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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
112939-113041
(-)
TPP
111905-112892 (-)
thiB
Thiamine-binding periplasmic protein
Pvag_0102
Operon
DOOR ID:
753861
Pvag_0100
(thiQ)
,
Pvag_0101
(thiP)
,
Pvag_0102
(thiB)
View Structure
2
622317-622450
(+)
MOCO
623440-623956 (+)
moaB
Molybdenum cofactor biosynthesis protein B
Pvag_0598
Operon
DOOR ID:
753956
Pvag_0597
(moaA)
,
Pvag_0598
(moaB)
,
Pvag_0599
(moaC)
,
Pvag_0600
(moaD)
,
Pvag_0601
(moaE)
View Structure
3
741329-741380
(-)
fluoride
739593-740418 (+)
ybjR
N-acetylmuramoyl-L-alanine amidase (8)
Pvag_0710
Operon
DOOR ID:
753977
Pvag_0709
(orfB)
,
Pvag_0710
(ybjR)
View Structure
4
1030154-1030223
(-)
fluoride
1029166-1030075 (-)
ppaC
Inorganic pyrophosphatase
Pvag_0975
Operon
DOOR ID:
754022
Pvag_0972
(gpma3)
,
Pvag_0973
(eno1)
,
Pvag_0974
(uspa1)
,
Pvag_0975
(ppaC)
View Structure
5
2122743-2122839
(-)
TPP
2121123-2121924 (-)
thiD
Phosphomethylpyrimidine kinase (9)
Pvag_2009
Operon
DOOR ID:
754219
Pvag_2009
(thiD)
,
Pvag_2010
(thiM)
View Structure
6
2837331-2837488
(-)
FMN
2836563-2837220 (-)
ribB
3;4-dihydroxy-2-butanone 4-phosphate synthase (DHBP synthase) (2)
Pvag_2655
Single gene
DOOR ID:
2956490
Pvag_2655
(ribB)
View Structure
7
3250949-3251024
(-)
fluoride
3250482-3250860 (-)
crcb3
Putative fluoride ion transporter CrcB
Pvag_3081
Single gene
DOOR ID:
2956647
Pvag_3081
(crcb3)
View Structure
8
3296425-3296608
(-)
cobalamin
3294474-3296367 (-)
btuB
Vitamin B12 transporter BtuB (Cobalamin receptor) (Outer membrane cobalamin translocator)
Pvag_3123
Operon
DOOR ID:
754442
Pvag_3122
(murI)
,
Pvag_3123
(btuB)
View Structure
9
3684069-3684169
(-)
TPP
3682058-3683981 (-)
thiC
Phosphomethylpyrimidine synthase (7) (Hydroxymethylpyrimidine phosphate synthase) (HMP-P synthase) (HMP-phosphate synthase) (HMPP synthase) (Thiamine biosynthesis protein ThiC)
Pvag_3473
Operon
DOOR ID:
754511
Pvag_3471,
Pvag_3472
(thiE)
,
Pvag_3473
(thiC)
View Structure
10
3715654-3715846
(+)
lysine
3715959-3717312 (+)
lysC
Aspartokinase
Pvag_3499
Single gene
DOOR ID:
2956797
Pvag_3499
(lysC)
View Structure
Genome:
Pantoea vagans C9-1
(
NC_014562.1
);
Phylum:
Gammaproteobacteria
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[GO:0055085]";i:18;s:15:"View Structure ";}i:2;a:19:{i:0;i:2;i:1;s:11:"NC_014562.1";i:2;s:20:"Pantoea vagans C9-1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"622317-622450";i:6;s:1:"+";i:7;s:4:"MOCO";i:8;s:0:"";i:9;s:13:"623440-623956";i:10;s:1:"+";i:11;s:4:"moaB";i:12;s:42:"Molybdenum cofactor biosynthesis protein B";i:13;s:9:"Pvag_0598";i:14;s:6:"Operon";i:15;s:6:"753956";i:16;s:79:"Pvag_0597(moaA);Pvag_0598(moaB);Pvag_0599(moaC);Pvag_0600(moaD);Pvag_0601(moaE)";i:17;s:59:"Mo-molybdopterin cofactor biosynthetic process [GO:0006777]";i:18;s:15:"View Structure ";}i:3;a:19:{i:0;i:3;i:1;s:11:"NC_014562.1";i:2;s:20:"Pantoea vagans C9-1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:13:"741329-741380";i:6;s:1:"-";i:7;s:8:"fluoride";i:8;s:0:"";i:9;s:13:"739593-740418";i:10;s:1:"+";i:11;s:4:"ybjR";i:12;s:38:"N-acetylmuramoyl-L-alanine amidase (8)";i:13;s:9:"Pvag_0710";i:14;s:6:"Operon";i:15;s:6:"753977";i:16;s:31:"Pvag_0709(orfB);Pvag_0710(ybjR)";i:17;s:44:"peptidoglycan catabolic process [GO:0009253]";i:18;s:15:"View Structure ";}i:4;a:19:{i:0;i:4;i:1;s:11:"NC_014562.1";i:2;s:20:"Pantoea vagans C9-1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"1030154-1030223";i:6;s:1:"-";i:7;s:8:"fluoride";i:8;s:0:"";i:9;s:15:"1029166-1030075";i:10;s:1:"-";i:11;s:4:"ppaC";i:12;s:26:"Inorganic pyrophosphatase ";i:13;s:9:"Pvag_0975";i:14;s:6:"Operon";i:15;s:6:"754022";i:16;s:65:"Pvag_0972(gpma3);Pvag_0973(eno1);Pvag_0974(uspa1);Pvag_0975(ppaC)";i:17;s:0:"";i:18;s:15:"View Structure ";}i:5;a:19:{i:0;i:5;i:1;s:11:"NC_014562.1";i:2;s:20:"Pantoea vagans C9-1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2122743-2122839";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"2121123-2121924";i:10;s:1:"-";i:11;s:4:"thiD";i:12;s:34:"Phosphomethylpyrimidine kinase (9)";i:13;s:9:"Pvag_2009";i:14;s:6:"Operon";i:15;s:6:"754219";i:16;s:31:"Pvag_2009(thiD);Pvag_2010(thiM)";i:17;s:42:"thiamine biosynthetic process [GO:0009228]";i:18;s:15:"View Structure ";}i:6;a:19:{i:0;i:6;i:1;s:11:"NC_014562.1";i:2;s:20:"Pantoea vagans C9-1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"2837331-2837488";i:6;s:1:"-";i:7;s:3:"FMN";i:8;s:0:"";i:9;s:15:"2836563-2837220";i:10;s:1:"-";i:11;s:4:"ribB";i:12;s:65:"3;4-dihydroxy-2-butanone 4-phosphate synthase (DHBP synthase) (2)";i:13;s:9:"Pvag_2655";i:14;s:11:"Single gene";i:15;s:7:"2956490";i:16;s:15:"Pvag_2655(ribB)";i:17;s:44:"riboflavin biosynthetic process [GO:0009231]";i:18;s:15:"View Structure ";}i:7;a:19:{i:0;i:7;i:1;s:11:"NC_014562.1";i:2;s:20:"Pantoea vagans C9-1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"3250949-3251024";i:6;s:1:"-";i:7;s:8:"fluoride";i:8;s:0:"";i:9;s:15:"3250482-3250860";i:10;s:1:"-";i:11;s:5:"crcb3";i:12;s:38:"Putative fluoride ion transporter CrcB";i:13;s:9:"Pvag_3081";i:14;s:11:"Single gene";i:15;s:7:"2956647";i:16;s:16:"Pvag_3081(crcb3)";i:17;s:0:"";i:18;s:15:"View Structure ";}i:8;a:19:{i:0;i:8;i:1;s:11:"NC_014562.1";i:2;s:20:"Pantoea vagans C9-1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"3296425-3296608";i:6;s:1:"-";i:7;s:9:"cobalamin";i:8;s:0:"";i:9;s:15:"3294474-3296367";i:10;s:1:"-";i:11;s:4:"btuB";i:12;s:89:"Vitamin B12 transporter BtuB (Cobalamin receptor) (Outer membrane cobalamin translocator)";i:13;s:9:"Pvag_3123";i:14;s:6:"Operon";i:15;s:6:"754442";i:16;s:31:"Pvag_3122(murI);Pvag_3123(btuB)";i:17;s:26:"ion transport [GO:0006811]";i:18;s:15:"View Structure ";}i:9;a:19:{i:0;i:9;i:1;s:11:"NC_014562.1";i:2;s:20:"Pantoea vagans C9-1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"3684069-3684169";i:6;s:1:"-";i:7;s:3:"TPP";i:8;s:0:"";i:9;s:15:"3682058-3683981";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:9:"Pvag_3473";i:14;s:6:"Operon";i:15;s:6:"754511";i:16;s:41:"Pvag_3471;Pvag_3472(thiE);Pvag_3473(thiC)";i:17;s:98:"thiamine biosynthetic process [GO:0009228]; thiamine diphosphate biosynthetic process [GO:0009229]";i:18;s:15:"View Structure ";}i:10;a:19:{i:0;i:10;i:1;s:11:"NC_014562.1";i:2;s:20:"Pantoea vagans C9-1 ";i:3;s:19:"Gammaproteobacteria";i:4;s:4:"1236";i:5;s:15:"3715654-3715846";i:6;s:1:"+";i:7;s:6:"lysine";i:8;s:0:"";i:9;s:15:"3715959-3717312";i:10;s:1:"+";i:11;s:4:"lysC";i:12;s:14:"Aspartokinase ";i:13;s:9:"Pvag_3499";i:14;s:11:"Single gene";i:15;s:7:"2956797";i:16;s:15:"Pvag_3499(lysC)";i:17;s:105:"lysine biosynthetic process via diaminopimelate [GO:0009089]; threonine biosynthetic process [GO:0009088]";i:18;s:15:"View Structure ";}}
