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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
443012-443091
(-)
sam-alpha
441781-442972 (-)
Plav_0409
O-succinylhomoserine sulfhydrylase (OSH sulfhydrylase) (OSHS sulfhydrylase)
Plav_0409
Single gene
DOOR ID:
2114260
Plav_0409
View Structure
2
481212-481394
(+)
yybP-ykoY
481401-481977 (+)
Plav_0447
Plav_0447
Single gene
DOOR ID:
2114277
Plav_0447
View Structure
3
549380-549581
(+)
cobalamin
549660-550569 (+)
Plav_0509
Periplasmic binding protein
Plav_0509
Operon
DOOR ID:
343258
Plav_0509,
Plav_0510,
Plav_0511
View Structure
4
668593-668795
(+)
cobalamin
668958-669756 (+)
Plav_0605
Thioesterase superfamily protein
Plav_0605
Operon
DOOR ID:
343275
Plav_0605,
Plav_0606
View Structure
5
674303-674390
(-)
ZMP-ZTP
672988-674251 (-)
Plav_0608
Serine hydroxymethyltransferase (SHMT) (Serine methylase)
Plav_0608
Single gene
DOOR ID:
2114357
Plav_0608
View Structure
6
749158-749258
(+)
glycine
749449-750592 (+)
Plav_0688
Glycine cleavage system T protein
Plav_0688
Single gene
DOOR ID:
2114390
Plav_0688
View Structure
7
749262-749367
(+)
glycine
749449-750592 (+)
Plav_0688
Glycine cleavage system T protein
Plav_0688
Single gene
DOOR ID:
2114390
Plav_0688
View Structure
8
879336-879575
(-)
cobalamin
877220-879200 (-)
Plav_0812
TonB-dependent receptor plug
Plav_0812
Single gene
DOOR ID:
2114438
Plav_0812
View Structure
9
1045550-1045617
(+)
glycine
1045715-1046375 (-)
Plav_0966
Glutathione S-transferase domain
Plav_0966
Operon
DOOR ID:
343353
Plav_0966,
Plav_0967
View Structure
10
1504618-1504701
(+)
ZMP-ZTP
1504721-1505618 (+)
Plav_1372
Bifunctional protein FolD [Includes: Methylenetetrahydrofolate dehydrogenase ]
Plav_1372
Single gene
DOOR ID:
2114660
Plav_1372
View Structure
11
2046573-2046691
(+)
ykkC-yxkD
2046783-2047863 (+)
Plav_1887
Putative transport protein
Plav_1887
Operon
DOOR ID:
343538
Plav_1887,
Plav_1888,
Plav_1889
View Structure
12
2328672-2328784
(+)
TPP
2328837-2329212 (+)
Plav_2148
Plav_2148
Operon
DOOR ID:
343606
Plav_2148,
Plav_2149
View Structure
13
2436939-2437000
(+)
SAH
2437176-2438583 (-)
Plav_2268
Integral membrane sensor signal transduction histidine kinase
Plav_2268
Operon
DOOR ID:
343635
Plav_2268,
Plav_2269,
Plav_2270
View Structure
14
2671482-2671649
(-)
SAH
2670184-2670868 (+)
Plav_2467
Plav_2467
Single gene
DOOR ID:
2115076
Plav_2467
View Structure
Genome:
Parvibaculum lavamentivorans DS-1
(
NC_009719.1
);
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_009719.1";i:2;s:34:"Parvibaculum lavamentivorans DS-1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:13:"481212-481394";i:6;s:1:"+";i:7;s:9:"yybP-ykoY";i:8;s:0:"";i:9;s:13:"481401-481977";i:10;s:1:"+";i:11;s:9:"Plav_0447";i:12;s:0:"";i:13;s:9:"Plav_0447";i:14;s:11:"Single gene";i:15;s:7:"2114277";i:16;s:9:"Plav_0447";i:17;s:0:"";i:18;s:15:"View Structure ";}i:3;a:19:{i:0;i:3;i:1;s:11:"NC_009719.1";i:2;s:34:"Parvibaculum lavamentivorans DS-1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:13:"549380-549581";i:6;s:1:"+";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:13:"549660-550569";i:10;s:1:"+";i:11;s:9:"Plav_0509";i:12;s:27:"Periplasmic binding protein";i:13;s:9:"Plav_0509";i:14;s:6:"Operon";i:15;s:6:"343258";i:16;s:29:"Plav_0509;Plav_0510;Plav_0511";i:17;s:0:"";i:18;s:15:"View Structure ";}i:4;a:19:{i:0;i:4;i:1;s:11:"NC_009719.1";i:2;s:34:"Parvibaculum lavamentivorans DS-1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:13:"668593-668795";i:6;s:1:"+";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:13:"668958-669756";i:10;s:1:"+";i:11;s:9:"Plav_0605";i:12;s:32:"Thioesterase superfamily protein";i:13;s:9:"Plav_0605";i:14;s:6:"Operon";i:15;s:6:"343275";i:16;s:19:"Plav_0605;Plav_0606";i:17;s:0:"";i:18;s:15:"View Structure ";}i:5;a:19:{i:0;i:5;i:1;s:11:"NC_009719.1";i:2;s:34:"Parvibaculum lavamentivorans DS-1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:13:"674303-674390";i:6;s:1:"-";i:7;s:7:"ZMP-ZTP";i:8;s:0:"";i:9;s:13:"672988-674251";i:10;s:1:"-";i:11;s:9:"Plav_0608";i:12;s:58:"Serine hydroxymethyltransferase (SHMT) (Serine methylase) ";i:13;s:9:"Plav_0608";i:14;s:11:"Single gene";i:15;s:7:"2114357";i:16;s:9:"Plav_0608";i:17;s:100:"glycine biosynthetic process from serine [GO:0019264]; tetrahydrofolate interconversion [GO:0035999]";i:18;s:15:"View Structure ";}i:6;a:19:{i:0;i:6;i:1;s:11:"NC_009719.1";i:2;s:34:"Parvibaculum lavamentivorans DS-1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:13:"749158-749258";i:6;s:1:"+";i:7;s:7:"glycine";i:8;s:6:"Tandem";i:9;s:13:"749449-750592";i:10;s:1:"+";i:11;s:9:"Plav_0688";i:12;s:33:"Glycine cleavage system T protein";i:13;s:9:"Plav_0688";i:14;s:11:"Single gene";i:15;s:7:"2114390";i:16;s:9:"Plav_0688";i:17;s:38:"glycine catabolic process [GO:0006546]";i:18;s:15:"View Structure ";}i:7;a:19:{i:0;i:7;i:1;s:11:"NC_009719.1";i:2;s:34:"Parvibaculum lavamentivorans DS-1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:13:"749262-749367";i:6;s:1:"+";i:7;s:7:"glycine";i:8;s:6:"Tandem";i:9;s:13:"749449-750592";i:10;s:1:"+";i:11;s:9:"Plav_0688";i:12;s:33:"Glycine cleavage system T protein";i:13;s:9:"Plav_0688";i:14;s:11:"Single gene";i:15;s:7:"2114390";i:16;s:9:"Plav_0688";i:17;s:38:"glycine catabolic process [GO:0006546]";i:18;s:15:"View Structure ";}i:8;a:19:{i:0;i:8;i:1;s:11:"NC_009719.1";i:2;s:34:"Parvibaculum lavamentivorans DS-1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:13:"879336-879575";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:13:"877220-879200";i:10;s:1:"-";i:11;s:9:"Plav_0812";i:12;s:28:"TonB-dependent receptor plug";i:13;s:9:"Plav_0812";i:14;s:11:"Single gene";i:15;s:7:"2114438";i:16;s:9:"Plav_0812";i:17;s:0:"";i:18;s:15:"View Structure ";}i:9;a:19:{i:0;i:9;i:1;s:11:"NC_009719.1";i:2;s:34:"Parvibaculum lavamentivorans DS-1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"1045550-1045617";i:6;s:1:"+";i:7;s:7:"glycine";i:8;s:0:"";i:9;s:15:"1045715-1046375";i:10;s:1:"-";i:11;s:9:"Plav_0966";i:12;s:32:"Glutathione S-transferase domain";i:13;s:9:"Plav_0966";i:14;s:6:"Operon";i:15;s:6:"343353";i:16;s:19:"Plav_0966;Plav_0967";i:17;s:0:"";i:18;s:15:"View Structure ";}i:10;a:19:{i:0;i:10;i:1;s:11:"NC_009719.1";i:2;s:34:"Parvibaculum lavamentivorans DS-1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"1504618-1504701";i:6;s:1:"+";i:7;s:7:"ZMP-ZTP";i:8;s:0:"";i:9;s:15:"1504721-1505618";i:10;s:1:"+";i:11;s:9:"Plav_1372";i:12;s:78:"Bifunctional protein FolD [Includes: Methylenetetrahydrofolate dehydrogenase ]";i:13;s:9:"Plav_1372";i:14;s:11:"Single gene";i:15;s:7:"2114660";i:16;s:9:"Plav_1372";i:17;s:189:"histidine biosynthetic process [GO:0000105]; methionine biosynthetic process [GO:0009086]; purine nucleotide biosynthetic process [GO:0006164]; tetrahydrofolate interconversion [GO:0035999]";i:18;s:15:"View Structure ";}i:11;a:19:{i:0;i:11;i:1;s:11:"NC_009719.1";i:2;s:34:"Parvibaculum lavamentivorans DS-1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2046573-2046691";i:6;s:1:"+";i:7;s:9:"ykkC-yxkD";i:8;s:0:"";i:9;s:15:"2046783-2047863";i:10;s:1:"+";i:11;s:9:"Plav_1887";i:12;s:26:"Putative transport protein";i:13;s:9:"Plav_1887";i:14;s:6:"Operon";i:15;s:6:"343538";i:16;s:29:"Plav_1887;Plav_1888;Plav_1889";i:17;s:0:"";i:18;s:15:"View Structure ";}i:12;a:19:{i:0;i:12;i:1;s:11:"NC_009719.1";i:2;s:34:"Parvibaculum lavamentivorans DS-1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2328672-2328784";i:6;s:1:"+";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"2328837-2329212";i:10;s:1:"+";i:11;s:9:"Plav_2148";i:12;s:0:"";i:13;s:9:"Plav_2148";i:14;s:6:"Operon";i:15;s:6:"343606";i:16;s:19:"Plav_2148;Plav_2149";i:17;s:0:"";i:18;s:15:"View Structure ";}i:13;a:19:{i:0;i:13;i:1;s:11:"NC_009719.1";i:2;s:34:"Parvibaculum lavamentivorans DS-1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2436939-2437000";i:6;s:1:"+";i:7;s:3:"SAH";i:8;s:0:"";i:9;s:15:"2437176-2438583";i:10;s:1:"-";i:11;s:9:"Plav_2268";i:12;s:61:"Integral membrane sensor signal transduction histidine kinase";i:13;s:9:"Plav_2268";i:14;s:6:"Operon";i:15;s:6:"343635";i:16;s:29:"Plav_2268;Plav_2269;Plav_2270";i:17;s:0:"";i:18;s:15:"View Structure ";}i:14;a:19:{i:0;i:14;i:1;s:11:"NC_009719.1";i:2;s:34:"Parvibaculum lavamentivorans DS-1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2671482-2671649";i:6;s:1:"-";i:7;s:3:"SAH";i:8;s:0:"";i:9;s:15:"2670184-2670868";i:10;s:1:"+";i:11;s:9:"Plav_2467";i:12;s:0:"";i:13;s:9:"Plav_2467";i:14;s:11:"Single gene";i:15;s:7:"2115076";i:16;s:9:"Plav_2467";i:17;s:0:"";i:18;s:15:"View Structure ";}}
