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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
34800-34903
(-)
TPP
33904-34759 (-)
Pden_0042
Hydroxymethylpyrimidine kinase / phosphomethylpyrimidine kinase
Pden_0042
Operon
DOOR ID:
247443
Pden_0033,
Pden_0034,
Pden_0035,
Pden_0036,
Pden_0037,
Pden_0038
(thiE)
,
Pden_0039
(thiG)
,
Pden_0040,
Pden_0041,
Pden_0042
View Structure
2
167279-167373
(-)
glycine
165931-167233 (-)
Pden_0183
D-amino acid dehydrogenase small subunit
Pden_0183
Single gene
DOOR ID:
1926426
Pden_0183
View Structure
3
1319736-1319936
(+)
cobalamin
1320062-1321046 (+)
Pden_1354
Pden_1354
Single gene
DOOR ID:
1926766
Pden_1354
View Structure
4
1328204-1328400
(-)
cobalamin
1327100-1328108 (-)
Pden_1362
Periplasmic binding protein
Pden_1362
Operon
DOOR ID:
247716
Pden_1358,
Pden_1359,
Pden_1360,
Pden_1361,
Pden_1362
View Structure
5
1337356-1337566
(-)
cobalamin
1335336-1337220 (-)
Pden_1368
TonB-dependent receptor
Pden_1368
Operon
DOOR ID:
247718
Pden_1366,
Pden_1367,
Pden_1368
View Structure
6
1747393-1747494
(+)
ykkC-yxkD
1747541-1748414 (+)
Pden_1761
Pden_1761
Single gene
DOOR ID:
1926903
Pden_1761
View Structure
7
1874599-1874647
(+)
SAM-SAH
1874652-1875819 (+)
Pden_1873
S-adenosylmethionine synthase (AdoMet synthase) (MAT) (Methionine adenosyltransferase)
Pden_1873
Single gene
DOOR ID:
1926941
Pden_1873
View Structure
8
2346516-2346604
(-)
glycine
2345269-2346382 (-)
Pden_2348
Glycine cleavage system T protein
Pden_2348
Operon
DOOR ID:
247926
Pden_2347,
Pden_2348
View Structure
9
2539767-2539972
(+)
cobalamin
2540008-2540185 (+)
Pden_2524
Pden_2524
Operon
DOOR ID:
247963
Pden_2524,
Pden_2525
View Structure
10
2543185-2543386
(+)
cobalamin
2543462-2543816 (+)
Pden_2530
Pden_2530
Operon
DOOR ID:
247966
Pden_2530,
Pden_2531,
Pden_2532
(cobN)
,
Pden_2533,
Pden_2534
(cobH)
,
Pden_2535,
Pden_2536
View Structure
Genome:
Paracoccus denitrificans PD1222 chromosome I
(
NC_008686.1
);
Phylum:
Alphaproteobacteria
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S-adenosylmethionine biosynthetic process [GO:0006556]";i:18;s:15:"View Structure ";}i:8;a:19:{i:0;i:8;i:1;s:11:"NC_008686.1";i:2;s:44:"Paracoccus denitrificans PD1222 chromosome I";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2346516-2346604";i:6;s:1:"-";i:7;s:7:"glycine";i:8;s:0:"";i:9;s:15:"2345269-2346382";i:10;s:1:"-";i:11;s:9:"Pden_2348";i:12;s:33:"Glycine cleavage system T protein";i:13;s:9:"Pden_2348";i:14;s:6:"Operon";i:15;s:6:"247926";i:16;s:19:"Pden_2347;Pden_2348";i:17;s:38:"glycine catabolic process [GO:0006546]";i:18;s:15:"View Structure ";}i:9;a:19:{i:0;i:9;i:1;s:11:"NC_008686.1";i:2;s:44:"Paracoccus denitrificans PD1222 chromosome I";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2539767-2539972";i:6;s:1:"+";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"2540008-2540185";i:10;s:1:"+";i:11;s:9:"Pden_2524";i:12;s:0:"";i:13;s:9:"Pden_2524";i:14;s:6:"Operon";i:15;s:6:"247963";i:16;s:19:"Pden_2524;Pden_2525";i:17;s:0:"";i:18;s:15:"View Structure ";}i:10;a:19:{i:0;i:10;i:1;s:11:"NC_008686.1";i:2;s:44:"Paracoccus denitrificans PD1222 chromosome I";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2543185-2543386";i:6;s:1:"+";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"2543462-2543816";i:10;s:1:"+";i:11;s:9:"Pden_2530";i:12;s:0:"";i:13;s:9:"Pden_2530";i:14;s:6:"Operon";i:15;s:6:"247966";i:16;s:81:"Pden_2530;Pden_2531;Pden_2532(cobN);Pden_2533;Pden_2534(cobH);Pden_2535;Pden_2536";i:17;s:0:"";i:18;s:15:"View Structure ";}}
