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.
1THM
Asym. Unit
Info
Asym.Unit (50 KB)
Biol.Unit 1 (46 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 THERMITASE AT 1.4 ANGSTROMS RESOLUTION
Authors
:
A. V. Teplyakov, I. P. Kuranova, E. H. Harutyunyan
Date
:
24 Feb 92 (Deposition) - 31 Jan 94 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.37
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Hydrolase(Serine Protease)
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. V. Teplyakov, I. P. Kuranova, E. H. Harutyunyan, B. K. Vainshtein, C. Frommel, W. E. Hohne, K. S. Wilson
Crystal Structure Of Thermitase At 1. 4 A Resolution.
J. Mol. Biol. V. 214 261 1990
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(3, 6)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
2a: SODIUM ION (NAa)
3a: SULFATE ION (SO4a)
3b: SULFATE ION (SO4b)
3c: SULFATE ION (SO4c)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
2
Ligand/Ion
CALCIUM ION
2
NA
1
Ligand/Ion
SODIUM ION
3
SO4
3
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(10, 10)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: ACT (AUTHOR)
08: IO1 (AUTHOR)
09: IO2 (AUTHOR)
10: IO3 (AUTHOR)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:5 , ASP A:47 , VAL A:82 , ASN A:85 , THR A:87 , ILE A:89
BINDING SITE FOR RESIDUE CA A 301
02
AC2
SOFTWARE
ASP A:57 , ASP A:62 , THR A:64 , GLN A:66 , HOH A:353 , HOH A:370
BINDING SITE FOR RESIDUE CA A 302
03
AC3
SOFTWARE
ALA A:173 , TYR A:175 , ALA A:178 , ASP A:201 , HOH A:335 , HOH A:420
BINDING SITE FOR RESIDUE NA A 303
04
AC4
SOFTWARE
SER A:191 , SER A:192 , PHE A:193 , SER A:207 , HOH A:416
BINDING SITE FOR RESIDUE SO4 A 304
05
AC5
SOFTWARE
GLN A:144 , TYR A:175 , SER A:176 , HOH A:320 , HOH A:350
BINDING SITE FOR RESIDUE SO4 A 305
06
AC6
SOFTWARE
PHE A:8 , SER A:9 , GLN A:16 , ASN A:140 , SER A:141 , HOH A:455
BINDING SITE FOR RESIDUE SO4 A 306
07
ACT
AUTHOR
ASP A:38 , HIS A:71 , SER A:225
ENZYME CATALYTIC SITE
08
IO1
AUTHOR
ASP A:5 , ASP A:47 , VAL A:82 , ASN A:85 , THR A:87 , ILE A:89
ION BINDING SITE 1
09
IO2
AUTHOR
ASP A:57 , ASP A:62 , THR A:64 , GLN A:66 , HOH A:353 , HOH A:370
ION BINDING SITE 2
10
IO3
AUTHOR
ALA A:173 , TYR A:175 , ALA A:178 , ASP A:201 , HOH A:335 , HOH A:420
ION BINDING SITE 3
[
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:34-45)
2: SUBTILASE_HIS (A:71-81)
3: SUBTILASE_SER (A:223-233)
;
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.
THET_THEVU
34-45
1
A:34-45
2
SUBTILASE_HIS
PS00137
Serine proteases, subtilase family, histidine active site.
THET_THEVU
71-81
1
A:71-81
3
SUBTILASE_SER
PS00138
Serine proteases, subtilase family, serine active site.
THET_THEVU
223-233
1
A:223-233
[
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_d1thma_ (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
:
Thermitase
(4)
Thermoactinomyces vulgaris [TaxId: 2026]
(4)
1a
d1thma_
A:
[
close SCOP info
]
CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_1thmA00 (A:1-279)
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)
Thermoactinomyces vulgaris. Organism_taxid: 2026
(1)
1a
1thmA00
A:1-279
[
close CATH info
]
Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_Peptidase_S8_1thmA01 (A:33-278)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: Peptidase_S8]
(104)
Family
:
Peptidase_S8
(104)
Thermoactinomyces vulgaris
(4)
1a
Peptidase_S8-1thmA01
A:33-278
[
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 (50 KB)
Header - Asym.Unit
Biol.Unit 1 (46 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
1THM
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
