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.
1M3K
Asym. Unit
Info
Asym.Unit (258 KB)
Biol.Unit 1 (252 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
BIOSYNTHETIC THIOLASE, INACTIVE C89A MUTANT
Authors
:
P. Kursula, J. Ojala, A. -M. Lambeir, R. K. Wierenga
Date
:
28 Jun 02 (Deposition) - 29 Nov 02 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.70
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Thiolase Fold, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
P. Kursula, J. Ojala, A. -M. Lambeir, R. K. Wierenga
The Catalytic Cycle Of Biosynthetic Thiolase: A Conformational Journey Of An Acetyl Group Through Four Binding Modes And Two Oxyanion Holes
Biochemistry V. 41 15543 2002
[
close entry info
]
Hetero Components
(2, 6)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
2a: SULFATE ION (SO4a)
2b: SULFATE ION (SO4b)
2c: SULFATE ION (SO4c)
2d: SULFATE ION (SO4d)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GOL
2
Ligand/Ion
GLYCEROL
2
SO4
4
Ligand/Ion
SULFATE 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:260 , ARG A:266
BINDING SITE FOR RESIDUE SO4 A 9720
2
AC2
SOFTWARE
LYS A:298 , ARG A:302 , HOH A:442
BINDING SITE FOR RESIDUE SO4 A 9722
3
AC3
SOFTWARE
HIS A:156 , SER A:247 , GLY A:248 , HOH A:502 , HOH A:511 , HOH A:516
BINDING SITE FOR RESIDUE GOL A 5393
4
AC4
SOFTWARE
LYS B:298 , ARG B:302 , HOH B:9893
BINDING SITE FOR RESIDUE SO4 B 9719
5
AC5
SOFTWARE
SER B:260 , ARG B:266 , HOH B:9865
BINDING SITE FOR RESIDUE SO4 B 9721
6
AC6
SOFTWARE
HIS B:156 , SER B:247 , LEU B:249 , PHE B:319 , HOH B:504
BINDING SITE FOR RESIDUE GOL B 6393
[
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, 12)
Info
All PROSITE Patterns/Profiles
1: THIOLASE_1 (A:85-103,B:85-103,C:85-103,D:85-10...)
2: THIOLASE_2 (A:338-354,B:338-354,C:338-354,D:33...)
3: THIOLASE_3 (A:373-386,B:373-386,C:373-386,D:37...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
THIOLASE_1
PS00098
Thiolases acyl-enzyme intermediate signature.
THIL_ZOORA
85-103
4
A:85-103
B:85-103
C:85-103
D:85-103
2
THIOLASE_2
PS00737
Thiolases signature 2.
THIL_ZOORA
338-354
4
A:338-354
B:338-354
C:338-354
D:338-354
3
THIOLASE_3
PS00099
Thiolases active site.
THIL_ZOORA
373-386
4
A:373-386
B:373-386
C:373-386
D:373-386
[
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, 8)
Info
All SCOP Domains
1a: SCOP_d1m3ka1 (A:1-268)
1b: SCOP_d1m3kb1 (B:1-268)
1c: SCOP_d1m3kb2 (B:269-392)
1d: SCOP_d1m3kc1 (C:1-268)
1e: SCOP_d1m3kc2 (C:269-392)
1f: SCOP_d1m3kd1 (D:1-268)
1g: SCOP_d1m3kd2 (D:269-392)
1h: SCOP_d1m3ka2 (A:269-392)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Thiolase-like
(231)
Superfamily
:
Thiolase-like
(231)
Family
:
Thiolase-related
(67)
Protein domain
:
Biosynthetic thiolase
(16)
Zoogloea ramigera [TaxId: 350]
(16)
1a
d1m3ka1
A:1-268
1b
d1m3kb1
B:1-268
1c
d1m3kb2
B:269-392
1d
d1m3kc1
C:1-268
1e
d1m3kc2
C:269-392
1f
d1m3kd1
D:1-268
1g
d1m3kd2
D:269-392
1h
d1m3ka2
A:269-392
[
close SCOP info
]
CATH Domains
(1, 8)
Info
all CATH domains
1a: CATH_1m3kA01 (A:4-124,A:194-275)
1b: CATH_1m3kB01 (B:4-124,B:194-275)
1c: CATH_1m3kC01 (C:4-124,C:194-275)
1d: CATH_1m3kD01 (D:4-124,D:194-275)
1e: CATH_1m3kA02 (A:152-193,A:276-389)
1f: CATH_1m3kB02 (B:152-193,B:276-389)
1g: CATH_1m3kC02 (C:152-193,C:276-389)
1h: CATH_1m3kD02 (D:152-193,D:276-389)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Peroxisomal Thiolase; Chain A, domain 1
(130)
Homologous Superfamily
:
[code=3.40.47.10, no name defined]
(130)
Zoogloea ramigera. Organism_taxid: 350.
(19)
1a
1m3kA01
A:4-124,A:194-275
1b
1m3kB01
B:4-124,B:194-275
1c
1m3kC01
C:4-124,C:194-275
1d
1m3kD01
D:4-124,D:194-275
1e
1m3kA02
A:152-193,A:276-389
1f
1m3kB02
B:152-193,B:276-389
1g
1m3kC02
C:152-193,C:276-389
1h
1m3kD02
D:152-193,D:276-389
[
close CATH info
]
Pfam Domains
(2, 8)
Info
all PFAM domains
1a: PFAM_Thiolase_C_1m3kD01 (D:269-391)
1b: PFAM_Thiolase_C_1m3kD02 (D:269-391)
1c: PFAM_Thiolase_C_1m3kD03 (D:269-391)
1d: PFAM_Thiolase_C_1m3kD04 (D:269-391)
2a: PFAM_Thiolase_N_1m3kD05 (D:11-262)
2b: PFAM_Thiolase_N_1m3kD06 (D:11-262)
2c: PFAM_Thiolase_N_1m3kD07 (D:11-262)
2d: PFAM_Thiolase_N_1m3kD08 (D:11-262)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Thiolase
(72)
Family
:
Thiolase_C
(23)
Zoogloea ramigera
(15)
1a
Thiolase_C-1m3kD01
D:269-391
1b
Thiolase_C-1m3kD02
D:269-391
1c
Thiolase_C-1m3kD03
D:269-391
1d
Thiolase_C-1m3kD04
D:269-391
Family
:
Thiolase_N
(23)
Zoogloea ramigera
(15)
2a
Thiolase_N-1m3kD05
D:11-262
2b
Thiolase_N-1m3kD06
D:11-262
2c
Thiolase_N-1m3kD07
D:11-262
2d
Thiolase_N-1m3kD08
D:11-262
[
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
Chain B
Chain C
Chain D
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 (258 KB)
Header - Asym.Unit
Biol.Unit 1 (252 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
1M3K
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help