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...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
3CMS
Asym. Unit
Info
Asym.Unit (57 KB)
Biol.Unit 1 (52 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
ENGINEERING ENZYME SUB-SITE SPECIFICITY: PREPARATION, KINETIC CHARACTERIZATION AND X-RAY ANALYSIS AT 2.0-ANGSTROMS RESOLUTION OF VAL111PHE SITE-MUTATED CALF CHYMOSIN
Authors
:
M. Newman, C. Frazao, A. Shearer, I. J. Tickle, T. L. Blundell
Date
:
26 Feb 90 (Deposition) - 15 Oct 92 (Release) - 29 Feb 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Hydrolase, Acid Proteinase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
P. Strop, J. Sedlacek, J. Stys, Z. Kaderabkova, I. Blaha, L. Pavlickova, J. Pohl, M. Fabry, V. Kostka, M. Newman
Engineering Enzyme Subsite Specificity: Preparation, Kineti Characterization, And X-Ray Analysis At 2. 0-A Resolution Of Val111Phe Site-Mutated Calf Chymosin.
Biochemistry V. 29 9863 1990
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(0, 0)
Info
All Hetero Components
View:
Select:
Label:
Sorry, no Info available
[
close Hetero component info
]
Sites
(2, 2)
Info
All Sites
1: AC1 (AUTHOR)
2: AC2 (AUTHOR)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
AUTHOR
ASP A:32
active site
2
AC2
AUTHOR
ASP A:215
active site
[
close Site info
]
SAPs(SNPs)/Variants
(1, 1)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_CHYM_BOVIN_001 (G243D, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_CHYM_BOVIN_001
*
G
302
D
CHYM_BOVIN
---
---
A
G
243
D
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 3)
Info
All PROSITE Patterns/Profiles
1: PEPTIDASE_A1 (A:14-323)
2: ASP_PROTEASE (A:29-40|A:212-223)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PEPTIDASE_A1
PS51767
Peptidase family A1 domain profile.
CHYM_BOVIN
74-378
1
A:14-323
2
ASP_PROTEASE
PS00141
Eukaryotic and viral aspartyl proteases active site.
CHYM_BOVIN
89-100
271-282
2
A:29-40
A:212-223
[
close PROSITE info
]
Exons
(8, 8)
Info
All Exons
Exon 1.2 (A:-2-11)
Exon 1.3 (A:12-51)
Exon 1.4 (A:51-90)
Exon 1.5 (A:91-157)
Exon 1.6 (A:157-196 (gaps))
Exon 1.7 (A:196-244)
Exon 1.8 (A:245-277)
Exon 1.9 (A:278-326 (gaps))
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.1/1.2
2: Boundary 1.2/1.3
3: Boundary 1.3/1.4
4: Boundary 1.4/1.5
5: Boundary 1.5/1.6
6: Boundary 1.6/1.7
7: Boundary 1.7/1.8
8: Boundary 1.8/1.9
9: Boundary 1.9/-
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1
ENSBTAT00000013970
1
ENSBTAE00000266971
chr3:
35631399-35631313
87
CHYM_BOVIN
1-21
21
0
-
-
1.2
ENSBTAT00000013970
2
ENSBTAE00000266969
chr3:
35628381-35628231
151
CHYM_BOVIN
21-71
51
1
A:-2-11
13
1.3
ENSBTAT00000013970
3
ENSBTAE00000114008
chr3:
35627470-35627353
118
CHYM_BOVIN
72-111
40
1
A:12-51
40
1.4
ENSBTAT00000013970
4
ENSBTAE00000114011
chr3:
35626285-35626167
119
CHYM_BOVIN
111-150
40
1
A:51-90
40
1.5
ENSBTAT00000013970
5
ENSBTAE00000266967
chr3:
35624649-35624450
200
CHYM_BOVIN
151-217
67
1
A:91-157
67
1.6
ENSBTAT00000013970
6
ENSBTAE00000114017
chr3:
35623869-35623756
114
CHYM_BOVIN
217-255
39
1
A:157-196 (gaps)
40
1.7
ENSBTAT00000013970
7
ENSBTAE00000114020
chr3:
35622433-35622289
145
CHYM_BOVIN
255-303
49
1
A:196-244
49
1.8
ENSBTAT00000013970
8
ENSBTAE00000114021
chr3:
35621673-35621575
99
CHYM_BOVIN
304-336
33
1
A:245-277
33
1.9
ENSBTAT00000013970
9
ENSBTAE00000266965
chr3:
35620863-35620595
269
CHYM_BOVIN
337-381
45
1
A:278-326 (gaps)
49
[
close EXON info
]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d3cmsa_ (A:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Acid proteases
(1120)
Superfamily
:
Acid proteases
(1120)
Family
:
Pepsin-like
(505)
Protein domain
:
Chymosin (synonym: renin)
(67)
Cow (Bos taurus) [TaxId: 9913]
(6)
1a
d3cmsa_
A:
[
close SCOP info
]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_3cmsA02 (A:171-325)
1b: CATH_3cmsA01 (A:1-170)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
Cathepsin D, subunit A; domain 1
(745)
Homologous Superfamily
:
Acid Proteases
(745)
Cattle (Bos taurus)
(4)
1a
3cmsA02
A:171-325
1b
3cmsA01
A:1-170
[
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 (57 KB)
Header - Asym.Unit
Biol.Unit 1 (52 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
3CMS
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
