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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
215103-215183
(+)
SAH
215212-217948 (+)
Alide2_0193
Methionine synthase (3) (5-methyltetrahydrofolate--homocysteine methyltransferase)
Alide2_0193
Single gene
DOOR ID:
3111249
Alide2_0193
View Structure
2
679424-679506
(+)
SAH
679579-681010 (+)
Alide2_0657
Adenosylhomocysteinase (S-adenosyl-L-homocysteine hydrolase) (AdoHcyase)
Alide2_0657
Single gene
DOOR ID:
3111349
Alide2_0657
View Structure
3
1183655-1183899
(+)
cobalamin
1184047-1185841 (+)
Alide2_1133
TonB-dependent receptor plug
Alide2_1133
Single gene
DOOR ID:
3111478
Alide2_1133
View Structure
4
2223200-2223361
(-)
ZMP-ZTP
2221918-2223163 (-)
Alide2_2128
Serine hydroxymethyltransferase (SHMT) (Serine methylase)
Alide2_2128
Operon
DOOR ID:
839067
Alide2_2127,
Alide2_2128
View Structure
5
2654329-2654425
(+)
glycine
2654557-2655721 (+)
Alide2_2541
Glycine cleavage system T protein (0)
Alide2_2541
Single gene
DOOR ID:
3111805
Alide2_2541
View Structure
6
2654440-2654542
(+)
glycine
2654557-2655721 (+)
Alide2_2541
Glycine cleavage system T protein (0)
Alide2_2541
Single gene
DOOR ID:
3111805
Alide2_2541
View Structure
7
3244886-3244988
(+)
TPP
3245027-3246146 (+)
Alide2_3107
Glycine oxidase ThiO
Alide2_3107
Operon
DOOR ID:
839278
Alide2_3107,
Alide2_3108,
Alide2_3109,
Alide2_3110
View Structure
8
4215543-4215653
(-)
TPP
4213608-4215456 (-)
Alide2_4044
Phosphomethylpyrimidine synthase (7) (Hydroxymethylpyrimidine phosphate synthase) (HMP-P synthase) (HMP-phosphate synthase) (HMPP synthase) (Thiamine biosynthesis protein ThiC)
Alide2_4044
Single gene
DOOR ID:
3112266
Alide2_4044
View Structure
9
4965137-4965253
(-)
yybP-ykoY
4964451-4965030 (-)
Alide2_4719
Alide2_4719
Single gene
DOOR ID:
3112456
Alide2_4719
View Structure
Genome:
Alicycliphilus denitrificans K601
(
NC_015422.1
);
Phylum:
Betaproteobacteria
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S-adenosylhomocysteine catabolic process [GO:0019510]";i:18;s:15:"View Structure ";}i:3;a:19:{i:0;i:3;i:1;s:11:"NC_015422.1";i:2;s:34:"Alicycliphilus denitrificans K601 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"1183655-1183899";i:6;s:1:"+";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"1184047-1185841";i:10;s:1:"+";i:11;s:11:"Alide2_1133";i:12;s:28:"TonB-dependent receptor plug";i:13;s:11:"Alide2_1133";i:14;s:11:"Single gene";i:15;s:7:"3111478";i:16;s:11:"Alide2_1133";i:17;s:0:"";i:18;s:15:"View Structure ";}i:4;a:19:{i:0;i:4;i:1;s:11:"NC_015422.1";i:2;s:34:"Alicycliphilus denitrificans K601 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"2223200-2223361";i:6;s:1:"-";i:7;s:7:"ZMP-ZTP";i:8;s:0:"";i:9;s:15:"2221918-2223163";i:10;s:1:"-";i:11;s:11:"Alide2_2128";i:12;s:58:"Serine hydroxymethyltransferase (SHMT) (Serine methylase) ";i:13;s:11:"Alide2_2128";i:14;s:6:"Operon";i:15;s:6:"839067";i:16;s:23:"Alide2_2127;Alide2_2128";i:17;s:100:"glycine biosynthetic process from serine [GO:0019264]; tetrahydrofolate interconversion [GO:0035999]";i:18;s:15:"View Structure ";}i:5;a:19:{i:0;i:5;i:1;s:11:"NC_015422.1";i:2;s:34:"Alicycliphilus denitrificans K601 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"2654329-2654425";i:6;s:1:"+";i:7;s:7:"glycine";i:8;s:6:"Tandem";i:9;s:15:"2654557-2655721";i:10;s:1:"+";i:11;s:11:"Alide2_2541";i:12;s:37:"Glycine cleavage system T protein (0)";i:13;s:11:"Alide2_2541";i:14;s:11:"Single gene";i:15;s:7:"3111805";i:16;s:11:"Alide2_2541";i:17;s:38:"glycine catabolic process [GO:0006546]";i:18;s:15:"View Structure ";}i:6;a:19:{i:0;i:6;i:1;s:11:"NC_015422.1";i:2;s:34:"Alicycliphilus denitrificans K601 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"2654440-2654542";i:6;s:1:"+";i:7;s:7:"glycine";i:8;s:6:"Tandem";i:9;s:15:"2654557-2655721";i:10;s:1:"+";i:11;s:11:"Alide2_2541";i:12;s:37:"Glycine cleavage system T protein (0)";i:13;s:11:"Alide2_2541";i:14;s:11:"Single gene";i:15;s:7:"3111805";i:16;s:11:"Alide2_2541";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_015422.1";i:2;s:34:"Alicycliphilus denitrificans K601 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"3244886-3244988";i:6;s:1:"+";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"3245027-3246146";i:10;s:1:"+";i:11;s:11:"Alide2_3107";i:12;s:20:"Glycine oxidase ThiO";i:13;s:11:"Alide2_3107";i:14;s:6:"Operon";i:15;s:6:"839278";i:16;s:47:"Alide2_3107;Alide2_3108;Alide2_3109;Alide2_3110";i:17;s:43:"D-amino acid metabolic process [GO:0046416]";i:18;s:15:"View Structure ";}i:8;a:19:{i:0;i:8;i:1;s:11:"NC_015422.1";i:2;s:34:"Alicycliphilus denitrificans K601 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"4215543-4215653";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"4213608-4215456";i:10;s:1:"-";i:11;s:11:"Alide2_4044";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:11:"Alide2_4044";i:14;s:11:"Single gene";i:15;s:7:"3112266";i:16;s:11:"Alide2_4044";i:17;s:98:"thiamine biosynthetic process [GO:0009228]; thiamine diphosphate biosynthetic process [GO:0009229]";i:18;s:15:"View Structure ";}i:9;a:19:{i:0;i:9;i:1;s:11:"NC_015422.1";i:2;s:34:"Alicycliphilus denitrificans K601 ";i:3;s:18:"Betaproteobacteria";i:4;s:5:"28216";i:5;s:15:"4965137-4965253";i:6;s:1:"-";i:7;s:9:"yybP-ykoY";i:8;s:0:"";i:9;s:15:"4964451-4965030";i:10;s:1:"-";i:11;s:11:"Alide2_4719";i:12;s:0:"";i:13;s:11:"Alide2_4719";i:14;s:11:"Single gene";i:15;s:7:"3112456";i:16;s:11:"Alide2_4719";i:17;s:0:"";i:18;s:15:"View Structure ";}}
