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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
164560-164637
(-)
sam-alpha
163301-164492 (-)
PSE_0165
O-succinylhomoserine sulfhydrylase (OSH sulfhydrylase) (OSHS sulfhydrylase)
PSE_0165
Single gene
DOOR ID:
3354227
PSE_0165
View Structure
2
613286-613496
(-)
cobalamin
612157-612940 (-)
hmuV
Hemin import ATP-binding protein HmuV
PSE_0589
Operon
DOOR ID:
1209400
PSE_0589
(hmuV)
,
PSE_0588
(hmuT)
,
PSE_0587
(hmuU)
View Structure
3
646175-646275
(-)
TPP
644661-645303 (-)
thiE
Thiamine-phosphate synthase (TP synthase) (TPS) (Thiamine-phosphate pyrophosphorylase) (TMP pyrophosphorylase) (TMP-PPase)
PSE_0621
Operon
DOOR ID:
1209406
PSE_0623,
PSE_0622
(thiM)
,
PSE_0621
(thiE)
View Structure
4
954137-954257
(-)
TPP
952223-954023 (-)
thiC
Phosphomethylpyrimidine synthase (7) (Hydroxymethylpyrimidine phosphate synthase) (HMP-P synthase) (HMP-phosphate synthase) (HMPP synthase) (Thiamine biosynthesis protein ThiC)
PSE_0911
Operon
DOOR ID:
1209463
PSE_0911
(thiC)
,
PSE_0910
(thiO)
,
PSE_0909
(thiS)
View Structure
5
1665674-1665768
(+)
glycine
1665963-1667106 (+)
PSE_1575
Glycine cleavage system T protein (0)
PSE_1575
Operon
DOOR ID:
1209583
PSE_1576,
PSE_1575
View Structure
6
2021266-2021372
(+)
TPP
2021393-2022386 (+)
thiB
Thiamine-binding periplasmic protein
PSE_1900
Operon
DOOR ID:
1209644
PSE_1900
(thiB)
,
PSE_1901
(thiP)
,
PSE_1902
(thiQ)
View Structure
7
2464526-2464722
(+)
cobalamin
2464910-2465045 (+)
nrdH
Glutaredoxin-like protein nrdH
PSE_2330
Operon
DOOR ID:
1209724
PSE_2330
(nrdH)
,
PSE_2331
(nrdI)
,
PSE_2332
(nrdE)
,
PSE_2333
(nrdF)
View Structure
8
2959921-2960134
(+)
cobalamin
2960308-2962120 (+)
PSE_2782
TonB dependent Vitamin B12 outer membrane receptor
PSE_2782
Single gene
DOOR ID:
3355468
PSE_2782
View Structure
9
3815391-3815611
(-)
cobalamin
3814694-3815105 (-)
PSE_3497
Bifunctional adenosylcobalamin biosynthesis protein CobP/CobU (Adenosylcobinamide kinase/Adenosylcobinamide-phosphate guanylyltransferase)
PSE_3497
Operon
DOOR ID:
1209938
PSE_3493,
PSE_3494,
PSE_3495
(cobN)
,
PSE_3496
(cobW)
,
PSE_3497
View Structure
10
4168954-4169104
(-)
FMN
4167920-4168820 (-)
PSE_3831
Transporter; drug/metabolite exporter family protein
PSE_3831
Operon
DOOR ID:
1210006
PSE_3831,
PSE_3832
View Structure
11
4370630-4370651
(+)
SAM-SAH
4373593-4374079 (+)
PSE_4034
Transcriptional regulator; AsnC family
PSE_4034
Single gene
DOOR ID:
3355948
PSE_4034
View Structure
12
4485810-4485918
(-)
TPP
4485014-4485770 (-)
thiM
Hydroxyethylthiazole kinase (0)
PSE_4138
Operon
DOOR ID:
1210070
PSE_4136,
PSE_4137
(thiD)
,
PSE_4138
(thiM)
View Structure
13
4688703-4688914
(-)
cobalamin
4688002-4688668 (-)
PSE_4328
PSE_4328
Single gene
DOOR ID:
3356084
PSE_4328
View Structure
14
5043241-5043349
(-)
TPP
5042358-5043069 (-)
PSE_4665
Binding-protein-dependent transport systems inner membrane component
PSE_4665
Operon
DOOR ID:
1210173
PSE_4664,
PSE_4665
View Structure
Genome:
Pseudovibrio sp. FO-BEG1
(
NC_016642.1
);
Phylum:
Alphaproteobacteria
a:15:{i:0;a:18:{i:0;s:5:"S.No.";i:1;s:9:"Genome_ID";i:2;s:11:"Genome_Name";i:3;s:13:"Taxonomy_name";i:4;s:6:"Tax_ID";i:5;s:19:"Riboswitch_Location";i:6;s:17:"Riboswitch_strand";i:7;s:16:"Riboswitch_class";i:8;s:14:"Tandem_Aptamer";i:9;s:24:"Downstream_gene_location";i:10;s:11:"Gene_Strand";i:11;s:20:"Downstream_gene_name";i:12;s:24:"Gene_product_description";i:13;s:9:"Locus_tag";i:14;s:25:"Single_gene/within_operon";i:15;s:9:"Operon_ID";i:16;s:14:"Operon_details";i:17;s:22:"Biological_process[GO]";}i:1;a:19:{i:0;i:1;i:1;s:11:"NC_016642.1";i:2;s:25:"Pseudovibrio sp. FO-BEG1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:13:"164560-164637";i:6;s:1:"-";i:7;s:9:"sam-alpha";i:8;s:0:"";i:9;s:13:"163301-164492";i:10;s:1:"-";i:11;s:8:"PSE_0165";i:12;s:76:"O-succinylhomoserine sulfhydrylase (OSH sulfhydrylase) (OSHS sulfhydrylase) ";i:13;s:8:"PSE_0165";i:14;s:11:"Single gene";i:15;s:7:"3354227";i:16;s:8:"PSE_0165";i:17;s:104:"'de novo' L-methionine biosynthetic process [GO:0071266]; homocysteine biosynthetic process [GO:0071268]";i:18;s:15:"View Structure ";}i:2;a:19:{i:0;i:2;i:1;s:11:"NC_016642.1";i:2;s:25:"Pseudovibrio sp. FO-BEG1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:13:"613286-613496";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:13:"612157-612940";i:10;s:1:"-";i:11;s:4:"hmuV";i:12;s:37:"Hemin import ATP-binding protein HmuV";i:13;s:8:"PSE_0589";i:14;s:6:"Operon";i:15;s:7:"1209400";i:16;s:44:"PSE_0589(hmuV);PSE_0588(hmuT);PSE_0587(hmuU)";i:17;s:0:"";i:18;s:15:"View Structure ";}i:3;a:19:{i:0;i:3;i:1;s:11:"NC_016642.1";i:2;s:25:"Pseudovibrio sp. FO-BEG1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:13:"646175-646275";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:13:"644661-645303";i:10;s:1:"-";i:11;s:4:"thiE";i:12;s:123:"Thiamine-phosphate synthase (TP synthase) (TPS) (Thiamine-phosphate pyrophosphorylase) (TMP pyrophosphorylase) (TMP-PPase)";i:13;s:8:"PSE_0621";i:14;s:6:"Operon";i:15;s:7:"1209406";i:16;s:38:"PSE_0623;PSE_0622(thiM);PSE_0621(thiE)";i:17;s:98:"thiamine biosynthetic process [GO:0009228]; thiamine diphosphate biosynthetic process [GO:0009229]";i:18;s:15:"View Structure ";}i:4;a:19:{i:0;i:4;i:1;s:11:"NC_016642.1";i:2;s:25:"Pseudovibrio sp. FO-BEG1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:13:"954137-954257";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:13:"952223-954023";i:10;s:1:"-";i:11;s:4:"thiC";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:8:"PSE_0911";i:14;s:6:"Operon";i:15;s:7:"1209463";i:16;s:44:"PSE_0911(thiC);PSE_0910(thiO);PSE_0909(thiS)";i:17;s:98:"thiamine biosynthetic process [GO:0009228]; thiamine diphosphate biosynthetic process [GO:0009229]";i:18;s:15:"View Structure ";}i:5;a:19:{i:0;i:5;i:1;s:11:"NC_016642.1";i:2;s:25:"Pseudovibrio sp. FO-BEG1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"1665674-1665768";i:6;s:1:"+";i:7;s:7:"glycine";i:8;s:0:"";i:9;s:15:"1665963-1667106";i:10;s:1:"+";i:11;s:8:"PSE_1575";i:12;s:37:"Glycine cleavage system T protein (0)";i:13;s:8:"PSE_1575";i:14;s:6:"Operon";i:15;s:7:"1209583";i:16;s:17:"PSE_1576;PSE_1575";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_016642.1";i:2;s:25:"Pseudovibrio sp. FO-BEG1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2021266-2021372";i:6;s:1:"+";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"2021393-2022386";i:10;s:1:"+";i:11;s:4:"thiB";i:12;s:36:"Thiamine-binding periplasmic protein";i:13;s:8:"PSE_1900";i:14;s:6:"Operon";i:15;s:7:"1209644";i:16;s:44:"PSE_1900(thiB);PSE_1901(thiP);PSE_1902(thiQ)";i:17;s:31:"thiamine transport [GO:0015888]";i:18;s:15:"View Structure ";}i:7;a:19:{i:0;i:7;i:1;s:11:"NC_016642.1";i:2;s:25:"Pseudovibrio sp. FO-BEG1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2464526-2464722";i:6;s:1:"+";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"2464910-2465045";i:10;s:1:"+";i:11;s:4:"nrdH";i:12;s:30:"Glutaredoxin-like protein nrdH";i:13;s:8:"PSE_2330";i:14;s:6:"Operon";i:15;s:7:"1209724";i:16;s:59:"PSE_2330(nrdH);PSE_2331(nrdI);PSE_2332(nrdE);PSE_2333(nrdF)";i:17;s:0:"";i:18;s:15:"View Structure ";}i:8;a:19:{i:0;i:8;i:1;s:11:"NC_016642.1";i:2;s:25:"Pseudovibrio sp. FO-BEG1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"2959921-2960134";i:6;s:1:"+";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"2960308-2962120";i:10;s:1:"+";i:11;s:8:"PSE_2782";i:12;s:50:"TonB dependent Vitamin B12 outer membrane receptor";i:13;s:8:"PSE_2782";i:14;s:11:"Single gene";i:15;s:7:"3355468";i:16;s:8:"PSE_2782";i:17;s:0:"";i:18;s:15:"View Structure ";}i:9;a:19:{i:0;i:9;i:1;s:11:"NC_016642.1";i:2;s:25:"Pseudovibrio sp. FO-BEG1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"3815391-3815611";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"3814694-3815105";i:10;s:1:"-";i:11;s:8:"PSE_3497";i:12;s:138:"Bifunctional adenosylcobalamin biosynthesis protein CobP/CobU (Adenosylcobinamide kinase/Adenosylcobinamide-phosphate guanylyltransferase)";i:13;s:8:"PSE_3497";i:14;s:6:"Operon";i:15;s:7:"1209938";i:16;s:56:"PSE_3493;PSE_3494;PSE_3495(cobN);PSE_3496(cobW);PSE_3497";i:17;s:43:"cobalamin biosynthetic process [GO:0009236]";i:18;s:15:"View Structure ";}i:10;a:19:{i:0;i:10;i:1;s:11:"NC_016642.1";i:2;s:25:"Pseudovibrio sp. FO-BEG1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"4168954-4169104";i:6;s:1:"-";i:7;s:3:"FMN";i:8;s:0:"";i:9;s:15:"4167920-4168820";i:10;s:1:"-";i:11;s:8:"PSE_3831";i:12;s:52:"Transporter; drug/metabolite exporter family protein";i:13;s:8:"PSE_3831";i:14;s:6:"Operon";i:15;s:7:"1210006";i:16;s:17:"PSE_3831;PSE_3832";i:17;s:0:"";i:18;s:15:"View Structure ";}i:11;a:19:{i:0;i:11;i:1;s:11:"NC_016642.1";i:2;s:25:"Pseudovibrio sp. FO-BEG1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"4370630-4370651";i:6;s:1:"+";i:7;s:7:"SAM-SAH";i:8;s:0:"";i:9;s:15:"4373593-4374079";i:10;s:1:"+";i:11;s:8:"PSE_4034";i:12;s:38:"Transcriptional regulator; AsnC family";i:13;s:8:"PSE_4034";i:14;s:11:"Single gene";i:15;s:7:"3355948";i:16;s:8:"PSE_4034";i:17;s:41:"transcription; DNA-templated [GO:0006351]";i:18;s:15:"View Structure ";}i:12;a:19:{i:0;i:12;i:1;s:11:"NC_016642.1";i:2;s:25:"Pseudovibrio sp. FO-BEG1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"4485810-4485918";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"4485014-4485770";i:10;s:1:"-";i:11;s:4:"thiM";i:12;s:31:"Hydroxyethylthiazole kinase (0)";i:13;s:8:"PSE_4138";i:14;s:6:"Operon";i:15;s:7:"1210070";i:16;s:38:"PSE_4136;PSE_4137(thiD);PSE_4138(thiM)";i:17;s:98:"thiamine biosynthetic process [GO:0009228]; thiamine diphosphate biosynthetic process [GO:0009229]";i:18;s:15:"View Structure ";}i:13;a:19:{i:0;i:13;i:1;s:11:"NC_016642.1";i:2;s:25:"Pseudovibrio sp. FO-BEG1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"4688703-4688914";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"4688002-4688668";i:10;s:1:"-";i:11;s:8:"PSE_4328";i:12;s:0:"";i:13;s:8:"PSE_4328";i:14;s:11:"Single gene";i:15;s:7:"3356084";i:16;s:8:"PSE_4328";i:17;s:0:"";i:18;s:15:"View Structure ";}i:14;a:19:{i:0;i:14;i:1;s:11:"NC_016642.1";i:2;s:25:"Pseudovibrio sp. FO-BEG1 ";i:3;s:19:"Alphaproteobacteria";i:4;s:5:"28211";i:5;s:15:"5043241-5043349";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"5042358-5043069";i:10;s:1:"-";i:11;s:8:"PSE_4665";i:12;s:68:"Binding-protein-dependent transport systems inner membrane component";i:13;s:8:"PSE_4665";i:14;s:6:"Operon";i:15;s:7:"1210173";i:16;s:17:"PSE_4664;PSE_4665";i:17;s:36:"transmembrane transport [GO:0055085]";i:18;s:15:"View Structure ";}}
