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.
4IHJ
Asym. Unit
Info
Asym.Unit (1.1 MB)
Biol.Unit 1, α-C (1.1 MB)
Biol.Unit 1 (1.1 MB)
(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 TUBULIN-STATHMIN-TTL-ADP COMPLEX
Authors
:
A. E. Prota, M. M. Magiera, M. Kuijpers, K. Bargsten, D. Frey, M. Wieser, C. C. Hoogenraad, R. A. Kammerer, C. Janke, M. O. Steinmetz
Date
:
18 Dec 12 (Deposition) - 13 Feb 13 (Release) - 20 Feb 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C,D,E,F (1x)
Keywords
:
Alpha-Tubulin, Beta-Tubulin, Ligase, Gtpase, Microtubule, Stathmin, Cell Cycle
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. E. Prota, M. M. Magiera, M. Kuijpers, K. Bargsten, D. Frey, M. Wieser R. Jaussi, C. C. Hoogenraad, R. A. Kammerer, C. Janke, M. O. Steinmetz
Structural Basis Of Tubulin Tyrosination By Tubulin Tyrosin Ligase.
J. Cell Biol. V. 200 259 2013
[
close entry info
]
Hetero Components
(8, 20)
Info
All Hetero Components
1a: ADENOSINE-5'-DIPHOSPHATE (ADPa)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
2d: CALCIUM ION (CAd)
3a: CHLORIDE ION (CLa)
4a: GUANOSINE-5'-DIPHOSPHATE (GDPa)
4b: GUANOSINE-5'-DIPHOSPHATE (GDPb)
5a: GLYCEROL (GOLa)
6a: GUANOSINE-5'-TRIPHOSPHATE (GTPa)
6b: GUANOSINE-5'-TRIPHOSPHATE (GTPb)
7a: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESa)
7b: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESb)
8a: MAGNESIUM ION (MGa)
8b: MAGNESIUM ION (MGb)
8c: MAGNESIUM ION (MGc)
8d: MAGNESIUM ION (MGd)
8e: MAGNESIUM ION (MGe)
8f: MAGNESIUM ION (MGf)
8g: MAGNESIUM ION (MGg)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ADP
1
Ligand/Ion
ADENOSINE-5'-DIPHOSPHATE
2
CA
4
Ligand/Ion
CALCIUM ION
3
CL
1
Ligand/Ion
CHLORIDE ION
4
GDP
2
Ligand/Ion
GUANOSINE-5'-DIPHOSPHATE
5
GOL
1
Ligand/Ion
GLYCEROL
6
GTP
2
Ligand/Ion
GUANOSINE-5'-TRIPHOSPHATE
7
MES
2
Ligand/Ion
2-(N-MORPHOLINO)-ETHANESULFONIC ACID
8
MG
7
Ligand/Ion
MAGNESIUM ION
[
close Hetero Component info
]
Sites
(20, 20)
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)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLY A:10 , GLN A:11 , ALA A:12 , GLN A:15 , ASP A:98 , ALA A:99 , ALA A:100 , ASN A:101 , SER A:140 , GLY A:143 , GLY A:144 , THR A:145 , GLY A:146 , VAL A:177 , GLU A:183 , ASN A:206 , TYR A:224 , ASN A:228 , ILE A:231 , MG A:502 , HOH A:601 , HOH A:602 , HOH A:613 , HOH A:642 , HOH A:681 , HOH A:683 , HOH A:700 , HOH A:758 , LYS B:254
BINDING SITE FOR RESIDUE GTP A 501
02
AC2
SOFTWARE
GTP A:501 , HOH A:602 , HOH A:681 , HOH A:683 , HOH A:811
BINDING SITE FOR RESIDUE MG A 502
03
AC3
SOFTWARE
ASP A:39 , THR A:41 , GLY A:44 , GLU A:55 , HOH A:702
BINDING SITE FOR RESIDUE CA A 503
04
AC4
SOFTWARE
TYR A:161 , GLY A:162 , LYS A:163 , LYS A:164
BINDING SITE FOR RESIDUE CL A 504
05
AC5
SOFTWARE
HOH A:679 , HOH A:710 , ASP E:44
BINDING SITE FOR RESIDUE CA A 505
06
AC6
SOFTWARE
GLY B:10 , GLN B:11 , CYS B:12 , GLN B:15 , SER B:140 , GLY B:143 , GLY B:144 , THR B:145 , GLY B:146 , PRO B:173 , VAL B:177 , ASP B:179 , GLU B:183 , ASN B:206 , TYR B:224 , ASN B:228 , MG B:502 , HOH B:601 , HOH B:602 , HOH B:605 , HOH B:671 , HOH B:672 , HOH B:676 , HOH B:786
BINDING SITE FOR RESIDUE GDP B 501
07
AC7
SOFTWARE
GLN B:11 , GDP B:501 , HOH B:621 , HOH B:681 , HOH B:785 , HOH B:786 , HOH C:782
BINDING SITE FOR RESIDUE MG B 502
08
AC8
SOFTWARE
GLU B:113 , HOH B:670 , HOH B:698 , HOH B:701 , GLU C:284
BINDING SITE FOR RESIDUE CA B 503
09
AC9
SOFTWARE
ARG B:158 , PRO B:162 , ASP B:163 , ARG B:164 , MET B:166 , ASN B:197 , ASP B:199 , ARG B:253
BINDING SITE FOR RESIDUE MES B 504
10
BC1
SOFTWARE
PHE B:296 , ASP B:297 , SER B:298 , ARG B:308 , VAL B:335 , ASN B:339 , TYR B:342 , HOH B:717 , HOH B:744 , HOH B:761
BINDING SITE FOR RESIDUE MES B 505
11
BC2
SOFTWARE
GLY C:10 , GLN C:11 , ALA C:12 , GLN C:15 , ASP C:98 , ALA C:99 , ALA C:100 , ASN C:101 , SER C:140 , GLY C:143 , GLY C:144 , THR C:145 , GLY C:146 , VAL C:177 , GLU C:183 , ASN C:206 , TYR C:224 , ASN C:228 , ILE C:231 , MG C:502 , HOH C:650 , HOH C:675 , HOH C:764 , HOH C:766 , HOH C:772 , HOH C:779 , HOH C:807 , HOH C:852 , LYS D:254
BINDING SITE FOR RESIDUE GTP C 501
12
BC3
SOFTWARE
GTP C:501 , HOH C:764 , HOH C:779 , HOH C:807 , HOH C:959
BINDING SITE FOR RESIDUE MG C 502
13
BC4
SOFTWARE
ASP C:39 , THR C:41 , GLY C:44 , GLU C:55 , HOH C:780
BINDING SITE FOR RESIDUE CA C 503
14
BC5
SOFTWARE
GLY D:10 , GLN D:11 , CYS D:12 , GLN D:15 , SER D:140 , GLY D:143 , GLY D:144 , THR D:145 , GLY D:146 , VAL D:177 , GLU D:183 , ASN D:206 , TYR D:224 , ASN D:228 , MG D:601 , MG D:602 , HOH D:705 , HOH D:721 , HOH D:761 , HOH D:795 , HOH D:806 , HOH D:807
BINDING SITE FOR RESIDUE GDP D 600
15
BC6
SOFTWARE
GLN D:11 , GDP D:600
BINDING SITE FOR RESIDUE MG D 601
16
BC7
SOFTWARE
ASN D:101 , GDP D:600 , HOH D:795 , HOH D:806 , HOH D:807
BINDING SITE FOR RESIDUE MG D 602
17
BC8
SOFTWARE
HOH A:817 , ASP F:318 , GLU F:331 , ADP F:703 , HOH F:867
BINDING SITE FOR RESIDUE MG F 701
18
BC9
SOFTWARE
GLU F:331 , ASN F:333 , ADP F:703 , HOH F:867
BINDING SITE FOR RESIDUE MG F 702
19
CC1
SOFTWARE
LYS F:74 , LYS F:150 , GLN F:183 , LYS F:184 , TYR F:185 , LEU F:186 , LYS F:198 , ASP F:200 , HIS F:239 , LEU F:240 , THR F:241 , ASN F:242 , ILE F:330 , GLU F:331 , MG F:701 , MG F:702
BINDING SITE FOR RESIDUE ADP F 703
20
CC2
SOFTWARE
TYR F:211 , ARG F:292 , MET F:296 , LEU F:378 , HIS F:379 , HIS F:380 , HIS F:381
BINDING SITE FOR RESIDUE GOL F 704
[
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
(3, 9)
Info
All SCOP Domains
1a: SCOP_d4ihje_ (E:)
2a: SCOP_d4ihja2 (A:246-450)
2b: SCOP_d4ihjb2 (B:246-438)
2c: SCOP_d4ihjc2 (C:246-440)
2d: SCOP_d4ihjd2 (D:246-441)
3a: SCOP_d4ihja1 (A:1-245)
3b: SCOP_d4ihjb1 (B:1-245)
3c: SCOP_d4ihjc1 (C:1-245)
3d: SCOP_d4ihjd1 (D:2-245)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Non-globular all-alpha subunits of globular proteins
(135)
Superfamily
:
Stathmin
(21)
Family
:
Stathmin
(21)
Protein domain
:
Stathmin 4
(21)
Norway rat (Rattus norvegicus) [TaxId: 10116]
(21)
1a
d4ihje_
E:
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Bacillus chorismate mutase-like
(324)
Superfamily
:
Tubulin C-terminal domain-like
(76)
Family
:
Tubulin, C-terminal domain
(69)
Protein domain
:
automated matches
(19)
Cow (Bos taurus) [TaxId: 9913]
(11)
2a
d4ihja2
A:246-450
2b
d4ihjb2
B:246-438
2c
d4ihjc2
C:246-440
2d
d4ihjd2
D:246-441
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Tubulin nucleotide-binding domain-like
(75)
Superfamily
:
Tubulin nucleotide-binding domain-like
(75)
Family
:
Tubulin, GTPase domain
(69)
Protein domain
:
automated matches
(20)
Cow (Bos taurus) [TaxId: 9913]
(11)
3a
d4ihja1
A:1-245
3b
d4ihjb1
B:1-245
3c
d4ihjc1
C:1-245
3d
d4ihjd1
D:2-245
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
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
Chain B
Chain C
Chain D
Chain E
Chain F
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 (1.1 MB)
Header - Asym.Unit
Biol.Unit 1 (1.1 MB)
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
4IHJ
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help