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.
PLEASE WAIT...
Getting 'Exon' information from database.
3UXJ
Asym. Unit
Info
Asym.Unit (398 KB)
Biol.Unit 1 (197 KB)
Biol.Unit 2 (197 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
CRYSTAL STRUCTURE OF 7-CYANO-7-DEAZAGUANINE REDUCTASE, QUEF FROM VIBRIO CHOLERAE COMPLEXED WITH NADP AND PREQ0
Authors
:
Y. Kim, R. Zhang, M. Gu, W. F. Anderson, A. Joachimiak, Center For Stru Genomics Of Infectious Diseases (Csgid)
Date
:
05 Dec 11 (Deposition) - 04 Jan 12 (Release) - 04 Jan 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.40
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Structural Genomics, Center For Structural Genomics Of Infectious Diseases, Csgid, Alpha-Beta Structure, Tunneling Fold, Reductase, Cytosol, Oxidoreductase-Oxidoreductase Substrate Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Y. Kim, R. Zhang, M. Gu, W. F. Anderson, A. Joachimiak, Csgid
Crystal Structure Of 7-Cyano-7-Deazaguanine Reductase, Quef From Vibrio Cholerae Complexed With Nadp And Preq0
To Be Published 2012
[
close entry info
]
Hetero Components
(4, 31)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1b: 1,2-ETHANEDIOL (EDOb)
1c: 1,2-ETHANEDIOL (EDOc)
1d: 1,2-ETHANEDIOL (EDOd)
1e: 1,2-ETHANEDIOL (EDOe)
1f: 1,2-ETHANEDIOL (EDOf)
1g: 1,2-ETHANEDIOL (EDOg)
1h: 1,2-ETHANEDIOL (EDOh)
1i: 1,2-ETHANEDIOL (EDOi)
2a: SELENOMETHIONINE (MSEa)
2b: SELENOMETHIONINE (MSEb)
2c: SELENOMETHIONINE (MSEc)
2d: SELENOMETHIONINE (MSEd)
2e: SELENOMETHIONINE (MSEe)
2f: SELENOMETHIONINE (MSEf)
2g: SELENOMETHIONINE (MSEg)
2h: SELENOMETHIONINE (MSEh)
2i: SELENOMETHIONINE (MSEi)
2j: SELENOMETHIONINE (MSEj)
2k: SELENOMETHIONINE (MSEk)
2l: SELENOMETHIONINE (MSEl)
2m: SELENOMETHIONINE (MSEm)
2n: SELENOMETHIONINE (MSEn)
2o: SELENOMETHIONINE (MSEo)
2p: SELENOMETHIONINE (MSEp)
3a: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPa)
3b: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPb)
4a: 7-DEAZA-7-AMINOMETHYL-GUANINE (PRFa)
4b: 7-DEAZA-7-AMINOMETHYL-GUANINE (PRFb)
4c: 7-DEAZA-7-AMINOMETHYL-GUANINE (PRFc)
4d: 7-DEAZA-7-AMINOMETHYL-GUANINE (PRFd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDO
9
Ligand/Ion
1,2-ETHANEDIOL
2
MSE
16
Mod. Amino Acid
SELENOMETHIONINE
3
NAP
2
Ligand/Ion
NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
4
PRF
4
Ligand/Ion
7-DEAZA-7-AMINOMETHYL-GUANINE
[
close Hetero Component info
]
Sites
(15, 15)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LEU A:92 , ILE A:93 , GLU A:94 , SER A:95 , CYS A:194 , ASP A:201 , PHE A:232 , HIS A:233 , GLU A:234 , ILE A:267 , NAP A:291
BINDING SITE FOR RESIDUE PRF A 1194
02
AC2
SOFTWARE
SER A:95 , LYS A:96 , LYS A:99 , THR A:197 , GLN A:199 , LEU A:262 , GLY A:263 , HOH A:813 , HOH A:996 , PRF A:1194 , LYS B:96 , LYS B:99 , LEU B:262 , GLY B:263 , HOH B:321 , HOH B:1109
BINDING SITE FOR RESIDUE NAP A 291
03
AC3
SOFTWARE
ALA A:208 , TYR A:209 , HIS A:210 , SER A:252 , HOH A:486 , HOH A:1070 , ALA C:111
BINDING SITE FOR RESIDUE EDO A 292
04
AC4
SOFTWARE
CYS A:154 , GLN A:158 , ARG A:216 , HOH A:1083
BINDING SITE FOR RESIDUE EDO A 293
05
AC5
SOFTWARE
TRP B:62 , LEU B:92 , ILE B:93 , GLU B:94 , SER B:95 , CYS B:194 , ASP B:201 , PHE B:232 , HIS B:233 , GLU B:234 , ILE B:267
BINDING SITE FOR RESIDUE PRF B 1194
06
AC6
SOFTWARE
ILE B:162 , ALA B:163 , ARG B:221 , HOH B:317 , HOH B:542
BINDING SITE FOR RESIDUE EDO B 291
07
AC7
SOFTWARE
ASN A:140 , THR B:149 , HIS B:186 , HIS B:188 , HOH B:469 , HOH B:991
BINDING SITE FOR RESIDUE EDO B 292
08
AC8
SOFTWARE
GLN B:151 , GLU B:206 , HIS B:280 , GLU C:145 , PRO C:146
BINDING SITE FOR RESIDUE EDO B 293
09
AC9
SOFTWARE
ASN A:164 , GLY B:178 , GLU B:179 , LYS B:213 , HOH B:746
BINDING SITE FOR RESIDUE EDO B 294
10
BC1
SOFTWARE
TYR B:142 , PRO B:146 , GLN B:282 , ARG B:283 , HOH B:352 , HOH B:388
BINDING SITE FOR RESIDUE EDO B 295
11
BC2
SOFTWARE
TRP C:62 , LEU C:92 , ILE C:93 , GLU C:94 , SER C:95 , CYS C:194 , ILE C:196 , ASP C:201 , PHE C:232 , HIS C:233 , GLU C:234 , ILE C:267
BINDING SITE FOR RESIDUE PRF C 1194
12
BC3
SOFTWARE
ILE C:162 , ALA C:163 , ARG C:221 , HOH C:300 , HOH C:637 , HOH C:1059
BINDING SITE FOR RESIDUE EDO C 292
13
BC4
SOFTWARE
GLU B:145 , PRO B:146 , GLN C:151 , GLU C:206 , HIS C:280
BINDING SITE FOR RESIDUE EDO C 293
14
BC5
SOFTWARE
LYS C:96 , LYS C:99 , LEU C:262 , GLY C:263 , HOH C:330 , HOH C:1112 , SER D:95 , LYS D:96 , LYS D:99 , THR D:197 , GLN D:199 , LEU D:262 , GLY D:263 , HOH D:1021 , PRF D:1194
BINDING SITE FOR RESIDUE NAP D 291
15
BC6
SOFTWARE
LEU D:92 , ILE D:93 , GLU D:94 , SER D:95 , CYS D:194 , ASP D:201 , PHE D:232 , HIS D:233 , GLU D:234 , ILE D:267 , NAP D:291
BINDING SITE FOR RESIDUE PRF D 1194
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(0, 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.
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
Chain B
Chain C
Chain D
Asymmetric Unit 1
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 (398 KB)
Header - Asym.Unit
Biol.Unit 1 (197 KB)
Header - Biol.Unit 1
Biol.Unit 2 (197 KB)
Header - Biol.Unit 2
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
3UXJ
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
