PLEASE WAIT...
Getting 'Biological Unit' information from database.
PLEASE WAIT...
Getting 'Hetero Component' information from database.
PLEASE WAIT...
Getting 'Site' information from database.
PLEASE WAIT...
No precomputed SNP/Variant structure found.
Calculating the structure may take several minutes.
PLEASE WAIT...
Getting 'PROSITE' information from database.
5AOV
Biol. Unit 1
Info
Asym.Unit (200 KB)
Biol.Unit 1 (377 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
TERNARY CRYSTAL STRUCTURE OF PYROCOCCUS FURIOSUS GLYOXYLATE HYDROXYPYRUVATE REDUCTASE IN PRESENCE OF GLYOXALATE
Authors
:
L. Lassalle, E. Girard
Date
:
12 Sep 15 (Deposition) - 02 Mar 16 (Release) - 02 Mar 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.40
Chains
:
Asym. Unit : A
Biol. Unit 1: A (2x)
Keywords
:
Oxidoreductase, Glyoxylate Hydroxypyruvate Reductase, Glyoxylate, Archaea
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
L. Lassalle, S. Engilberge, D. Madern, P. Vauclare, B. Franzetti, E. Girard
New Insights Into The Mechanism Of Substrates Trafficking In Glyoxylate/Hydroxypyruvate Reductases.
Sci. Rep. V. 6 20629 2016
[
close entry info
]
Hetero Components
(5, 50)
Info
All Hetero Components
1a: PENTAETHYLENE GLYCOL (1PEa)
1b: PENTAETHYLENE GLYCOL (1PEb)
1c: PENTAETHYLENE GLYCOL (1PEc)
1d: PENTAETHYLENE GLYCOL (1PEd)
1e: PENTAETHYLENE GLYCOL (1PEe)
1f: PENTAETHYLENE GLYCOL (1PEf)
1g: PENTAETHYLENE GLYCOL (1PEg)
1h: PENTAETHYLENE GLYCOL (1PEh)
1i: PENTAETHYLENE GLYCOL (1PEi)
1j: PENTAETHYLENE GLYCOL (1PEj)
1k: PENTAETHYLENE GLYCOL (1PEk)
1l: PENTAETHYLENE GLYCOL (1PEl)
1m: PENTAETHYLENE GLYCOL (1PEm)
1n: PENTAETHYLENE GLYCOL (1PEn)
1o: PENTAETHYLENE GLYCOL (1PEo)
2a: ACETIC ACID (ACYa)
2b: ACETIC ACID (ACYb)
3a: 1,2-ETHANEDIOL (EDOa)
3b: 1,2-ETHANEDIOL (EDOb)
3c: 1,2-ETHANEDIOL (EDOc)
3d: 1,2-ETHANEDIOL (EDOd)
3e: 1,2-ETHANEDIOL (EDOe)
4a: GLYOXYLIC ACID (GLVa)
4b: GLYOXYLIC ACID (GLVb)
5a: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
1PE
30
Ligand/Ion
PENTAETHYLENE GLYCOL
2
ACY
4
Ligand/Ion
ACETIC ACID
3
EDO
10
Ligand/Ion
1,2-ETHANEDIOL
4
GLV
4
Ligand/Ion
GLYOXYLIC ACID
5
NAP
2
Ligand/Ion
NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDEPHOSPHATE
[
close Hetero Component info
]
Sites
(25, 25)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:32 , LYS A:42 , VAL A:76 , THR A:104 , GLY A:157 , PHE A:158 , GLY A:159 , ARG A:160 , ILE A:161 , TYR A:179 , SER A:180 , ARG A:181 , THR A:182 , LYS A:184 , ALA A:211 , VAL A:212 , PRO A:213 , GLU A:217 , THR A:218 , ILE A:239 , ALA A:240 , ARG A:241 , ASP A:265 , HIS A:288 , GLY A:290 , SER A:291 , GLV A:1336 , HOH A:2059 , HOH A:2078 , HOH A:2135 , HOH A:2143 , HOH A:2170 , HOH A:2228 , HOH A:2230 , HOH A:2232 , HOH A:2251 , HOH A:2255 , HOH A:2256 , HOH A:2287 , HOH A:2352 , HOH A:2397
BINDING SITE FOR RESIDUE NAP A1335
02
AC2
SOFTWARE
LEU A:53 , ALA A:75 , VAL A:76 , GLY A:77 , LEU A:100 , ARG A:241 , HIS A:288 , NAP A:1335 , HOH A:2352 , HOH A:2353
BINDING SITE FOR RESIDUE GLV A1336
03
AC3
SOFTWARE
ARG A:56 , ASP A:79 , ASN A:80 , ILE A:81 , ASP A:82 , HOH A:2398 , HOH A:2399
BINDING SITE FOR RESIDUE 1PE A1337
04
AC4
SOFTWARE
ARG A:133
BINDING SITE FOR RESIDUE 1PE A1338
05
AC5
SOFTWARE
PHE A:294 , 1PE A:1347 , HOH A:2401 , HOH A:2403
BINDING SITE FOR RESIDUE 1PE A1339
06
AC6
SOFTWARE
TYR A:220 , ASN A:223 , ARG A:226 , HOH A:2295 , HOH A:2404
BINDING SITE FOR RESIDUE 1PE A1340
07
AC7
SOFTWARE
GLU A:13 , TYR A:195
BINDING SITE FOR RESIDUE 1PE A1341
08
AC8
SOFTWARE
ASN A:173 , MET A:174 , HOH A:2407
BINDING SITE FOR RESIDUE 1PE A1342
09
AC9
SOFTWARE
THR A:115 , ALA A:116 , HIS A:118 , LYS A:121 , TYR A:146 , ALA A:260 , ASP A:281 , ASN A:282 , 1PE A:1359 , HOH A:2186 , HOH A:2189 , HOH A:2330
BINDING SITE FOR RESIDUE 1PE A1343
10
BC1
SOFTWARE
PHE A:278 , SER A:279 , HOH A:2192 , HOH A:2194 , HOH A:2408
BINDING SITE FOR RESIDUE 1PE A1344
11
BC2
SOFTWARE
LEU A:214 , THR A:215 , LYS A:216 , HOH A:2046 , HOH A:2290 , HOH A:2409 , HOH A:2410
BINDING SITE FOR RESIDUE 1PE A1345
12
BC3
SOFTWARE
ASP A:98 , ASN A:102 , TYR A:149 , ARG A:167 , 1PE A:1347 , HOH A:2180 , HOH A:2412 , HOH A:2413
BINDING SITE FOR RESIDUE 1PE A1346
13
BC4
SOFTWARE
TYR A:146 , TYR A:149 , LYS A:151 , ASP A:206 , THR A:233 , 1PE A:1339 , 1PE A:1346 , HOH A:2220 , HOH A:2221 , HOH A:2223 , HOH A:2285
BINDING SITE FOR RESIDUE 1PE A1347
14
BC5
SOFTWARE
GLU A:199 , GLU A:200 , LYS A:203 , LEU A:229
BINDING SITE FOR RESIDUE 1PE A1348
15
BC6
SOFTWARE
MET A:219 , TYR A:220 , LYS A:243 , GLU A:268 , GLU A:269 , HOH A:2400 , HOH A:2416
BINDING SITE FOR RESIDUE 1PE A1349
16
BC7
SOFTWARE
GLU A:31 , HIS A:139 , TRP A:142 , HOH A:2417
BINDING SITE FOR RESIDUE EDO A1350
17
BC8
SOFTWARE
TYR A:220 , ASP A:246
BINDING SITE FOR RESIDUE EDO A1351
18
BC9
SOFTWARE
GLY A:314
BINDING SITE FOR RESIDUE EDO A1352
19
CC1
SOFTWARE
LYS A:44 , ASN A:64 , PRO A:66 , HOH A:2117 , HOH A:2419
BINDING SITE FOR RESIDUE EDO A1353
20
CC2
SOFTWARE
LYS A:330 , PRO A:331 , GLY A:332 , PHE A:333 , ASN A:334 , HOH A:2420
BINDING SITE FOR RESIDUE EDO A1354
21
CC3
SOFTWARE
TYR A:272 , TYR A:273
BINDING SITE FOR RESIDUE 1PE A1355
22
CC4
SOFTWARE
MET A:52 , LEU A:53 , TYR A:74 , ALA A:75 , TRP A:138 , HOH A:2353
BINDING SITE FOR RESIDUE GLV A1356
23
CC5
SOFTWARE
LYS A:38 , TYR A:78 , ARG A:181 , ACY A:1358 , HOH A:2256 , HOH A:2421
BINDING SITE FOR RESIDUE ACY A1357
24
CC6
SOFTWARE
ARG A:32 , PRO A:35 , ARG A:181 , GLU A:217 , ACY A:1357 , HOH A:2287 , HOH A:2292
BINDING SITE FOR RESIDUE ACY A1358
25
CC7
SOFTWARE
HIS A:118 , TRP A:142 , PHE A:143 , LEU A:144 , TYR A:146 , PHE A:294 , 1PE A:1343 , HOH A:2076 , HOH A:2185 , HOH A:2214 , HOH A:2219 , HOH A:2422
BINDING SITE FOR RESIDUE 1PE A1359
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Asymmetric Unit 1
Asymmetric Unit 2
Rendering
(selected part)
Molecule Coloring
(selected part)
by Chain (Asym. Unit)
by Chain (Biol. Unit)
by Secondary Structure
by Atom (CPK)
by SCOP Domain
by CATH Domain
by Pfam Domain
by Asymmetric Unit
by Exon
by Amino Acid
by Nucleotide
by Temperature
by Charge
by Rainbow (Group)
by Custom Color
Background Coloring
Choose
molecule
background
color...
[
close
]
RGB value
(e.g.: "#3cb371" or "60,179,113")
Stereo
Graphics Window
x
pixel
Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
[
close Script example commands
]
Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
QuickSearch:
by PDB,NDB,UniProt,PROSITE Code or
Search Term(s)
Show PDB file:
Asym.Unit (200 KB)
Header - Asym.Unit
Biol.Unit 1 (377 KB)
Header - Biol.Unit 1
Plain Text
HTML (compressed size)
use JSmol [Javascript]
use Jmol [Java applet]
Upload:
Select a local file
OR
Enter a remote file address
You can upload any molecular structure file format that is recognized by Jmol,
e.g.: PDB, mmCif, CIF, CML, MOL, XYZ
(also compressed with 'gzip', see the
Jmol documentation
for a complete list)
JenaLib Atlas Page
|
Sequence/Alignment View
5AOV
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
