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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
29636-29714
(-)
sam-alpha
28354-29563 (-)
Hden_0025
O-succinylhomoserine sulfhydrylase (OSH sulfhydrylase) (OSHS sulfhydrylase)
Hden_0025
Operon
DOOR ID:
722847
Hden_0023,
Hden_0024,
Hden_0025
View Structure
2
197804-197936
(-)
yybP-ykoY
197202-197760 (-)
Hden_0199
Putative manganese efflux pump MntP
Hden_0199
Single gene
DOOR ID:
2892938
Hden_0199
View Structure
3
228539-228600
(+)
fluoride
228633-229065 (+)
Hden_0228
Putative fluoride ion transporter CrcB
Hden_0228
Single gene
DOOR ID:
2892945
Hden_0228
View Structure
4
519612-519747
(-)
cobalamin
519366-519576 (-)
Hden_0494
Hden_0494
Operon
DOOR ID:
722935
Hden_0487,
Hden_0488,
Hden_0489,
Hden_0490,
Hden_0491,
Hden_0492,
Hden_0493,
Hden_0494
View Structure
5
769555-769774
(+)
cobalamin
770016-771906 (+)
Hden_0746
TonB-dependent receptor plug
Hden_0746
Operon
DOOR ID:
722988
Hden_0746,
Hden_0747,
Hden_0748,
Hden_0749
View Structure
6
847789-848002
(-)
cobalamin
844810-847681 (-)
Hden_0809
Ribonucleoside-diphosphate reductase
Hden_0809
Operon
DOOR ID:
723001
Hden_0808,
Hden_0809
View Structure
7
2443752-2443860
(+)
TPP
2443968-2445861 (+)
Hden_2383
Phosphomethylpyrimidine synthase (7) (Hydroxymethylpyrimidine phosphate synthase) (HMP-P synthase) (HMP-phosphate synthase) (HMPP synthase) (Thiamine biosynthesis protein ThiC)
Hden_2383
Single gene
DOOR ID:
2893521
Hden_2383
View Structure
8
2773414-2773597
(-)
cobalamin
2772219-2773257 (-)
Hden_2700
Cobalamin biosynthesis protein CobW
Hden_2700
Single gene
DOOR ID:
2893837
Hden_2700
View Structure
9
2841262-2841311
(-)
mini-ykkC
2840920-2841241 (-)
Hden_2759
Hden_2759
Single gene
DOOR ID:
2893896
Hden_2759
View Structure
10
2880647-2880745
(-)
glycine
2879350-2880499 (-)
Hden_2794
Glycine cleavage system T protein
Hden_2794
Single gene
DOOR ID:
2893931
Hden_2794
View Structure
Genome:
Hyphomicrobium denitrificans ATCC 51888
(
NC_014313.1
);
Phylum:
Alphaproteobacteria
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homocysteine biosynthetic process [GO:0071268]";i:18;s:15:"View Structure ";}i:2;a:19:{i:0;i:2;i:1;s:11:"NC_014313.1";i:2;s:40:"Hyphomicrobium denitrificans ATCC 51888 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:13:"197804-197936";i:6;s:1:"-";i:7;s:9:"yybP-ykoY";i:8;s:0:"";i:9;s:13:"197202-197760";i:10;s:1:"-";i:11;s:9:"Hden_0199";i:12;s:35:"Putative manganese efflux pump MntP";i:13;s:9:"Hden_0199";i:14;s:11:"Single gene";i:15;s:7:"2892938";i:16;s:9:"Hden_0199";i:17;s:0:"";i:18;s:15:"View Structure ";}i:3;a:19:{i:0;i:3;i:1;s:11:"NC_014313.1";i:2;s:40:"Hyphomicrobium denitrificans ATCC 51888 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:13:"228539-228600";i:6;s:1:"+";i:7;s:8:"fluoride";i:8;s:0:"";i:9;s:13:"228633-229065";i:10;s:1:"+";i:11;s:9:"Hden_0228";i:12;s:38:"Putative fluoride ion transporter CrcB";i:13;s:9:"Hden_0228";i:14;s:11:"Single gene";i:15;s:7:"2892945";i:16;s:9:"Hden_0228";i:17;s:0:"";i:18;s:15:"View Structure ";}i:4;a:19:{i:0;i:4;i:1;s:11:"NC_014313.1";i:2;s:40:"Hyphomicrobium denitrificans ATCC 51888 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:13:"519612-519747";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:13:"519366-519576";i:10;s:1:"-";i:11;s:9:"Hden_0494";i:12;s:0:"";i:13;s:9:"Hden_0494";i:14;s:6:"Operon";i:15;s:6:"722935";i:16;s:79:"Hden_0487;Hden_0488;Hden_0489;Hden_0490;Hden_0491;Hden_0492;Hden_0493;Hden_0494";i:17;s:0:"";i:18;s:15:"View Structure ";}i:5;a:19:{i:0;i:5;i:1;s:11:"NC_014313.1";i:2;s:40:"Hyphomicrobium denitrificans ATCC 51888 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:13:"769555-769774";i:6;s:1:"+";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:13:"770016-771906";i:10;s:1:"+";i:11;s:9:"Hden_0746";i:12;s:28:"TonB-dependent receptor plug";i:13;s:9:"Hden_0746";i:14;s:6:"Operon";i:15;s:6:"722988";i:16;s:39:"Hden_0746;Hden_0747;Hden_0748;Hden_0749";i:17;s:0:"";i:18;s:15:"View Structure ";}i:6;a:19:{i:0;i:6;i:1;s:11:"NC_014313.1";i:2;s:40:"Hyphomicrobium denitrificans ATCC 51888 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:13:"847789-848002";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:13:"844810-847681";i:10;s:1:"-";i:11;s:9:"Hden_0809";i:12;s:37:"Ribonucleoside-diphosphate reductase ";i:13;s:9:"Hden_0809";i:14;s:6:"Operon";i:15;s:6:"723001";i:16;s:19:"Hden_0808;Hden_0809";i:17;s:28:"DNA replication [GO:0006260]";i:18;s:15:"View Structure ";}i:7;a:19:{i:0;i:7;i:1;s:11:"NC_014313.1";i:2;s:40:"Hyphomicrobium denitrificans ATCC 51888 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2443752-2443860";i:6;s:1:"+";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"2443968-2445861";i:10;s:1:"+";i:11;s:9:"Hden_2383";i:12;s:176:"Phosphomethylpyrimidine synthase (7) (Hydroxymethylpyrimidine phosphate synthase) (HMP-P synthase) (HMP-phosphate synthase) (HMPP synthase) (Thiamine biosynthesis protein ThiC)";i:13;s:9:"Hden_2383";i:14;s:11:"Single gene";i:15;s:7:"2893521";i:16;s:9:"Hden_2383";i:17;s:98:"thiamine biosynthetic process [GO:0009228]; thiamine diphosphate biosynthetic process [GO:0009229]";i:18;s:15:"View Structure ";}i:8;a:19:{i:0;i:8;i:1;s:11:"NC_014313.1";i:2;s:40:"Hyphomicrobium denitrificans ATCC 51888 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2773414-2773597";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"2772219-2773257";i:10;s:1:"-";i:11;s:9:"Hden_2700";i:12;s:35:"Cobalamin biosynthesis protein CobW";i:13;s:9:"Hden_2700";i:14;s:11:"Single gene";i:15;s:7:"2893837";i:16;s:9:"Hden_2700";i:17;s:43:"cobalamin biosynthetic process [GO:0009236]";i:18;s:15:"View Structure ";}i:9;a:19:{i:0;i:9;i:1;s:11:"NC_014313.1";i:2;s:40:"Hyphomicrobium denitrificans ATCC 51888 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2841262-2841311";i:6;s:1:"-";i:7;s:9:"mini-ykkC";i:8;s:0:"";i:9;s:15:"2840920-2841241";i:10;s:1:"-";i:11;s:9:"Hden_2759";i:12;s:0:"";i:13;s:9:"Hden_2759";i:14;s:11:"Single gene";i:15;s:7:"2893896";i:16;s:9:"Hden_2759";i:17;s:0:"";i:18;s:15:"View Structure ";}i:10;a:19:{i:0;i:10;i:1;s:11:"NC_014313.1";i:2;s:40:"Hyphomicrobium denitrificans ATCC 51888 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2880647-2880745";i:6;s:1:"-";i:7;s:7:"glycine";i:8;s:0:"";i:9;s:15:"2879350-2880499";i:10;s:1:"-";i:11;s:9:"Hden_2794";i:12;s:33:"Glycine cleavage system T protein";i:13;s:9:"Hden_2794";i:14;s:11:"Single gene";i:15;s:7:"2893931";i:16;s:9:"Hden_2794";i:17;s:38:"glycine catabolic process [GO:0006546]";i:18;s:15:"View Structure ";}}
