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SMTL ID : 7reg.1
DfrA1 complexed with NADPH and 4'-chloro-3'-(4-(2,4-diamino-6-ethylpyrimidin-5-yl)but-3-yn-2-yl)-[1,1'-biphenyl]-4-carboxamide (UCP1228)
Coordinates
PDB Format
Method
X-RAY DIFFRACTION 1.77 Å
Oligo State
homo-dimer
Ligands
2 x
4SI
:
4'-chloro-3'-[(2S)-4-(2,4-diamino-6-ethylpyrimidin-5-yl)but-3-yn-2-yl][1,1'-biphenyl]-4-carboxamide
(Non-covalent)
4SI.1:
16 residues within 4Å:
Chain A:
M.6
,
V.7
,
A.8
,
I.21
,
E.28
,
Q.29
,
F.32
,
K.33
,
T.47
,
S.50
,
M.51
,
L.54
,
S.97
,
Y.103
,
S.116
Ligands:
NAP.2
13
PLIP interactions
:
13 interactions with chain A
Hydrophobic interactions:
A:I.21
,
A:Q.29
,
A:F.32
,
A:T.47
,
A:M.51
,
A:L.54
Hydrogen bonds:
A:M.6
,
A:K.33
,
A:K.33
,
A:S.116
,
A:S.116
Salt bridges:
A:E.28
pi-Stacking:
A:F.32
4SI.4:
16 residues within 4Å:
Chain B:
M.6
,
V.7
,
A.8
,
I.21
,
E.28
,
Q.29
,
F.32
,
K.33
,
T.47
,
S.50
,
M.51
,
L.54
,
S.97
,
Y.103
,
S.116
Ligands:
NAP.5
12
PLIP interactions
:
12 interactions with chain B
Hydrophobic interactions:
B:I.21
,
B:Q.29
,
B:F.32
,
B:T.47
,
B:M.51
,
B:L.54
Hydrogen bonds:
B:Y.103
,
B:Y.103
,
B:S.116
,
B:S.116
Salt bridges:
B:E.28
pi-Stacking:
B:F.32
2 x
NAP
:
NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
(Non-covalent)
NAP.2:
31 residues within 4Å:
Chain A:
V.7
,
A.8
,
I.15
,
G.16
,
N.17
,
G.18
,
P.19
,
D.20
,
I.21
,
W.23
,
G.44
,
R.45
,
K.46
,
T.47
,
V.62
,
T.63
,
R.64
,
S.65
,
P.78
,
S.79
,
I.80
,
S.97
,
G.98
,
G.99
,
G.100
,
E.101
,
I.102
,
Y.103
,
V.126
Ligands:
4SI.1
,
CA.3
32
PLIP interactions
:
32 interactions with chain A
Hydrophobic interactions:
A:I.21
,
A:T.47
Hydrogen bonds:
A:A.8
,
A:N.17
,
A:G.18
,
A:P.19
,
A:G.44
,
A:R.45
,
A:R.45
,
A:K.46
,
A:T.47
,
A:T.47
,
A:T.63
,
A:R.64
,
A:R.64
,
A:S.65
,
A:I.80
,
A:G.99
,
A:G.100
,
A:E.101
,
A:E.101
,
A:I.102
,
A:Y.103
,
A:Y.103
Water bridges:
A:K.46
,
A:E.101
,
A:E.101
,
A:S.105
Salt bridges:
A:R.45
,
A:K.46
pi-Cation interactions:
A:R.64
,
A:R.64
NAP.5:
30 residues within 4Å:
Chain B:
V.7
,
A.8
,
I.15
,
G.16
,
N.17
,
G.18
,
P.19
,
D.20
,
I.21
,
W.23
,
G.44
,
R.45
,
K.46
,
T.47
,
V.62
,
T.63
,
R.64
,
S.65
,
P.78
,
S.79
,
I.80
,
S.97
,
G.98
,
G.99
,
G.100
,
E.101
,
I.102
,
Y.103
,
V.126
Ligands:
4SI.4
26
PLIP interactions
:
26 interactions with chain B
Hydrophobic interactions:
B:I.21
,
B:T.47
Hydrogen bonds:
B:A.8
,
B:N.17
,
B:G.18
,
B:P.19
,
B:G.44
,
B:R.45
,
B:R.45
,
B:K.46
,
B:K.46
,
B:T.47
,
B:T.47
,
B:R.64
,
B:R.64
,
B:S.65
,
B:I.80
,
B:G.99
,
B:G.100
,
B:E.101
,
B:I.102
,
B:Y.103
Salt bridges:
B:R.45
,
B:K.46
pi-Cation interactions:
B:R.64
,
B:R.64
1 x
CA
:
CALCIUM ION
(Non-covalent)
CA.3:
4 residues within 4Å:
Chain A:
S.79
,
I.80
,
K.81
Ligands:
NAP.2
No protein-ligand interaction detected (PLIP)
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Krucinska, J. et al., Structure-guided functional studies of plasmid-encoded dihydrofolate reductases reveal a common mechanism of trimethoprim resistance in Gram-negative pathogens. Commun Biol (2022)
Release Date
2022-07-27
Peptides
Dihydrofolate reductase type 1:
A
B
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
B
B
Export Alignment
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PNG Image
Secondary Structure
None
DSSP
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SSpro
Colour Scheme
Fade Mismatches
Enhance Mismatches
Chain
Unique Chain
Rainbow
2° Structure
Bfactor
Bfactor Range
SOA
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PNG
Dihydrofolate reductase type 1
Related Entries With Identical Sequence
5ecc.1
|
5ecc.2
|
5ecx.1
|
7rgj.1
Cartoon
Cartoon
Tube
Trace
Lines
Ball+Stick
Licorice
Hyperball
Rope
Surface
Spacefill
Outline
Fog
Background
Transparent
Resolution
Low
Medium
High
Extreme