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.
2R96
Asym. Unit
Info
Asym.Unit (71 KB)
Biol.Unit 1 (126 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 E. COLI WRBA IN COMPLEX WITH FMN
Authors
:
I. Kuta Smatanova, J. Wolfova, J. Brynda, J. R. Mesters, R. Grandori, J. Carey
Date
:
12 Sep 07 (Deposition) - 23 Sep 08 (Release) - 29 Sep 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.60
Chains
:
Asym. Unit : A,C
Biol. Unit 1: A,C (2x)
Keywords
:
Electron Transport, Quinone Oxidoreductase, Flavoprotein, Flavodoxin-Like Fold, Fmn-Binding, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. Wolfova, I. K. Smatanova, J. Brynda, J. R. Mesters, M. Lapkouski, M. Kuty, A. Natalello, N. Chatterjee, S. Y. Chern, E. Ebbel, A. Ricci, R. Grandori, R. Ettrich, J. Carey
Structural Organization Of Wrba In Apo- And Holoprotein Crystals.
Biochim. Biophys. Acta V. 1794 1288 2009
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(2, 16)
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)
1j: 1,2-ETHANEDIOL (EDOj)
1k: 1,2-ETHANEDIOL (EDOk)
1l: 1,2-ETHANEDIOL (EDOl)
1m: 1,2-ETHANEDIOL (EDOm)
1n: 1,2-ETHANEDIOL (EDOn)
2a: FLAVIN MONONUCLEOTIDE (FMNa)
2b: FLAVIN MONONUCLEOTIDE (FMNb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDO
14
Ligand/Ion
1,2-ETHANEDIOL
2
FMN
2
Ligand/Ion
FLAVIN MONONUCLEOTIDE
[
close Hetero Component info
]
Sites
(16, 16)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
SER A:9 , MET A:10 , TYR A:11 , GLY A:12 , HIS A:13 , ILE A:14 , PRO A:76 , THR A:77 , ARG A:78 , PHE A:79 , SER A:112 , THR A:113 , GLY A:114 , GLY A:116 , GLY A:117 , TYR A:142 , EDO A:204 , HOH A:208 , HOH A:224 , ASP C:91 , HIS C:132 , EDO C:204
BINDING SITE FOR RESIDUE FMN A 198
02
AC2
SOFTWARE
ALA A:143 , ALA A:144 , GLN A:145 , GLU A:146
BINDING SITE FOR RESIDUE EDO A 199
03
AC3
SOFTWARE
THR A:41 , GLY A:84 , GLN A:85 , HOH A:231 , THR C:88 , ASP C:91
BINDING SITE FOR RESIDUE EDO A 200
04
AC4
SOFTWARE
LEU A:191 , LYS A:194 , GLU C:48
BINDING SITE FOR RESIDUE EDO A 201
05
AC5
SOFTWARE
ARG A:37 , GLU A:40 , THR A:54 , GLN A:55
BINDING SITE FOR RESIDUE EDO A 202
06
AC6
SOFTWARE
TRP A:97 , HOH A:247 , FMN C:198 , EDO C:199
BINDING SITE FOR RESIDUE EDO A 203
07
AC7
SOFTWARE
GLY A:114 , THR A:115 , FMN A:198 , TRP C:97 , EDO C:204
BINDING SITE FOR RESIDUE EDO A 204
08
AC8
SOFTWARE
ALA A:22 , SER A:26 , VAL A:33
BINDING SITE FOR RESIDUE EDO A 205
09
AC9
SOFTWARE
TYR A:183 , GLU A:186 , TYR A:187 , HOH A:239
BINDING SITE FOR RESIDUE EDO A 206
10
BC1
SOFTWARE
ASP A:91 , HIS A:132 , EDO A:203 , SER C:9 , MET C:10 , TYR C:11 , GLY C:12 , HIS C:13 , ILE C:14 , PRO C:76 , THR C:77 , ARG C:78 , PHE C:79 , SER C:112 , THR C:113 , GLY C:114 , THR C:115 , GLY C:117 , TYR C:142 , EDO C:199 , HOH C:214 , HOH C:232
BINDING SITE FOR RESIDUE FMN C 198
11
BC2
SOFTWARE
EDO A:203 , GLY C:114 , THR C:115 , FMN C:198
BINDING SITE FOR RESIDUE EDO C 199
12
BC3
SOFTWARE
LYS C:2 , GLU C:32 , ASP C:67
BINDING SITE FOR RESIDUE EDO C 200
13
BC4
SOFTWARE
TYR C:7 , TYR C:8 , SER C:9 , ARG C:37 , VAL C:38 , GLN C:55
BINDING SITE FOR RESIDUE EDO C 201
14
BC5
SOFTWARE
TYR C:11 , GLY C:12 , HIS C:13 , THR C:16 , GLN C:172 , PRO C:173
BINDING SITE FOR RESIDUE EDO C 202
15
BC6
SOFTWARE
ARG C:171 , GLN C:172
BINDING SITE FOR RESIDUE EDO C 203
16
BC7
SOFTWARE
FMN A:198 , EDO A:204 , TRP C:97 , HOH C:242
BINDING SITE FOR RESIDUE EDO C 204
[
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
(1, 2)
Info
All PROSITE Patterns/Profiles
1: FLAVODOXIN_LIKE (A:3-188,C:3-188)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
FLAVODOXIN_LIKE
PS50902
Flavodoxin-like domain profile.
NQOR_ECOLI
4-189
2
A:3-188
C:3-188
[
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
(1, 2)
Info
All SCOP Domains
1a: SCOP_d2r96a_ (A:)
1b: SCOP_d2r96c_ (C:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Flavodoxin-like
(1057)
Superfamily
:
Flavoproteins
(208)
Family
:
WrbA-like
(12)
Protein domain
:
Trp repressor binding protein WrbA
(8)
Escherichia coli [TaxId: 562]
(3)
1a
d2r96a_
A:
1b
d2r96c_
C:
[
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 C
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 (71 KB)
Header - Asym.Unit
Biol.Unit 1 (126 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
2R96
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
