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.
1AV7
Asym. Unit
Info
Asym.Unit (44 KB)
Biol.Unit 1 (40 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
SUBTILISIN CARLSBERG L-NAPHTHYL-1-ACETAMIDO BORONIC ACID INHIBITOR COMPLEX
Authors
:
V. S. Stoll, B. T. Eger, R. C. Hynes, V. Martichonok, J. B. Jones, E. F. Pai
Date
:
29 Sep 97 (Deposition) - 01 Apr 98 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.60
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Serine Protease, Hydrolase, Boronic Acid Inhibitors
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
V. S. Stoll, B. T. Eger, R. C. Hynes, V. Martichonok, J. B. Jones, E. F. Pai
Differences In Binding Modes Of Enantiomers Of 1-Acetamido Boronic Acid Based Protease Inhibitors: Crystal Structures Of Gamma-Chymotrypsin And Subtilisin Carlsberg Complexes.
Biochemistry V. 37 451 1998
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(2, 3)
Info
All Hetero Components
1a: SODIUM ION (NAa)
1b: SODIUM ION (NAb)
2a: L-NAPHTHYL-1-ACETAMIDO BORONIC ACI... (SBLa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
NA
2
Ligand/Ion
SODIUM ION
2
SBL
1
Mod. Amino Acid
L-NAPHTHYL-1-ACETAMIDO BORONIC ACID ALANINE
[
close Hetero Component info
]
Sites
(5, 5)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: ACT (UNKNOWN)
4: M1 (UNKNOWN)
5: M2 (UNKNOWN)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ALA A:169 , TYR A:171 , VAL A:174
BINDING SITE FOR RESIDUE NA A 300
2
AC2
SOFTWARE
GLN A:2 , ASP A:41 , LEU A:75 , ASN A:77 , THR A:79 , VAL A:81
BINDING SITE FOR RESIDUE NA A 301
3
ACT
UNKNOWN
ASP A:32 , HIS A:64 , SBL A:221
SERINE OF THE ACTIVE SITE HAS BEEN CHEMICALLY MODIFIED TO INCLUDE A COVALENT BOND FROM OG TO BORON OF THE INHIBITOR.
4
M1
UNKNOWN
LEU A:75 , ASN A:77 , THR A:79 , VAL A:81
SODIUM METAL BINDING SITE 1.
5
M2
UNKNOWN
ALA A:169 , VAL A:174
SODIUM METAL BINDING SITE 2.
[
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
(3, 3)
Info
All PROSITE Patterns/Profiles
1: SUBTILASE_ASP (A:28-39)
2: SUBTILASE_HIS (A:64-74)
3: SUBTILASE_SER (A:219-229)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
SUBTILASE_ASP
PS00136
Serine proteases, subtilase family, aspartic acid active site.
SUBT_BACLI
133-144
1
A:28-39
2
SUBTILASE_HIS
PS00137
Serine proteases, subtilase family, histidine active site.
SUBT_BACLI
168-178
1
A:64-74
3
SUBTILASE_SER
PS00138
Serine proteases, subtilase family, serine active site.
SUBT_BACLI
323-333
1
A:219-229
[
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_d1av7a_ (A:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Subtilisin-like
(227)
Superfamily
:
Subtilisin-like
(227)
Family
:
Subtilases
(190)
Protein domain
:
Subtilisin
(91)
Bacillus licheniformis [TaxId: 1402]
(16)
1a
d1av7a_
A:
[
close SCOP info
]
CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_1av7A00 (A:1-275)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.200, no name defined]
(198)
Bacillus licheniformis. Organism_taxid: 1402.
(5)
1a
1av7A00
A:1-275
[
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 (44 KB)
Header - Asym.Unit
Biol.Unit 1 (40 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
1AV7
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
