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.
3CB2
Asym. Unit
Info
Asym.Unit (147 KB)
Biol.Unit 1 (141 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 HUMAN GAMMA-TUBULIN BOUND TO GDP
Authors
:
L. M. Rice, E. A. Montabana, D. A. Agard
Date
:
21 Feb 08 (Deposition) - 10 Jun 08 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Tubulin, Lattice, Microtubule, Nucleation, Gtpase, Lateral Interaction, Structural Protein, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
L. M. Rice, E. A. Montabana, D. A. Agard
The Lattice As Allosteric Effector: Structural Studies Of Alphabeta- And Gamma-Tubulin Clarify The Role Of Gtp In Microtubule Assembly
Proc. Natl. Acad. Sci. Usa V. 105 5378 2008
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(1, 2)
Info
All Hetero Components
1a: GUANOSINE-5'-DIPHOSPHATE (GDPa)
1b: GUANOSINE-5'-DIPHOSPHATE (GDPb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GDP
2
Ligand/Ion
GUANOSINE-5'-DIPHOSPHATE
[
close Hetero Component info
]
Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLY A:11 , GLN A:12 , CYS A:13 , GLN A:16 , ASN A:102 , SER A:140 , GLY A:143 , GLY A:144 , THR A:145 , GLY A:146 , ASN A:207 , PHE A:225 , ILE A:228 , ASN A:229
BINDING SITE FOR RESIDUE GDP A 500
2
AC2
SOFTWARE
GLY B:11 , GLN B:12 , CYS B:13 , GLN B:16 , SER B:140 , GLY B:143 , GLY B:144 , THR B:145 , GLY B:146 , PRO B:173 , GLU B:177 , ASN B:207 , PHE B:225 , ILE B:228 , ASN B:229
BINDING SITE FOR RESIDUE GDP B 501
[
close Site info
]
SAPs(SNPs)/Variants
(4, 8)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_070577 (Y92C, chain A/B, )
2: VAR_070578 (T331P, chain A/B, )
3: VAR_070579 (L387P, chain A/B, )
4: VAR_052674 (M413V, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_070577
Y
92
C
TBG1_HUMAN
Disease (CDCBM4)
---
A/B
Y
92
C
2
UniProt
VAR_070578
T
331
P
TBG1_HUMAN
Disease (CDCBM4)
---
A/B
T
331
P
3
UniProt
VAR_070579
L
387
P
TBG1_HUMAN
Disease (CDCBM4)
---
A/B
L
387
P
4
UniProt
VAR_052674
M
413
V
TBG1_HUMAN
Polymorphism
13663
A/B
M
413
V
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: TUBULIN (A:142-148,B:142-148)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TUBULIN
PS00227
Tubulin subunits alpha, beta, and gamma signature.
TBG1_HUMAN
142-148
2
A:142-148
B:142-148
[
close PROSITE info
]
Exons
(11, 22)
Info
All Exons
Exon 1.1 (A:2-17 | B:3-17)
Exon 1.2 (A:17-54 | B:17-54)
Exon 1.3 (A:55-110 | B:55-110 (gaps))
Exon 1.4 (A:111-133 | B:111-133)
Exon 1.5 (A:134-160 | B:134-160)
Exon 1.6 (A:160-202 | B:160-202)
Exon 1.7 (A:203-231 | B:203-231)
Exon 1.8 (A:232-277 | B:232-277)
Exon 1.9 (A:284-332 (gaps) | B:287-332 (gaps...)
Exon 1.10 (A:333-386 (gaps) | B:333-386 (gaps...)
Exon 1.11 (A:387-446 | B:387-446)
View:
Select:
Label:
All Exon Boundaries
01: Boundary -/1.1
02: Boundary 1.1/1.2
03: Boundary 1.2/1.3
04: Boundary 1.3/1.4
05: Boundary 1.4/1.5
06: Boundary 1.5/1.6
07: Boundary 1.6/1.7
08: Boundary 1.7/1.8
09: Boundary 1.8/1.9
10: Boundary 1.9/1.10
11: Boundary 1.10/1.11
12: Boundary 1.11/-
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
ENST00000251413
1
ENSE00001324148
chr17:
40761694-40761804
111
TBG1_HUMAN
1-17
17
2
A:2-17
B:3-17
16
15
1.2
ENST00000251413
2
ENSE00001679778
chr17:
40762126-40762238
113
TBG1_HUMAN
17-54
38
2
A:17-54
B:17-54
38
38
1.3
ENST00000251413
3
ENSE00001741503
chr17:
40762441-40762608
168
TBG1_HUMAN
55-110
56
2
A:55-110
B:55-110 (gaps)
56
56
1.4
ENST00000251413
4
ENSE00001793243
chr17:
40764093-40764161
69
TBG1_HUMAN
111-133
23
2
A:111-133
B:111-133
23
23
1.5
ENST00000251413
5
ENSE00001713232
chr17:
40764445-40764524
80
TBG1_HUMAN
134-160
27
2
A:134-160
B:134-160
27
27
1.6
ENST00000251413
6
ENSE00001798674
chr17:
40764965-40765091
127
TBG1_HUMAN
160-202
43
2
A:160-202
B:160-202
43
43
1.7
ENST00000251413
7
ENSE00001794531
chr17:
40765665-40765751
87
TBG1_HUMAN
203-231
29
2
A:203-231
B:203-231
29
29
1.8
ENST00000251413
8
ENSE00001670595
chr17:
40765867-40766016
150
TBG1_HUMAN
232-281
50
2
A:232-277
B:232-277
46
46
1.9
ENST00000251413
9
ENSE00001663179
chr17:
40766278-40766430
153
TBG1_HUMAN
282-332
51
2
A:284-332 (gaps)
B:287-332 (gaps)
49
46
1.10
ENST00000251413
10
ENSE00001696623
chr17:
40766514-40766675
162
TBG1_HUMAN
333-386
54
2
A:333-386 (gaps)
B:333-386 (gaps)
54
54
1.11
ENST00000251413
11
ENSE00001305412
chr17:
40766862-40767247
386
TBG1_HUMAN
387-451
65
2
A:387-446
B:387-446
60
60
[
close EXON info
]
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d3cb2a2 (A:247-446)
1b: SCOP_d3cb2b2 (B:247-446)
2a: SCOP_d3cb2a1 (A:2-246)
2b: SCOP_d3cb2b1 (B:3-246)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Bacillus chorismate mutase-like
(324)
Superfamily
:
Tubulin C-terminal domain-like
(76)
Family
:
automated matches
(7)
Protein domain
:
automated matches
(7)
Human (Homo sapiens) [TaxId: 9606]
(3)
1a
d3cb2a2
A:247-446
1b
d3cb2b2
B:247-446
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Tubulin nucleotide-binding domain-like
(75)
Superfamily
:
Tubulin nucleotide-binding domain-like
(75)
Family
:
automated matches
(6)
Protein domain
:
automated matches
(6)
Human (Homo sapiens) [TaxId: 9606]
(3)
2a
d3cb2a1
A:2-246
2b
d3cb2b1
B:3-246
[
close SCOP info
]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_3cb2B01 (B:3-269)
1b: CATH_3cb2A01 (A:2-269)
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=3.40.50.1440, no name defined]
(23)
Human (Homo sapiens)
(3)
1a
3cb2B01
B:3-269
1b
3cb2A01
A:2-269
[
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
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 (147 KB)
Header - Asym.Unit
Biol.Unit 1 (141 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
3CB2
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help