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.
1XA5
Asym. Unit
Info
Asym.Unit (32 KB)
Biol.Unit 1 (26 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
STRUCTURE OF CALMODULIN IN COMPLEX WITH KAR-2, A BIS-INDOL ALKALOID
Authors
:
I. Horvath, V. Harmat, E. Hlavanda, G. Naray-Szabo, J. Ovadi
Date
:
25 Aug 04 (Deposition) - 21 Dec 04 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.12
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Calmodulin, Vinca Alkaloid, Kar-2, Drug Binding, Metal Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
I. Horvath, V. Harmat, A. Perczel, V. Palfi, L. Nyitrai, A. Nagy, E. Hlavanda, G. Naray-Szabo, J. Ovadi
The Structure Of The Complex Of Calmodulin With Kar-2: A Novel Mode Of Binding Explains The Unique Pharmacology Of The Drug
J. Biol. Chem. V. 280 8266 2005
[
close entry info
]
Hetero Components
(2, 5)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
2a: 3"-(BETA-CHLOROETHYL)-2",4"-DIOXO-... (KARa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
4
Ligand/Ion
CALCIUM ION
2
KAR
1
Ligand/Ion
3"-(BETA-CHLOROETHYL)-2",4"-DIOXO-3, 5"-SPIRO-OXAZOLIDINO-4-DEACETOXY-VINBLASTINE
[
close Hetero Component info
]
Sites
(5, 5)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP A:20 , ASP A:22 , ASP A:24 , THR A:26 , GLU A:31 , HOH A:188
BINDING SITE FOR RESIDUE CA A 149
2
AC2
SOFTWARE
ASP A:93 , ASP A:95 , ASN A:97 , TYR A:99 , GLU A:104 , HOH A:196
BINDING SITE FOR RESIDUE CA A 151
3
AC3
SOFTWARE
ASP A:129 , ASP A:131 , ASP A:133 , GLN A:135 , GLU A:140 , HOH A:168
BINDING SITE FOR RESIDUE CA A 152
4
AC4
SOFTWARE
ASP A:56 , ASP A:58 , ASN A:60 , THR A:62 , GLU A:67 , HOH A:159
BINDING SITE FOR RESIDUE CA A 150
5
AC5
SOFTWARE
GLN A:3 , LEU A:18 , PHE A:19 , LEU A:39 , PHE A:68 , MET A:72 , ILE A:85 , MET A:109 , MET A:144 , MET A:145 , ALA A:147 , LYS A:148 , HOH A:155 , HOH A:180
BINDING SITE FOR RESIDUE KAR A 153
[
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, 8)
Info
All PROSITE Patterns/Profiles
1: EF_HAND_2 (A:7-42|A:43-78|A:80-115|A:116-148)
2: EF_HAND_1 (A:20-32|A:56-68|A:93-105|A:129-141)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
EF_HAND_2
PS50222
EF-hand calcium-binding domain profile.
CALM_BOVIN
8-43
44-79
81-116
117-149
4
A:7-42
A:43-78
A:80-115
A:116-148
2
EF_HAND_1
PS00018
EF-hand calcium-binding domain.
CALM_BOVIN
21-33
57-69
94-106
130-142
4
A:20-32
A:56-68
A:93-105
A:129-141
[
close PROSITE info
]
Exons
(5, 5)
Info
All Exons
Exon 1.8 (A:3-11)
Exon 1.9 (A:11-59)
Exon 1.10 (A:59-94 (gaps))
Exon 1.11 (A:95-140)
Exon 1.12 (A:140-148)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.7/1.8
2: Boundary 1.8/1.9
3: Boundary 1.9/1.10
4: Boundary 1.10/1.11
5: Boundary 1.11/1.12
6: Boundary 1.12/-
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
1.7
ENSBTAT00000019411
7
ENSBTAE00000320796
chr18:
53531460-53531549
90
CALM_BOVIN
1-1
1
0
-
-
1.8
ENSBTAT00000019411
8
ENSBTAE00000157831
chr18:
53535790-53535820
31
CALM_BOVIN
2-12
11
1
A:3-11
9
1.9
ENSBTAT00000019411
9
ENSBTAE00000428812
chr18:
53537981-53538124
144
CALM_BOVIN
12-60
49
1
A:11-59
49
1.10
ENSBTAT00000019411
10
ENSBTAE00000416563
chr18:
53538265-53538371
107
CALM_BOVIN
60-95
36
1
A:59-94 (gaps)
36
1.11
ENSBTAT00000019411
11
ENSBTAE00000389868
chr18:
53538749-53538884
136
CALM_BOVIN
96-141
46
1
A:95-140
46
1.12
ENSBTAT00000019411
12
ENSBTAE00000245541
chr18:
53538967-53540533
1567
CALM_BOVIN
141-149
9
1
A:140-148
9
[
close EXON info
]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1xa5a_ (A:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
EF Hand-like
(739)
Superfamily
:
EF-hand
(657)
Family
:
Calmodulin-like
(356)
Protein domain
:
Calmodulin
(152)
Cow (Bos taurus) [TaxId: 9913]
(16)
1a
d1xa5a_
A:
[
close SCOP info
]
CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_1xa5A00 (A:3-148)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Recoverin; domain 1
(474)
Homologous Superfamily
:
EF-hand
(412)
Cattle (Bos taurus)
(44)
1a
1xa5A00
A:3-148
[
close CATH info
]
Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_EF_hand_5_1xa5A01 (A:84-145)
1b: PFAM_EF_hand_5_1xa5A02 (A:84-145)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
EF_hand
(270)
Family
:
EF_hand_5
(126)
Bos taurus (Bovine)
(4)
1a
EF_hand_5-1xa5A01
A:84-145
1b
EF_hand_5-1xa5A02
A:84-145
[
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 (32 KB)
Header - Asym.Unit
Biol.Unit 1 (26 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
1XA5
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
