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.
3AMB
Asym. Unit
Info
Asym.Unit (68 KB)
Biol.Unit 1 (63 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 A SIXFOLD MUTANT MODEL OF AURORA B WITH INHIBITOR VX-680
Authors
:
A. Pflug, T. M. De Oliveira, D. Bossemeyer, R. A. Engh
Date
:
18 Aug 10 (Deposition) - 03 Aug 11 (Release) - 07 Dec 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.25
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Pka, Protein Kinase A, Surrogate, Vx-680, Mk-0457, Transferase- Transferase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. Pflug, T. M. De Oliveira, D. Bossemeyer, R. A. Engh
Mutants Of Protein Kinase A That Mimic The Atp-Binding Site Of Aurora Kinase
Biochem. J. V. 440 85 2011
[
close entry info
]
Hetero Components
(3, 4)
Info
All Hetero Components
1a: PHOSPHOSERINE (SEPa)
1b: PHOSPHOSERINE (SEPb)
2a: PHOSPHOTHREONINE (TPOa)
3a: CYCLOPROPANECARBOXYLIC ACID {4-[4-... (VX6a)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
SEP
2
Mod. Amino Acid
PHOSPHOSERINE
2
TPO
1
Mod. Amino Acid
PHOSPHOTHREONINE
3
VX6
1
Ligand/Ion
CYCLOPROPANECARBOXYLIC ACID {4-[4-(4-METHYL-PIPERAZIN-1-YL)-6-(5-METHYL-2H-PYRAZOL-3-YLAMINO)-PYRIMIDIN-2-YLSULFANYL]-PHENYL}-AMIDE
[
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
VAL A:57 , ALA A:70 , LYS A:72 , LEU A:120 , GLU A:121 , TYR A:122 , ALA A:123 , PRO A:124 , GLY A:126 , LEU A:173 , ALA A:183 , ASP A:184 , ASN A:326 , HOH A:408
BINDING SITE FOR RESIDUE VX6 A 351
2
AC2
SOFTWARE
SEP A:10 , GLN A:84 , GLU A:86 , HIS A:87 , ARG A:93 , GLU A:127 , PHE A:129 , SER A:130 , ARG A:133 , LYS A:168 , PRO A:169 , GLU A:170 , PHE A:187 , LYS A:189 , ARG A:190 , VAL A:191 , LYS A:192 , TPO A:197 , LEU A:198 , CYS A:199 , GLY A:200 , GLU A:203 , GLU A:230 , TYR A:235 , PRO A:236 , PHE A:239 , ALA A:240 , ASP A:241 , ARG A:256 , GLU A:349 , HOH A:355 , HOH B:25 , HOH B:26 , HOH B:27 , HOH B:28 , HOH B:52 , HOH B:61 , HOH B:72
BINDING SITE FOR CHAIN B OF CAMP-DEPENDENT PROTEIN KINASE INHIBITOR ALPHA
[
close Site info
]
SAPs(SNPs)/Variants
(4, 4)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_040591 (L40V, chain A, )
2: VAR_040592 (R45Q, chain A, )
3: VAR_071707 (L205R, chain A, )
4: VAR_040593 (S263C, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_040591
L
41
V
KAPCA_HUMAN
Polymorphism
56029020
A
L
40
V
2
UniProt
VAR_040592
R
46
Q
KAPCA_HUMAN
Polymorphism
56085217
A
R
45
Q
3
UniProt
VAR_071707
L
206
R
KAPCA_HUMAN
Disease (PPNAD4)
---
A
L
205
R
4
UniProt
VAR_040593
S
264
C
KAPCA_HUMAN
Polymorphism
35635531
A
S
263
C
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(3, 3)
Info
All PROSITE Patterns/Profiles
1: PROTEIN_KINASE_ATP (A:49-72)
2: PROTEIN_KINASE_ST (A:162-174)
3: AGC_KINASE_CTER (A:298-350)
;
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.
KAPCA_HUMAN
50-73
1
A:49-72
2
PROTEIN_KINASE_ST
PS00108
Serine/Threonine protein kinases active-site signature.
KAPCA_HUMAN
163-175
1
A:162-174
3
AGC_KINASE_CTER
PS51285
AGC-kinase C-terminal domain profile.
KAPCA_HUMAN
299-351
1
A:298-350
[
close PROSITE info
]
Exons
(11, 11)
Info
All Exons
Exon 1.1 (A:3-15)
Exon 1.3 (A:15-35)
Exon 1.4 (A:36-78)
Exon 1.5 (A:79-111)
Exon 1.6 (A:112-139)
Exon 1.7 (A:139-181)
Exon 1.8 (A:182-213)
Exon 1.9 (A:214-254)
Exon 1.10 (A:255-309)
Exon 1.11 (A:310-350 (gaps))
Exon 2.4 (B:5-24)
View:
Select:
Label:
All Exon Boundaries
01: Boundary -/1.1
02: Boundary 1.1/1.3
03: Boundary 1.3/1.4
04: Boundary 1.4/1.5
05: Boundary 1.5/1.6
06: Boundary 1.6/1.7
07: Boundary 1.7/1.8
08: Boundary 1.8/1.9
09: Boundary 1.9/1.10
10: Boundary 1.10/1.11
11: Boundary 1.11/-
12: Boundary 2.2/2.4
13: Boundary 2.4/2.5c
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
ENST00000308677
1
ENSE00001361389
chr19:
14228559-14228314
246
KAPCA_HUMAN
1-16
16
1
A:3-15
13
1.3
ENST00000308677
3
ENSE00001606666
chr19:
14218221-14218160
62
KAPCA_HUMAN
16-36
21
1
A:15-35
21
1.4
ENST00000308677
4
ENSE00000685588
chr19:
14217700-14217572
129
KAPCA_HUMAN
37-79
43
1
A:36-78
43
1.5
ENST00000308677
5
ENSE00000685583
chr19:
14213726-14213628
99
KAPCA_HUMAN
80-112
33
1
A:79-111
33
1.6
ENST00000308677
6
ENSE00000685579
chr19:
14211720-14211638
83
KAPCA_HUMAN
113-140
28
1
A:112-139
28
1.7
ENST00000308677
7
ENSE00001738203
chr19:
14208702-14208576
127
KAPCA_HUMAN
140-182
43
1
A:139-181
43
1.8
ENST00000308677
8
ENSE00000685568
chr19:
14208486-14208391
96
KAPCA_HUMAN
183-214
32
1
A:182-213
32
1.9
ENST00000308677
9
ENSE00001592644
chr19:
14208295-14208173
123
KAPCA_HUMAN
215-255
41
1
A:214-254
41
1.10
ENST00000308677
10
ENSE00001737778
chr19:
14204604-14204440
165
KAPCA_HUMAN
256-310
55
1
A:255-309
55
1.11
ENST00000308677
11
ENSE00001143837
chr19:
14204049-14202509
1541
KAPCA_HUMAN
311-351
41
1
A:310-350 (gaps)
41
2.1a
ENST00000396418
1a
ENSE00001524871
chr8:
79428374-79428703
330
IPKA_HUMAN
-
0
0
-
-
2.2
ENST00000396418
2
ENSE00001524870
chr8:
79485046-79485174
129
IPKA_HUMAN
-
0
0
-
-
2.4
ENST00000396418
4
ENSE00001167467
chr8:
79510593-79510770
178
IPKA_HUMAN
1-51
51
1
B:5-24
20
2.5c
ENST00000396418
5c
ENSE00002091070
chr8:
79513977-79517502
3526
IPKA_HUMAN
51-76
26
0
-
-
[
close EXON info
]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d3amba_ (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
:
Protein kinases, catalytic subunit
(1977)
Protein domain
:
cAMP-dependent PK, catalytic subunit
(75)
Pig (Sus scrofa) [TaxId: 9823]
(9)
1a
d3amba_
A:
[
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
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 (68 KB)
Header - Asym.Unit
Biol.Unit 1 (63 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
3AMB
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
