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.
3JU9
Asym. Unit
Info
Asym.Unit (47 KB)
Biol.Unit 1 (157 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 A LECTIN FROM CANAVALIA BRASILIENSIS SEED (CONBR) COMPLEXED WITH ALPHA-AMINOBUTYRIC ACID
Authors
:
E. H. S. Bezerra, B. A. M. Rocha, C. S. Nagano, G. A. Bezerra, T. R. Moura, M. J. B. Bezerra, R. G. Benevides, E. S. Marinho, P. Delatorre, B. S. Cav
Date
:
14 Sep 09 (Deposition) - 08 Dec 10 (Release) - 29 Jun 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A
Biol. Unit 1: A (4x)
Keywords
:
Conbr, Lectin, Agglutinin, Canavalia Brasiliensis, Manganese, Metal- Binding, Sugar Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
E. H. Bezerra, B. A. Rocha, C. S. Nagano, G. A. Bezerra, T. R. Moura, M. J. Bezerra, R. G. Benevides, A. H. Sampaio, A. M. Assreuy, P. Delatorre, B. S. Cavada
Structural Analysis Of Conbr Reveals Molecular Correlation Between The Carbohydrate Recognition Domain And Endothelial No Synthase Activation.
Biochem. Biophys. Res. Commun. V. 408 566 2011
[
close entry info
]
Hetero Components
(5, 6)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
3a: D-ALPHA-AMINOBUTYRIC ACID (DBBa)
4a: GLYCEROL (GOLa)
5a: MANGANESE (II) ION (MNa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
1
Ligand/Ion
CALCIUM ION
2
CL
2
Ligand/Ion
CHLORIDE ION
3
DBB
1
Ligand/Ion
D-ALPHA-AMINOBUTYRIC ACID
4
GOL
1
Ligand/Ion
GLYCEROL
5
MN
1
Ligand/Ion
MANGANESE (II) ION
[
close Hetero Component info
]
Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
SER A:113 , ASN A:124 , ALA A:125 , MET A:129 , PHE A:130 , ASP A:139 , VAL A:179 , HIS A:180 , HOH A:254 , HOH A:271
BINDING SITE FOR RESIDUE DBB A 238
2
AC2
SOFTWARE
TYR A:12 , ASN A:14 , GLY A:98 , LEU A:99 , TYR A:100 , ALA A:207 , ASP A:208 , ARG A:228
BINDING SITE FOR RESIDUE GOL A 239
3
AC3
SOFTWARE
ASP A:10 , TYR A:12 , ASN A:14 , ASP A:19 , HOH A:244 , HOH A:245
BINDING SITE FOR RESIDUE CA A 240
4
AC4
SOFTWARE
GLU A:8 , ASP A:10 , ASP A:19 , HIS A:24 , HOH A:246 , HOH A:260
BINDING SITE FOR RESIDUE MN A 241
5
AC5
SOFTWARE
ALA A:236
BINDING SITE FOR RESIDUE CL A 242
6
AC6
SOFTWARE
ASN A:14 , ARG A:228 , HOH A:382
BINDING SITE FOR RESIDUE CL A 243
[
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
(2, 2)
Info
All PROSITE Patterns/Profiles
1: LECTIN_LEGUME_BETA (A:5-11)
2: LECTIN_LEGUME_ALPHA (A:85-94)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
LECTIN_LEGUME_BETA
PS00307
Legume lectins beta-chain signature.
CONA_CANBR
5-11
1
A:5-11
2
LECTIN_LEGUME_ALPHA
PS00308
Legume lectins alpha-chain signature.
CONA_CANBR
85-94
1
A:85-94
[
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, 1)
Info
All SCOP Domains
1a: SCOP_d3ju9a_ (A:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Concanavalin A-like lectins/glucanases
(797)
Superfamily
:
Concanavalin A-like lectins/glucanases
(797)
Family
:
Legume lectins
(238)
Protein domain
:
Concanavalin A
(59)
Brazilian jackbean (Canavalia brasiliensis) [TaxId: 61861]
(3)
1a
d3ju9a_
A:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Lectin_legB_3ju9A01 (A:124-237)
1b: PFAM_Lectin_legB_3ju9A02 (A:124-237)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Concanavalin
(293)
Family
:
Lectin_legB
(93)
Canavalia brasiliensis (Brazilian jack bean)
(3)
1a
Lectin_legB-3ju9A01
A:124-237
1b
Lectin_legB-3ju9A02
A:124-237
[
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
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 (47 KB)
Header - Asym.Unit
Biol.Unit 1 (157 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
3JU9
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
