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.
1LO3
Asym. Unit
Info
Asym.Unit (134 KB)
Biol.Unit 1 (67 KB)
Biol.Unit 2 (67 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
RETRO-DIELS-ALDERASE CATALYTIC ANTIBODY: PRODUCT ANALOGUE
Authors
:
M. Hugot, J. L. Reymond, U. Baumann
Date
:
06 May 02 (Deposition) - 03 Jul 02 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : H,L,X,Y
Biol. Unit 1: X,Y (1x)
Biol. Unit 2: H,L (1x)
Keywords
:
Fab, Catalytic Antibody, Product Complex, Immune System
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Hugot, N. Bensel, M. Vogel, M. T. Reymond, B. Stadler, J. L. Reymond, U. Baumann
A Structural Basis For The Activity Of Retro-Diels-Alder Catalytic Antibodies: Evidence For A Catalytic Aromatic Residue.
Proc. Natl. Acad. Sci. Usa V. 99 9674 2002
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(1, 2)
Info
All Hetero Components
1a: 3-(10-METHYL-ANTHRACEN-9-YL)-PROPI... (AN1a)
1b: 3-(10-METHYL-ANTHRACEN-9-YL)-PROPI... (AN1b)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
AN1
2
Ligand/Ion
3-(10-METHYL-ANTHRACEN-9-YL)-PROPIONIC ACID
[
close Hetero Component info
]
Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS X:31 , TYR X:37 , PHE X:99 , GLY Y:33 , ILE Y:51 , SER Y:52 , ASP Y:102 , PHE Y:104 , LEU Y:104A , VAL Y:104B , TRP Y:105 , HOH Y:523
BINDING SITE FOR RESIDUE AN1 Y 500
2
AC2
SOFTWARE
GLY H:33 , ILE H:51 , SER H:52 , TYR H:61 , ASP H:102 , PHE H:104 , LEU H:104A , VAL H:104B , TRP H:105 , TYR L:37 , PHE L:99
BINDING SITE FOR RESIDUE AN1 H 501
[
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
(4, 8)
Info
All SCOP Domains
1a: SCOP_d1lo3h2 (H:120-221)
1b: SCOP_d1lo3y2 (Y:120-221)
2a: SCOP_d1lo3l2 (L:113-220)
2b: SCOP_d1lo3x2 (X:113-220)
3a: SCOP_d1lo3h1 (H:1-119)
3b: SCOP_d1lo3y1 (Y:1-119)
4a: SCOP_d1lo3l1 (L:1-112)
4b: SCOP_d1lo3x1 (X:1-112)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
Immunoglobulin
(5995)
Family
:
C1 set domains (antibody constant domain-like)
(3013)
Protein domain
:
Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma
(608)
Mouse (Mus musculus) [TaxId: 10090]
(414)
1a
d1lo3h2
H:120-221
1b
d1lo3y2
Y:120-221
Protein domain
:
Immunoglobulin light chain kappa constant domain, CL-kappa
(495)
Mouse (Mus musculus) [TaxId: 10090]
(345)
2a
d1lo3l2
L:113-220
2b
d1lo3x2
X:113-220
Family
:
V set domains (antibody variable domain-like)
(1919)
Protein domain
:
Immunoglobulin heavy chain variable domain, VH
(658)
Mouse (Mus musculus), cluster 2.1 [TaxId: 10090]
(14)
3a
d1lo3h1
H:1-119
3b
d1lo3y1
Y:1-119
Protein domain
:
Immunoglobulin light chain kappa variable domain, VL-kappa
(616)
Mouse (Mus musculus), cluster 1.1 [TaxId: 10090]
(131)
4a
d1lo3l1
L:1-112
4b
d1lo3x1
X:1-112
[
close SCOP info
]
CATH Domains
(1, 8)
Info
all CATH domains
1a: CATH_1lo3L02 (L:114-216)
1b: CATH_1lo3H02 (H:120-218)
1c: CATH_1lo3Y02 (Y:120-218)
1d: CATH_1lo3L01 (L:1-113)
1e: CATH_1lo3X01 (X:1-113)
1f: CATH_1lo3H01 (H:1-119)
1g: CATH_1lo3Y01 (Y:1-119)
1h: CATH_1lo3X02 (X:114-216)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
House mouse (Mus musculus)
(616)
1a
1lo3L02
L:114-216
1b
1lo3H02
H:120-218
1c
1lo3Y02
Y:120-218
1d
1lo3L01
L:1-113
1e
1lo3X01
X:1-113
1f
1lo3H01
H:1-119
1g
1lo3Y01
Y:1-119
1h
1lo3X02
X:114-216
[
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 H
Chain L
Chain X
Chain Y
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 (134 KB)
Header - Asym.Unit
Biol.Unit 1 (67 KB)
Header - Biol.Unit 1
Biol.Unit 2 (67 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
1LO3
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
