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S.No.
Riboswitch Location and Strand
Riboswitch class
Downstream gene location and Strand
Downstream gene name/gene product description
Locus_tag of downstream gene
Single gene/within operon (According to DOOR database)
Operon details (List of genes within operon and their Locus_tag)
Predicted Structure
1
430585-430710
(-)
TPP
428538-430476 (-)
thiC
Phosphomethylpyrimidine synthase (7) (Hydroxymethylpyrimidine phosphate synthase) (HMP-P synthase) (HMP-phosphate synthase) (HMPP synthase) (Thiamine biosynthesis protein ThiC)
PAU_00394
Operon
DOOR ID:
588792
PAU_00389
(thiH)
,
PAU_00390
(thiG)
,
PAU_00391
(thiS)
,
PAU_00392
(thiF)
,
PAU_00393
(thiE)
,
PAU_00394
(thiC)
View Structure
2
655421-655525
(-)
TPP
654333-655347 (-)
tbpA
Thiamine-binding periplasmic protein
PAU_00578
Operon
DOOR ID:
588835
PAU_00576
(thiQ)
,
PAU_00577c
(thiP)
,
PAU_00578
(tbpA)
View Structure
3
1229669-1229840
(+)
ykoK
1229914-1230988 (+)
PAU_01085
Similar to magnesium transport protein mgte
PAU_01085
Single gene
DOOR ID:
2628213
PAU_01085
View Structure
4
1830371-1830558
(+)
cobalamin
1830658-1832041 (+)
cbiA
Cobyrinate a;c-diamide synthase (1) (Cobyrinic acid a;c-diamide synthetase)
PAU_01601
Operon
DOOR ID:
589039
PAU_01601
(cbiA)
,
PAU_01602
(cobD)
,
PAU_01603
(cbiC)
,
PAU_01604
(cbiD)
,
PAU_01605
(cbiE)
,
PAU_01606
(cbiT)
,
PAU_01607
(cbiF)
,
PAU_01608
(cbiG)
,
PAU_01609
(cbiH)
,
PAU_01610
(cbiJ)
,
PAU_01611
(cbiK)
,
PAU_01612
(cbiL)
,
PAU_01613
(cobQ)
,
PAU_01614
(cobU)
,
PAU_01615
(cobS)
View Structure
5
1980228-1980320
(+)
TPP
1980365-1981163 (+)
thiD
Phosphomethylpyrimidine kinase (Hmp-phosphate kinase)
PAU_01757
Single gene
DOOR ID:
2628496
PAU_01757
(thiD)
View Structure
6
2067591-2067781
(-)
yybP-ykoY
2067002-2067584 (-)
yebN
Putative manganese efflux pump MntP
PAU_01833
Single gene
DOOR ID:
2628523
PAU_01833
(yebN)
View Structure
7
3392693-3392838
(-)
MOCO
3391208-3391685 (-)
moaC
Cyclic pyranopterin monophosphate synthase (7) (Molybdenum cofactor biosynthesis protein C)
PAU_02933
Operon
DOOR ID:
589285
PAU_02931
(moaE)
,
PAU_02932
(moaD)
,
PAU_02933
(moaC)
,
PAU_02934
(moaA)
View Structure
8
4142348-4142516
(-)
FMN
4141538-4142198 (-)
ribB
3;4-dihydroxy-2-butanone 4-phosphate synthase (DHBP synthase) (2)
PAU_03536
Single gene
DOOR ID:
2629219
PAU_03536
(ribB)
View Structure
9
4355209-4355255
(-)
mini-ykkC
4354872-4355187 (-)
sugE
PAU_03752
Single gene
DOOR ID:
2629307
PAU_03752
(sugE)
View Structure
Genome:
Photorhabdus asymbiotica
(
NC_012962.1
);
Phylum:
Gammaproteobacteria
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thiamine diphosphate biosynthetic process [GO:0009229]";i:18;s:15:"View Structure ";}i:2;a:19:{i:0;i:2;i:1;s:11:"NC_012962.1";i:2;s:24:"Photorhabdus asymbiotica";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"655421-655525";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:13:"654333-655347";i:10;s:1:"-";i:11;s:4:"tbpA";i:12;s:36:"Thiamine-binding periplasmic protein";i:13;s:9:"PAU_00578";i:14;s:6:"Operon";i:15;s:6:"588835";i:16;s:48:"PAU_00576(thiQ);PAU_00577c(thiP);PAU_00578(tbpA)";i:17;s:31:"thiamine transport [GO:0015888]";i:18;s:15:"View Structure ";}i:3;a:19:{i:0;i:3;i:1;s:11:"NC_012962.1";i:2;s:24:"Photorhabdus asymbiotica";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1229669-1229840";i:6;s:1:"+";i:7;s:4:"ykoK";i:8;s:0:"";i:9;s:15:"1229914-1230988";i:10;s:1:"+";i:11;s:9:"PAU_01085";i:12;s:43:"Similar to magnesium transport protein mgte";i:13;s:9:"PAU_01085";i:14;s:11:"Single gene";i:15;s:7:"2628213";i:16;s:9:"PAU_01085";i:17;s:0:"";i:18;s:15:"View Structure ";}i:4;a:19:{i:0;i:4;i:1;s:11:"NC_012962.1";i:2;s:24:"Photorhabdus asymbiotica";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1830371-1830558";i:6;s:1:"+";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"1830658-1832041";i:10;s:1:"+";i:11;s:4:"cbiA";i:12;s:75:"Cobyrinate a;c-diamide synthase (1) (Cobyrinic acid a;c-diamide synthetase)";i:13;s:9:"PAU_01601";i:14;s:6:"Operon";i:15;s:6:"589039";i:16;s:239:"PAU_01601(cbiA);PAU_01602(cobD);PAU_01603(cbiC);PAU_01604(cbiD);PAU_01605(cbiE);PAU_01606(cbiT);PAU_01607(cbiF);PAU_01608(cbiG);PAU_01609(cbiH);PAU_01610(cbiJ);PAU_01611(cbiK);PAU_01612(cbiL);PAU_01613(cobQ);PAU_01614(cobU);PAU_01615(cobS)";i:17;s:85:"cobalamin biosynthetic process [GO:0009236]; glutamine metabolic process [GO:0006541]";i:18;s:15:"View Structure ";}i:5;a:19:{i:0;i:5;i:1;s:11:"NC_012962.1";i:2;s:24:"Photorhabdus asymbiotica";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1980228-1980320";i:6;s:1:"+";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"1980365-1981163";i:10;s:1:"+";i:11;s:4:"thiD";i:12;s:53:"Phosphomethylpyrimidine kinase (Hmp-phosphate kinase)";i:13;s:9:"PAU_01757";i:14;s:11:"Single gene";i:15;s:7:"2628496";i:16;s:15:"PAU_01757(thiD)";i:17;s:42:"thiamine biosynthetic process [GO:0009228]";i:18;s:15:"View Structure ";}i:6;a:19:{i:0;i:6;i:1;s:11:"NC_012962.1";i:2;s:24:"Photorhabdus asymbiotica";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2067591-2067781";i:6;s:1:"-";i:7;s:9:"yybP-ykoY";i:8;s:0:"";i:9;s:15:"2067002-2067584";i:10;s:1:"-";i:11;s:4:"yebN";i:12;s:35:"Putative manganese efflux pump MntP";i:13;s:9:"PAU_01833";i:14;s:11:"Single gene";i:15;s:7:"2628523";i:16;s:15:"PAU_01833(yebN)";i:17;s:0:"";i:18;s:15:"View Structure ";}i:7;a:19:{i:0;i:7;i:1;s:11:"NC_012962.1";i:2;s:24:"Photorhabdus asymbiotica";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"3392693-3392838";i:6;s:1:"-";i:7;s:4:"MOCO";i:8;s:0:"";i:9;s:15:"3391208-3391685";i:10;s:1:"-";i:11;s:4:"moaC";i:12;s:91:"Cyclic pyranopterin monophosphate synthase (7) (Molybdenum cofactor biosynthesis protein C)";i:13;s:9:"PAU_02933";i:14;s:6:"Operon";i:15;s:6:"589285";i:16;s:63:"PAU_02931(moaE);PAU_02932(moaD);PAU_02933(moaC);PAU_02934(moaA)";i:17;s:59:"Mo-molybdopterin cofactor biosynthetic process [GO:0006777]";i:18;s:15:"View Structure ";}i:8;a:19:{i:0;i:8;i:1;s:11:"NC_012962.1";i:2;s:24:"Photorhabdus asymbiotica";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4142348-4142516";i:6;s:1:"-";i:7;s:3:"FMN";i:8;s:0:"";i:9;s:15:"4141538-4142198";i:10;s:1:"-";i:11;s:4:"ribB";i:12;s:65:"3;4-dihydroxy-2-butanone 4-phosphate synthase (DHBP synthase) (2)";i:13;s:9:"PAU_03536";i:14;s:11:"Single gene";i:15;s:7:"2629219";i:16;s:15:"PAU_03536(ribB)";i:17;s:44:"riboflavin biosynthetic process [GO:0009231]";i:18;s:15:"View Structure ";}i:9;a:19:{i:0;i:9;i:1;s:11:"NC_012962.1";i:2;s:24:"Photorhabdus asymbiotica";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"4355209-4355255";i:6;s:1:"-";i:7;s:9:"mini-ykkC";i:8;s:0:"";i:9;s:15:"4354872-4355187";i:10;s:1:"-";i:11;s:4:"sugE";i:12;s:0:"";i:13;s:9:"PAU_03752";i:14;s:11:"Single gene";i:15;s:7:"2629307";i:16;s:15:"PAU_03752(sugE)";i:17;s:0:"";i:18;s:15:"View Structure ";}}
