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.
1HT6
Asym. Unit
Info
Asym.Unit (89 KB)
Biol.Unit 1 (84 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 AT 1.5A RESOLUTION OF THE BARLEY ALPHA-AMYLASE ISOZYME 1
Authors
:
X. Robert, R. Haser, N. Aghajari
Date
:
29 Dec 00 (Deposition) - 08 Jul 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.50
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Barley, Alpha-Amylase, Isozyme 1, Beta-Alpha-Barrel, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
X. Robert, R. Haser, T. E. Gottschalk, F. Ratajczak, H. Driguez, B. Svensson, N. Aghajari
The Structure Of Barley Alpha-Amylase Isozyme 1 Reveals A Novel Role Of Domain C In Substrate Recognition And Binding: A Pair Of Sugar Tongs
Structure V. 11 973 2003
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(2, 12)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
2a: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
2d: 1,2-ETHANEDIOL (EDOd)
2e: 1,2-ETHANEDIOL (EDOe)
2f: 1,2-ETHANEDIOL (EDOf)
2g: 1,2-ETHANEDIOL (EDOg)
2h: 1,2-ETHANEDIOL (EDOh)
2i: 1,2-ETHANEDIOL (EDOi)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
3
Ligand/Ion
CALCIUM ION
2
EDO
9
Ligand/Ion
1,2-ETHANEDIOL
[
close Hetero Component info
]
Sites
(12, 12)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:92 , ASP A:139 , ALA A:142 , ASP A:149 , GLY A:184 , HOH A:630
BINDING SITE FOR RESIDUE CA A 500
02
AC2
SOFTWARE
GLU A:109 , THR A:112 , ASP A:114 , ASP A:118 , HOH A:604 , HOH A:656
BINDING SITE FOR RESIDUE CA A 501
03
AC3
SOFTWARE
ASP A:128 , ASP A:143 , PHE A:144 , ALA A:147 , ASP A:149 , HOH A:788
BINDING SITE FOR RESIDUE CA A 502
04
AC4
SOFTWARE
GLU A:367 , HOH A:748 , HOH A:882 , HOH A:964 , HOH A:984 , EDO A:2001
BINDING SITE FOR RESIDUE EDO A 2000
05
AC5
SOFTWARE
SER A:170 , ASP A:171 , LEU A:172 , GLY A:173 , HOH A:748 , HOH A:889 , HOH A:984 , EDO A:2000
BINDING SITE FOR RESIDUE EDO A 2001
06
AC6
SOFTWARE
TYR A:52 , HIS A:93 , PHE A:144 , ASP A:180 , GLU A:205 , HOH A:641 , HOH A:711
BINDING SITE FOR RESIDUE EDO A 2002
07
AC7
SOFTWARE
GLN A:84 , ASP A:175 , ARG A:379 , HOH A:786 , HOH A:814 , HOH A:1179 , HOH A:1228
BINDING SITE FOR RESIDUE EDO A 2003
08
AC8
SOFTWARE
LYS A:217 , PRO A:218 , ALA A:256 , HOH A:830 , HOH A:947 , HOH A:1389
BINDING SITE FOR RESIDUE EDO A 2004
09
AC9
SOFTWARE
SER A:16 , GLY A:17 , ARG A:126 , THR A:135 , ALA A:136 , ASN A:137 , HOH A:939 , HOH A:1063
BINDING SITE FOR RESIDUE EDO A 2005
10
BC1
SOFTWARE
ASP A:61 , ASP A:139 , THR A:140 , HOH A:873 , HOH A:1070 , HOH A:1270
BINDING SITE FOR RESIDUE EDO A 2006
11
BC2
SOFTWARE
HIS A:45 , SER A:46 , SER A:48 , ASN A:49 , ALA A:62 , LYS A:64 , HOH A:606 , HOH A:683 , HOH A:1446
BINDING SITE FOR RESIDUE EDO A 2007
12
BC3
SOFTWARE
GLY A:76 , HIS A:79 , GLY A:173 , HOH A:889 , HOH A:1078 , HOH A:1174
BINDING SITE FOR RESIDUE EDO A 2008
[
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, 2)
Info
All SCOP Domains
1a: SCOP_d1ht6a1 (A:348-404)
2a: SCOP_d1ht6a2 (A:1-347)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Glycosyl hydrolase domain
(397)
Superfamily
:
Glycosyl hydrolase domain
(397)
Family
:
alpha-Amylases, C-terminal beta-sheet domain
(272)
Protein domain
:
Plant alpha-amylase
(10)
Barley (Hordeum vulgare), AMY1 isozyme [TaxId: 4513]
(7)
1a
d1ht6a1
A:348-404
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
(Trans)glycosidases
(1191)
Family
:
Amylase, catalytic domain
(385)
Protein domain
:
Plant alpha-amylase
(10)
Barley (Hordeum vulgare), AMY1 isozyme [TaxId: 4513]
(7)
2a
d1ht6a2
A:1-347
[
close SCOP info
]
CATH Domains
(2, 2)
Info
all CATH domains
1a: CATH_1ht6A01 (A:2-347)
2a: CATH_1ht6A02 (A:348-404)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Glycosidases
(843)
Hordeum vulgare. Organism_taxid: 4513.
(1)
1a
1ht6A01
A:2-347
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Golgi alpha-mannosidase II
(346)
Hordeum vulgare. Organism_taxid: 4513.
(1)
2a
1ht6A02
A:348-404
[
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
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 (89 KB)
Header - Asym.Unit
Biol.Unit 1 (84 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
1HT6
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help