Toggle navigation
Modelling
myWorkspace
Alignment Mode
User Template Mode
DeepView Project Mode
Modelling API
Template Library
Repository
SWISS-MODEL Repository
Repository API
3D-Beacons API
Annotation Projects
TBvar3D
Tools
Structure Assessment
Structure Comparison
QMEAN
Documentation
SWISS-MODEL
Examples
Video Tutorial
New Features
SWISS-MODEL Repository
QMEAN
Structure Assessment
Structure Comparison
TBvar3D
Protein Structure Course
References
Log in
Create Account
SMTL ID : 1x8l.1
Crystal structure of retinol dehydratase in complex with all-trans-4-oxoretinol and inactive cofactor PAP
Coordinates
PDB Format
Compare
Method
X-RAY DIFFRACTION 2.10 Å
Oligo State
homo-dimer
Ligands
2 x
HG
:
MERCURY (II) ION
(Non-covalent)
HG.1:
3 residues within 4Å:
Chain A:
A.316
,
G.317
,
C.318
1
PLIP interactions
:
1 interactions with chain A
Metal complexes:
A:C.318
HG.4:
3 residues within 4Å:
Chain B:
A.316
,
G.317
,
C.318
1
PLIP interactions
:
1 interactions with chain B
Metal complexes:
B:C.318
2 x
CA
:
CALCIUM ION
(Non-covalent)
CA.2:
3 residues within 4Å:
Chain A:
E.118
,
N.121
,
D.122
3
PLIP interactions
:
2 interactions with chain A
,
1 Ligand-Water interactions
Metal complexes:
A:E.118
,
A:D.122
,
H
2
O.6
CA.5:
3 residues within 4Å:
Chain B:
E.118
,
N.121
,
D.122
2
PLIP interactions
:
2 interactions with chain B
Metal complexes:
B:E.118
,
B:D.122
2 x
OXR
:
4-OXORETINOL
(Non-covalent)
OXR.3:
11 residues within 4Å:
Chain A:
F.31
,
Y.105
,
Y.120
,
L.138
,
L.139
,
K.162
,
H.164
,
H.197
,
L.201
,
I.303
,
F.310
10
PLIP interactions
:
10 interactions with chain A
Hydrophobic interactions:
A:Y.105
,
A:Y.120
,
A:L.138
,
A:L.139
,
A:L.201
,
A:I.303
,
A:F.310
Hydrogen bonds:
A:K.162
Water bridges:
A:T.76
,
A:T.76
OXR.8:
9 residues within 4Å:
Chain B:
F.31
,
Y.105
,
Y.120
,
L.138
,
L.139
,
S.142
,
K.162
,
H.164
,
H.197
6
PLIP interactions
:
6 interactions with chain B
Hydrophobic interactions:
B:Y.105
,
B:Y.120
,
B:L.138
,
B:L.139
Hydrogen bonds:
B:K.162
,
B:H.164
2 x
A3P
:
ADENOSINE-3'-5'-DIPHOSPHATE
(Non-covalent)
A3P.6:
16 residues within 4Å:
Chain A:
R.73
,
S.74
,
G.75
,
T.76
,
T.77
,
M.78
,
R.185
,
S.193
,
Y.248
,
L.282
,
F.284
,
F.287
,
I.311
,
R.312
,
K.313
,
G.314
27
PLIP interactions
:
27 interactions with chain A
Hydrogen bonds:
A:R.73
,
A:R.73
,
A:S.74
,
A:G.75
,
A:T.76
,
A:T.76
,
A:T.77
,
A:T.77
,
A:S.193
,
A:L.282
,
A:R.312
,
A:K.313
,
A:G.314
Water bridges:
A:R.73
,
A:R.73
,
A:T.76
,
A:T.76
,
A:M.78
,
A:M.78
,
A:S.193
,
A:R.312
,
A:R.312
,
A:K.315
Salt bridges:
A:R.73
,
A:R.185
,
A:R.312
pi-Stacking:
A:F.284
A3P.7:
16 residues within 4Å:
Chain B:
R.73
,
S.74
,
G.75
,
T.76
,
T.77
,
M.78
,
R.185
,
S.193
,
Y.248
,
L.282
,
F.284
,
F.287
,
I.311
,
R.312
,
K.313
,
G.314
25
PLIP interactions
:
25 interactions with chain B
Hydrogen bonds:
B:R.73
,
B:R.73
,
B:S.74
,
B:G.75
,
B:T.76
,
B:T.76
,
B:T.77
,
B:T.77
,
B:S.193
,
B:L.282
,
B:R.312
,
B:K.313
,
B:G.314
Water bridges:
B:R.73
,
B:R.73
,
B:M.78
,
B:M.78
,
B:R.185
,
B:S.193
,
B:K.315
,
B:K.315
Salt bridges:
B:R.73
,
B:R.185
,
B:R.312
pi-Stacking:
B:F.284
Links
RCSB
PDBe
PDBe-KB
PDBj
PDBsum
CATH
PLIP
Citation
Pakhomova, S. et al., The structures of the unique sulfotransferase retinol dehydratase with product and inhibitors provide insight into enzyme mechanism and inhibition. Protein Sci. (2005)
Release Date
2005-02-08
Peptides
retinol dehydratase:
A
B
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
B
B
Export Alignment
FASTA format
Clustal Format
PNG Image
Secondary Structure
None
DSSP
PSIPRED
SSpro
Colour Scheme
Fade Mismatches
Enhance Mismatches
Chain
Unique Chain
Rainbow
2° Structure
Bfactor
Bfactor Range
SOA
Entropy
Clustal
Hydrophobic
Size
Charged
Polar
Proline
Ser/Thr
Cysteine
Aliphatic
Aromatic
No Colour
Background
3D Viewer
NGL
PV
2D
FASTA
Multi FASTA
ClustalW
PNG
retinol dehydratase
Toggle Identical (AB)
Related Entries With Identical Sequence
1x8j.1
|
1x8k.1
Cartoon
Cartoon
Tube
Trace
Lines
Ball+Stick
Licorice
Hyperball
Rope
Surface
Spacefill
Outline
Fog
Background
Transparent
Resolution
Low
Medium
High
Extreme