ID Card:
Full name:
tRNA-dihydrouridine(16/17) synthase [NAD(P)(+)]
GI:
1730621
Orf:
YML080W
COG:
COG0042
UniProt:
P53759
Alpha Fold Predicted Structure:
AF-P53759-F1
Enzyme type:
dihydrouridine synthase
Position of modification - modification:
t :17 - D
t :16 - D
Protein sequence:
MTEPALSSANNALMQKLTGRQLFDKIGRPTRIVAPMVDQSELAWRILSRRYGATLAYTPMLHAKLFATSKKYREDNWSSLDGSSVDRPLVVQFCANDPEYLLAAAKLVEDKCDAVDLNLGCPQGIAKKGHYGSFLMEEWDLIHNLINTLHKNLKVPVTAKIRIFDDCEKSLNYAKMVLDAGAQFLTVHGRVREQKGQKTGLANWETIKYLRDNLPKETVFFANGNILYPEDISRCMEHIGADAVMSAEGNLYNPGVFNVGQTKNKEKIFPRVDKIIREYFQIVKECQESKASKTAMKSHFFKILRPFLPHHTDIRSTLATMNAKATWEEWEEQVVKPVEKVVQEIFEQPDIAIKDEITIGEKQSWGGSYRTVPYWRCQPYFRPVNGITGDKRVMQGLIDESVNKKRKADVPLESADKKKDVKA
Comments:
Dihydrouridine synthases are a conserved enzyme family that is encoded by the orthologous COG0042 gene family (Kasprzak et al. 2012 ). Dihydrouridine (D) is a post-trascriptionally modified pyrimidine nucleoside. D results from the reduction of C5,6-double bondof a uridine residue in RNA transcripts (Kasprzak et al. 2012 ) that brings to the addition of two hydrogen atoms C6 and C5. With the absence of the double bond, dihydrouridine is believed to decrease region stability, promoting dynamic motion and accommodating loop structure. D is generated post-transcriptionally by Dus enzymes and it is found in different positions of tRNAs. In s.cerevisiae Dus1 catalyzes the hydrogenation of U17 and U16 in multiple tRNA substrates with flavin mononucleotide (FMN) as a cofactor (Nader et al. 2015 ) to catalyze hybride transfer from NAD(P)H to the uridine substrate (Bishop et al. 2002 ).It is not an essential enzyme.
Reaction
Substrate
SubstrateType
Position
(Anti)Codon
Modified (Anti)Codon
Amino Acid Change
Transcript Name
Transcript Region
Cellular Localization
References
U:D
tRNA
16
IGC
IGC
tRNAAla IGC
D-loop
cytosol
U:D
tRNA
16
ACU
ACU
tRNAArg ACU
D-loop
cytosol
U:D
tRNA
16
ICG
ICG
tRNAArg ICG
D-loop
cytosol
U:D
tRNA
16
GUU
GUU
tRNAAsn GUU
D-loop
cytosol
U:D
tRNA
16
GUC
GUC
tRNAAsp UGUC
D-loop
cytosol
U:D
tRNA
16
GCA
GCA
tRNACys GCA
D-loop
cytosol
U:D
tRNA
16
GCC
GCC
tRNAGly GCC
D-loop
cytosol
U:D
tRNA
16
{CC
{CC
tRNAGly {CC
D-loop
cytosol
U:D
tRNA
16
GUG
GUG
tRNAHis GUG
D-loop
cytosol
U:D
tRNA
16
IAU
IAU
tRNAIle IAU
cytosol
U:D
tRNA
16
UAU
UAU
tRNAIle UAU
D-loop
cytosol
U:D
tRNA
16
UAG
UAG
tRNALeu UAG
D-loop
cytosol
U:D
tRNA
16
UAA
UAA
tRNALeu UAA
D-loop
cytosol
U:D
tRNA
16
CUU
CUU
tRNALys CUU
D-loop
cytosol
U:D
tRNA
16
SUU
SUU
tRNALys SUU
D-loop
cytosol
U:D
tRNA
16
CAU
CAU
tRNAMet CAU
D-loop
cytosol
U:D
tRNA
16
GAA
GAA
tRNAPhe GAA
D-loop
cytosol
U:D
tRNA
16
UGG
UGG
tRNAPro UGG
D-loop
cytosol
U:D
tRNA
16
CGA
CGA
tRNASer CGA
D-loop
cytosol
U:D
tRNA
16
UGA
UGA
tRNASer UGA
D-loop
cytosol
U:D
tRNA
16
IGA
IGA
tRNASer IGA
D-loop
cytoplasm
U:D
tRNA
16
IGU
IGU
tRNAThr IGU
D-loop
cytosol
U:D
tRNA
16
CCA
CCA
tRNATrp CCA
D-loop
cytoplasm
U:D
tRNA
16
GUA
GUA
tRNATyr GUA
D-loop
cytoplasm
U:D
tRNA
16
IAC
IAC
tRNAVal IAC
D-loop
cytoplasm
U:D
tRNA
17
GUU
GUU
tRNAAsn GUU
D-loop
cytosol
U:D
tRNA
17
IAU
IAU
tRNAIle IAU
D-loop
cytosol
U:D
tRNA
17
CUU
CUU
tRNALys CUU
D-loop
cytosol
U:D
tRNA
17
GAA
GAA
tRNAPhe GAA
D-loop
cytoplasm
U:D
tRNA
17
IGU
IGU
tRNAThr IGU
D-loop
cytosol
U:D
tRNA
16
UCU
UCU
tRNAArg UCU
D-loop
mitochondrion
Alpha Fold Predicted Structure:
Clear Selection and Reset Camera
Clear Selection
Reset Camera
Protein sequence:
M
T
E
P
A
L
S
S
A
N
N
A
L
M
Q
K
L
T
G
R
Q
L
F
D
K
I
G
R
P
T
R
I
V
A
P
M
V
D
Q
S
E
L
A
W
R
I
L
S
R
R
Y
G
A
T
L
A
Y
T
P
M
L
H
A
K
L
F
A
T
S
K
K
Y
R
E
D
N
W
S
S
L
D
G
S
S
V
D
R
P
L
V
V
Q
F
C
A
N
D
P
E
Y
L
L
A
A
A
K
L
V
E
D
K
C
D
A
V
D
L
N
L
G
C
P
Q
G
I
A
K
K
G
H
Y
G
S
F
L
M
E
E
W
D
L
I
H
N
L
I
N
T
L
H
K
N
L
K
V
P
V
T
A
K
I
R
I
F
D
D
C
E
K
S
L
N
Y
A
K
M
V
L
D
A
G
A
Q
F
L
T
V
H
G
R
V
R
E
Q
K
G
Q
K
T
G
L
A
N
W
E
T
I
K
Y
L
R
D
N
L
P
K
E
T
V
F
F
A
N
G
N
I
L
Y
P
E
D
I
S
R
C
M
E
H
I
G
A
D
A
V
M
S
A
E
G
N
L
Y
N
P
G
V
F
N
V
G
Q
T
K
N
K
E
K
I
F
P
R
V
D
K
I
I
R
E
Y
F
Q
I
V
K
E
C
Q
E
S
K
A
S
K
T
A
M
K
S
H
F
F
K
I
L
R
P
F
L
P
H
H
T
D
I
R
S
T
L
A
T
M
N
A
K
A
T
W
E
E
W
E
E
Q
V
V
K
P
V
E
K
V
V
Q
E
I
F
E
Q
P
D
I
A
I
K
D
E
I
T
I
G
E
K
Q
S
W
G
G
S
Y
R
T
V
P
Y
W
R
C
Q
P
Y
F
R
P
V
N
G
I
T
G
D
K
R
V
M
Q
G
L
I
D
E
S
V
N
K
K
R
K
A
D
V
P
L
E
S
A
D
K
K
K
D
V
K
A
Secondary Structure Alphabet
G: 3-turn helix (310 helix)
H: α-helix
I: 𝝅-helix (5 - turn helix)
T: Hydrogen Bonded Turn
B: β-sheet
S: Bend
C: Coil (residues not present in any of the above conformations)
N: Not assigned
Download PDB Structures & DSSP Secondary Structures:
Publications:
Title
Authors
Journal
Details
PubMed Id
DOI
The specificities of four yeast dihydrouridine synthases for cytoplasmic tRNAs.
Xing F, Hiley SL, Hughes TR, Phizicky EM
J Biol Chem
[details]
14970222
-
A conserved family of Saccharomyces cerevisiae synthases effects dihydrouridine modification of tRNA.
Xing F, Martzen MR, Phizicky EM
RNA
[details]
12003496
-
Molecular evolution of dihydrouridine synthases.
Kasprzak JM, Czerwoniec A, Bujnicki JM...
BMC Bioinformatics
[details]
22741570
-
Links: