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.
3FCJ
Asym. Unit
Info
Asym.Unit (283 KB)
Biol.Unit 1 (276 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
NITROALKANE OXIDASE: MUTANT402N CRYSTALLIZED WITH NITROETHANE
Authors
:
D. T Major, J. Gao, A. Heroux, A. M. Orville, M. P. Valley, P. F. Fitzpatr
Date
:
21 Nov 08 (Deposition) - 03 Nov 09 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.40
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Oxidoreductase Flavoenzyme, Nitroalkane, Acyl-Coa Dehydrogenase, Fad, Substrate Complex, Flavoprotein, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. T. Major, A. Heroux, A. M. Orville, M. P. Valley, P. F. Fitzpatrick, J. Gao
Differential Quantum Tunneling Contributions In Nitroalkane Oxidase Catalyzed And The Uncatalyzed Proton Transfer Reaction.
Proc. Natl. Acad. Sci. Usa V. 106 20734 2009
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(3, 14)
Info
All Hetero Components
1a: FLAVIN-ADENINE DINUCLEOTIDE (FADa)
1b: FLAVIN-ADENINE DINUCLEOTIDE (FADb)
1c: FLAVIN-ADENINE DINUCLEOTIDE (FADc)
1d: FLAVIN-ADENINE DINUCLEOTIDE (FADd)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
2f: GLYCEROL (GOLf)
3a: NITROETHANE (NIEa)
3b: NITROETHANE (NIEb)
3c: NITROETHANE (NIEc)
3d: NITROETHANE (NIEd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
FAD
4
Ligand/Ion
FLAVIN-ADENINE DINUCLEOTIDE
2
GOL
6
Ligand/Ion
GLYCEROL
3
NIE
4
Ligand/Ion
NITROETHANE
[
close Hetero Component info
]
Sites
(14, 14)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LEU A:131 , HIS A:133 , SER A:134 , GLY A:138 , THR A:139 , ALA A:140 , ASN A:141 , TRP A:169 , PRO A:170 , SER A:171 , LEU A:400 , PHE A:401 , ASN A:402 , GLY A:403 , GLY A:404 , ILE A:406 , GLY A:407 , LEU A:408 , HOH A:448 , HOH A:451 , HOH A:515 , NIE A:600 , ARG B:304 , ILE B:310 , HIS B:313 , VAL B:316 , LYS B:375 , ALA B:376 , VAL B:377 , GLY B:378 , MET B:379 , HOH B:445 , HOH B:478 , GLN C:314
BINDING SITE FOR RESIDUE FAD A 500
02
AC2
SOFTWARE
PHE A:401 , ASN A:402 , FAD A:500
BINDING SITE FOR RESIDUE NIE A 600
03
AC3
SOFTWARE
GLU A:270 , PHE A:273 , GLY A:403 , GLN A:412 , HOH A:453 , HOH A:456 , HOH A:511
BINDING SITE FOR RESIDUE GOL A 700
04
AC4
SOFTWARE
GLN A:10 , SER A:72 , VAL A:74 , GLU A:342 , VAL C:2
BINDING SITE FOR RESIDUE GOL A 701
05
AC5
SOFTWARE
ARG A:304 , ILE A:310 , HIS A:313 , VAL A:316 , LYS A:375 , ALA A:376 , VAL A:377 , GLY A:378 , MET A:379 , LEU B:131 , HIS B:133 , SER B:134 , GLY B:138 , THR B:139 , ALA B:140 , ASN B:141 , TRP B:169 , PRO B:170 , SER B:171 , LEU B:400 , PHE B:401 , ASN B:402 , GLY B:403 , GLY B:404 , ILE B:406 , GLY B:407 , LEU B:408 , ARG B:411 , HOH B:447 , HOH B:449 , HOH B:457 , NIE B:600 , GLN D:314
BINDING SITE FOR RESIDUE FAD B 500
06
AC6
SOFTWARE
ASN B:402 , FAD B:500
BINDING SITE FOR RESIDUE NIE B 600
07
AC7
SOFTWARE
GLU B:270 , PHE B:273 , GLY B:403 , LEU B:408 , GLN B:412 , HOH B:464 , HOH B:472
BINDING SITE FOR RESIDUE GOL B 700
08
AC8
SOFTWARE
GLN A:314 , LEU C:131 , HIS C:133 , SER C:134 , GLY C:138 , THR C:139 , ALA C:140 , ASN C:141 , TRP C:169 , PRO C:170 , SER C:171 , LEU C:400 , PHE C:401 , ASN C:402 , GLY C:403 , GLY C:404 , ILE C:406 , GLY C:407 , LEU C:408 , ARG C:411 , HOH C:448 , HOH C:460 , HOH C:498 , HOH C:509 , NIE C:600 , ARG D:304 , ILE D:310 , HIS D:313 , VAL D:316 , LYS D:375 , ALA D:376 , VAL D:377 , GLY D:378 , MET D:379 , HOH D:441
BINDING SITE FOR RESIDUE FAD C 500
09
AC9
SOFTWARE
LEU C:99 , ASN C:402 , FAD C:500
BINDING SITE FOR RESIDUE NIE C 600
10
BC1
SOFTWARE
GLU C:270 , GLY C:403 , LEU C:408 , GLN C:412 , HOH C:468 , HOH C:470 , HOH C:479
BINDING SITE FOR RESIDUE GOL C 700
11
BC2
SOFTWARE
VAL A:2 , GLN C:10 , SER C:72 , VAL C:74 , GLU C:342
BINDING SITE FOR RESIDUE GOL C 701
12
BC3
SOFTWARE
GLN B:314 , ARG C:304 , ILE C:310 , HIS C:313 , VAL C:316 , LYS C:375 , ALA C:376 , VAL C:377 , GLY C:378 , MET C:379 , HOH C:453 , HOH C:524 , LEU D:99 , LEU D:131 , HIS D:133 , SER D:134 , GLY D:138 , THR D:139 , ALA D:140 , ASN D:141 , TRP D:169 , PRO D:170 , SER D:171 , LEU D:400 , PHE D:401 , ASN D:402 , GLY D:403 , GLY D:404 , ILE D:406 , GLY D:407 , LEU D:408 , HOH D:442 , HOH D:447 , HOH D:448 , HOH D:449 , HOH D:457 , HOH D:516 , HOH D:531 , NIE D:600
BINDING SITE FOR RESIDUE FAD D 500
13
BC4
SOFTWARE
LEU D:99 , PHE D:273 , PHE D:401 , ASN D:402 , FAD D:500
BINDING SITE FOR RESIDUE NIE D 600
14
BC5
SOFTWARE
HOH D:1 , GLU D:270 , PHE D:273 , GLY D:403 , LEU D:408 , GLN D:412 , HOH D:440 , HOH D:448 , HOH D:503
BINDING SITE FOR RESIDUE GOL D 700
[
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
(2, 8)
Info
All SCOP Domains
1a: SCOP_d3fcja2 (A:261-432)
1b: SCOP_d3fcjb2 (B:261-432)
1c: SCOP_d3fcjc2 (C:261-431)
1d: SCOP_d3fcjd2 (D:261-433)
2a: SCOP_d3fcja1 (A:2-260)
2b: SCOP_d3fcjb1 (B:2-260)
2c: SCOP_d3fcjc1 (C:2-260)
2d: SCOP_d3fcjd1 (D:2-260)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Bromodomain-like
(339)
Superfamily
:
Acyl-CoA dehydrogenase C-terminal domain-like
(61)
Family
:
Medium chain acyl-CoA dehydrogenase-like, C-terminal domain
(29)
Protein domain
:
automated matches
(7)
Fungus (Fusarium oxysporum) [TaxId: 5507]
(6)
1a
d3fcja2
A:261-432
1b
d3fcjb2
B:261-432
1c
d3fcjc2
C:261-431
1d
d3fcjd2
D:261-433
Class
:
Multi-domain proteins (alpha and beta)
(2421)
Fold
:
Acyl-CoA dehydrogenase NM domain-like
(61)
Superfamily
:
Acyl-CoA dehydrogenase NM domain-like
(61)
Family
:
Medium chain acyl-CoA dehydrogenase, NM (N-terminal and middle) domains
(32)
Protein domain
:
automated matches
(10)
Fungus (Fusarium oxysporum) [TaxId: 5507]
(7)
2a
d3fcja1
A:2-260
2b
d3fcjb1
B:2-260
2c
d3fcjc1
C:2-260
2d
d3fcjd1
D:2-260
[
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 (283 KB)
Header - Asym.Unit
Biol.Unit 1 (276 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
3FCJ
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help