition6 238 908 bp · 46,5% GCBlautia sp. RD014232

Signal transduction countsGenes 262 · HK 135 · RR 124CheA 1 · PP 3

Ranked taxonomy7 ranked levels available

SuperkingdomBacteriaKingdomBacillatiPhylumBacillotaClassClostridiaOrderLachnospiralesFamilyLachnospiraceaeGenusBlautia

Lineage path7 lineage nodes

1Bacteria2Bacillati3Bacillota4Clostridia5Lachnospirales6Lachnospiraceae7Blautia

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

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