Lydi_00040 Lydi_00040   Lydi_00060 Lydi_00060

Lydi_00050 : CDS information

close this sectionLocation

Organism
StrainTP-A0598 (=NBRC 110027)
Entry nameLydicamycin
Contig
Start / Stop / Direction9,318 / 9,974 / + [in whole cluster]
9,318 / 9,974 / + [in contig]
Location9318..9974 [in whole cluster]
9318..9974 [in contig]
TypeCDS
Length657 bp (218 aa)
Click on the icon to see Genetic map.

close this sectionAnnotation

Category4.1 transcriptional regulator
Productputative two-component system response regulator
Product (GenBank)putative two-component response regulator
GeneTPA0598_03_00690
Gene (GenBank)
EC number
Keyword
Note
Note (GenBank)
Reference
ACC
PmId
[26380643] Draft genome sequence of marine-derived Streptomyces sp. TP-A0598, a producer of anti-MRSA antibiotic lydicamycins. (Stand Genomic Sci. , 2015)
comment
Streptomyces sp. TP-A0598におけるputative lydicamycin biosynthetic gene clusterの報告。
このclusterが実際にlydicamycin産生に関わるかどうかの実験的な確認はされていない。

TPA0598_03_00690(218aa): two-compornent system response regulator

本文中にコメントなし。
Related Reference
ACC
Q54821
NITE
Adria_00100
PmId
[7868594] Regulation of daunorubicin production in Streptomyces peucetius by the dnrR2 locus. (J Bacteriol. , 1995)
[8892835] The DnrN protein of Streptomyces peucetius, a pseudo-response regulator, is a DNA-binding protein involved in the regulation of daunorubicin biosynthesis. (J Bacteriol. , 1996)
[10846224] The dnrO gene encodes a DNA-binding protein that regulates daunorubicin production in Streptomyces peucetius by controlling expression of the dnrN pseudo response regulator gene. (Microbiology. , 2000)
[20122958] The activator/repressor protein DnrO of Streptomyces peucetius binds to DNA without changing its topology. (Int J Biol Macromol. , 2010)
[20529134] Modulation of dnrN expression by intracellular levels of DnrO and daunorubicin in Streptomyces peucetius. (FEMS Microbiol Lett. , 2010)
[20158521] Daunorubicin efflux in Streptomyces peucetius modulates biosynthesis by feedback regulation. (FEMS Microbiol Lett. , 2010)
comment
BLAST id30%
Streptomyces peucetius_dnrN
Regulatory protein
[DoBISCUIT]LuxR family transcriptional activator

---
[PMID: 7868594](1995)
DnrNはresponse regulatorに配列は似ているが、putative phosphorylation siteの置換(D55E, D55N)をしても活性が完全にはなくならず、近くにHKが見当たらないことからpseudo-response regulatorとも呼ばれている。

dnrN::aphII mutationはdnrIで相補可能。
dnrI::aphII mutantはdnrNで相補できない。
よってdrnNがdnrIの転写を活性化するというregulatory cascadeの存在が示唆される。

---
[PMID: 8892835](1996)
DnrNをE.coliで過剰発現し、抽出液でgel mobility shift analysis.
DnrNは高い親和性で、dnrI promoter領域に特異的に結合する。
wild-type DnrNとputative phosphorylation site置換(D55N)mutantで結合能力に違いがなく、DnrNのリン酸化はDNA bindingに必要ない。
dnrN発現がDNR産生と同時に起こり、DnrNのレベルはDNRを産生しないmutant株で低いので、dnrNとdnrIの発現はDNRによってfeedback調節されると推測される。


---
[PMID: 10846224](2000)
dnrO::aphII mutant strainはdaunorubicin (DNR)非産生。
このmutant strainにdnrN or dnrI を導入すると生合成可能。
dnrI 発現はDnrNが必要なことがわかっているので、dnrN発現にDnrOが必要ということが示される。

DnrO → dnrN = DnrN → dnrI = DnrI →DNR生合成genes

DnrOをE.coliで過剰発現し、抽出液でmobility shift DNA-binding assays。
DnrOが特異的にoverlapping dnrN/dnrO(p1) promoter regionへ結合するので、DnrOはdnrNとdnrOの両方の発現を調節するかもしれない。

---
[PMID: 20122958][PMID: 20529134][PMID: 20158521](2010)
dnrO, dnrN, dnrI, DNRが関与する細胞内DNR濃度維持システムが提唱されている。
DnrOはDnrNと競合してfeedback的にDNRの細胞内濃度を調節している。
Family/Domain
FD
IPR001789, IPR000792
comment
[IPR001789] Signal transduction response regulator, receiver domain (Domain)
[IPR000792] Transcription regulator LuxR, C-terminal (Domain)

close this sectionSequence

selected fasta
>putative two-component system response regulator [putative two-component response regulator]
MRVVLVEDLYLLREGLTHLLTAHGFEVVSAVETGPELLTAVEEHRPDVAIVDVRLPPTFT
DEGLQAAHEARRRIPGLPVLVLSQHVEQLYARELLADGSGAIGYLLKDRVFNATQFVDAL
RRVAEGGTAMDPEVISKLVESNAHQEPLGTLTAREREVLELMAEGCSNAAVSHRLYISEG
AVSKHIASVFGKLNLTNSNDTNRRVLAVLAYLNSANLD
selected fasta
>putative two-component system response regulator [putative two-component response regulator]
GTGCGTGTTGTCCTCGTAGAGGACCTCTACCTGCTTCGCGAAGGTCTGACCCATCTGCTC
ACCGCGCACGGCTTCGAGGTGGTCTCCGCCGTCGAGACCGGCCCGGAGCTGCTCACGGCC
GTGGAGGAGCACCGGCCCGATGTCGCGATCGTGGATGTCCGGCTACCGCCCACGTTCACC
GACGAGGGGCTCCAGGCGGCGCACGAGGCCCGTCGGCGGATCCCCGGTCTGCCCGTCCTG
GTGCTGTCCCAGCACGTCGAGCAGCTCTATGCGCGCGAACTGCTGGCCGACGGGTCCGGC
GCCATCGGATATCTGCTGAAGGACCGGGTGTTCAACGCCACGCAGTTCGTGGACGCGCTG
CGCCGGGTCGCCGAGGGCGGCACCGCGATGGACCCGGAGGTCATCTCCAAACTGGTGGAG
AGCAACGCCCATCAGGAGCCACTGGGCACCCTGACCGCCCGGGAACGGGAGGTCCTGGAG
CTGATGGCCGAGGGCTGTTCCAACGCGGCGGTCTCGCACCGCCTCTACATCAGCGAAGGC
GCGGTGAGCAAACACATCGCCAGCGTCTTCGGCAAGCTGAATCTGACCAACTCCAATGAC
ACCAACCGCCGGGTGCTCGCGGTCCTCGCCTATCTGAACAGCGCGAACCTGGACTAG

close this sectionFeature

BLASTP
Database:UniProtKB:2011_09 		show BLAST table
InterPro
Database:interpro:38.0
IPR000792 Transcription regulator LuxR, C-terminal (Domain)
[151-165] 3.1e-09 PR00038 [165-181] 3.1e-09 PR00038 [181-193] 3.1e-09 PR00038
PR00038   HTHLUXR
[148-210] 5e-14 SM00421
SM00421   helix_turn_helix, Lux Regulon
[144-209] 20.002 PS50043
PS50043   HTH_LUXR_2
[150-198] 1.7e-13 PF00196
PF00196   GerE
IPR001789 Signal transduction response regulator, receiver domain (Domain)
[1-120] 1.5e-15 SM00448
SM00448   cheY-homologous receiver domain
[2-99] 19.448 PS50110
PS50110   RESPONSE_REGULATORY
[3-108] 1.7e-16 PF00072
PF00072   Response_reg
IPR011006 CheY-like superfamily (Domain)
[1-185] 3.2e-22 SSF52172
SSF52172   CheY-like
IPR011991 Winged helix-turn-helix transcription repressor DNA-binding (Domain)
[126-203] 1.9e-22 G3DSA:1.10.10.10
G3DSA:1.10.10.10   no description
SignalP No significant hit
TMHMM No significant hit
Lydi_00040 Lydi_00040   Lydi_00060 Lydi_00060
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