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.
2H6D
Asym. Unit
Info
Asym.Unit (98 KB)
Biol.Unit 1 (90 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
PROTEIN KINASE DOMAIN OF THE HUMAN 5'-AMP-ACTIVATED PROTEIN KINASE CATALYTIC SUBUNIT ALPHA-2 (AMPK ALPHA-2 CHAIN)
Authors
:
D. R. Littler, J. R. Walker, L. Wybenga-Groot, E. M. Newman, C. Butler- Cole, F. Mackenzie, P. J. Finerty, J. Weigelt, M. Sundstrom, C. H. Arrowsmith, A. M. Edwards, A. Bochkarev, S. Dhe-Paganon, Structural Genomics Consortium (Sgc)
Date
:
31 May 06 (Deposition) - 27 Jun 06 (Release) - 16 Feb 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.85
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Atp-Binding; Cholesterol Biosynthesis; Fatty Acid Biosynthesis; Kinase; Lipid Synthesis; Nucleotide-Binding; Phosphorylation; Serine/Threonine-Protein Kinase; Steroid Biosynthesis; Sterol Biosynthesis; Transferase, Structural Genomics, Structural Genomics Consortium, Sgc, Signaling Protein, Transferase, Signaling Protein, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. R. Littler, J. R. Walker, T. Davis, L. E. Wybenga-Groot, P. J. Finerty, E. Newman, F. Mackenzie, S. Dhe-Paganon
A Conserved Mechanism Of Autoinhibition For The Ampk Kinase Domain: Atp-Binding Site And Catalytic Loop Refolding As A Means Of Regulation.
Acta Crystallogr. , Sect. F V. 66 143 2010
[
close entry info
]
Hetero Components
(0, 0)
Info
All Hetero Components
View:
Select:
Label:
Sorry, no Info available
[
close Hetero component info
]
Sites
(0, 0)
Info
All Sites
View:
Select:
Label:
Sorry, no Info available
[
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
(2, 2)
Info
All PROSITE Patterns/Profiles
1: PROTEIN_KINASE_ATP (A:22-45)
2: PROTEIN_KINASE_ST (A:135-147)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PROTEIN_KINASE_ATP
PS00107
Protein kinases ATP-binding region signature.
AAPK2_HUMAN
22-45
1
A:22-45
2
PROTEIN_KINASE_ST
PS00108
Serine/Threonine protein kinases active-site signature.
AAPK2_HUMAN
135-147
1
A:135-147
[
close PROSITE info
]
Exons
(7, 7)
Info
All Exons
Exon 1.1 (A:10-32)
Exon 1.2 (A:32-79)
Exon 1.3 (A:79-110)
Exon 1.4 (A:111-159)
Exon 1.5 (A:159-188 (gaps))
Exon 1.6 (A:188-263)
Exon 1.7 (A:263-278)
View:
Select:
Label:
All Exon Boundaries
1: Boundary -/1.1
2: Boundary 1.1/1.2
3: Boundary 1.2/1.3
4: Boundary 1.3/1.4
5: Boundary 1.4/1.5
6: Boundary 1.5/1.6
7: Boundary 1.6/1.7
8: Boundary 1.7/1.8
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
ENST00000371244
1
ENSE00001454737
chr1:
57110995-57111154
160
AAPK2_HUMAN
1-32
32
1
A:10-32
23
1.2
ENST00000371244
2
ENSE00001064895
chr1:
57140054-57140195
142
AAPK2_HUMAN
32-79
48
1
A:32-79
48
1.3
ENST00000371244
3
ENSE00001064887
chr1:
57157067-57157160
94
AAPK2_HUMAN
79-110
32
1
A:79-110
32
1.4
ENST00000371244
4
ENSE00001064901
chr1:
57158031-57158175
145
AAPK2_HUMAN
111-159
49
1
A:111-159
49
1.5
ENST00000371244
5
ENSE00001064893
chr1:
57159438-57159525
88
AAPK2_HUMAN
159-188
30
1
A:159-188 (gaps)
30
1.6
ENST00000371244
6
ENSE00001064889
chr1:
57161608-57161832
225
AAPK2_HUMAN
188-263
76
1
A:188-263
76
1.7
ENST00000371244
7
ENSE00001064891
chr1:
57169644-57170148
505
AAPK2_HUMAN
263-431
169
1
A:263-278
16
1.8
ENST00000371244
8
ENSE00001064897
chr1:
57171765-57171891
127
AAPK2_HUMAN
432-474
43
0
-
-
1.9
ENST00000371244
9
ENSE00001454729
chr1:
57173148-57181008
7861
AAPK2_HUMAN
474-552
79
0
-
-
[
close EXON info
]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d2h6da_ (A:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Protein kinase-like (PK-like)
(2589)
Superfamily
:
Protein kinase-like (PK-like)
(2589)
Family
:
automated matches
(529)
Protein domain
:
automated matches
(529)
Human (Homo sapiens) [TaxId: 9606]
(438)
1a
d2h6da_
A:
[
close SCOP info
]
CATH Domains
(2, 2)
Info
all CATH domains
1a: CATH_2h6dA01 (A:10-95)
2a: CATH_2h6dA02 (A:96-278)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Phosphorylase Kinase; domain 1
(1392)
Homologous Superfamily
:
Phosphorylase Kinase; domain 1
(1392)
Human (Homo sapiens)
(1036)
1a
2h6dA01
A:10-95
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Transferase(Phosphotransferase); domain 1
(1379)
Homologous Superfamily
:
Transferase(Phosphotransferase) domain 1
(1379)
Human (Homo sapiens)
(1049)
2a
2h6dA02
A:96-278
[
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 (98 KB)
Header - Asym.Unit
Biol.Unit 1 (90 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
2H6D
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help