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.
1LKY
Asym. Unit
Info
Asym.Unit (89 KB)
Biol.Unit 1 (84 KB)
Biol.Unit 2 (84 KB)
Biol.Unit 3 (84 KB)
Biol.Unit 4 (84 KB)
Biol.Unit 5 (84 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 THE WILD-TYPE TEL-SAM POLYMER
Authors
:
H. H. Tran, C. A. Kim, S. Faham, J. U. Bowie
Date
:
26 Apr 02 (Deposition) - 12 Jun 02 (Release) - 16 Jun 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C,D,E,F (1x)
Biol. Unit 2: A,B,C,D,E,F (1x)
Biol. Unit 3: A,B,C,D,E,F (1x)
Biol. Unit 4: A,B,C,D,E,F (1x)
Biol. Unit 5: A,B,C,D,E,F (1x)
Keywords
:
Leukemia, Tyrosine Kinase, Transcriptional Repression, Drug Design
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. H. Tran, C. A. Kim
Native Interface Of The Sam Domain Polymer Of Tel.
Bmc Struct. Biol. V. 2 5 2002
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(1, 11)
Info
All Hetero Components
1a: SULFATE ION (SO4a)
1b: SULFATE ION (SO4b)
1c: SULFATE ION (SO4c)
1d: SULFATE ION (SO4d)
1e: SULFATE ION (SO4e)
1f: SULFATE ION (SO4f)
1g: SULFATE ION (SO4g)
1h: SULFATE ION (SO4h)
1i: SULFATE ION (SO4i)
1j: SULFATE ION (SO4j)
1k: SULFATE ION (SO4k)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
SO4
11
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(11, 11)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:73 , PRO A:75 , HOH A:307
BINDING SITE FOR RESIDUE SO4 A 301
02
AC2
SOFTWARE
LYS A:39 , SER A:52 , SER C:30 , ARG C:31 , ASN C:58 , SER D:46
BINDING SITE FOR RESIDUE SO4 A 302
03
AC3
SOFTWARE
PRO A:19 , ALA A:20 , LEU C:24 , GLN C:25
BINDING SITE FOR RESIDUE SO4 C 305
04
AC4
SOFTWARE
SER A:15 , ILE A:16 , HOH A:308 , HOH F:337
BINDING SITE FOR RESIDUE SO4 F 306
05
AC5
SOFTWARE
LEU A:24 , GLN A:25 , PRO E:19 , ALA E:20 , HIS E:21 , GLN E:36
BINDING SITE FOR RESIDUE SO4 E 307
06
AC6
SOFTWARE
ARG B:48 , SER B:74 , PRO B:75 , HIS B:76
BINDING SITE FOR RESIDUE SO4 B 308
07
AC7
SOFTWARE
ASP B:69 , ARG B:73 , LYS C:67 , ASP C:79 , ARG C:80 , GLU C:83 , HOH C:319
BINDING SITE FOR RESIDUE SO4 B 309
08
AC8
SOFTWARE
LEU B:24 , GLN B:25 , TYR B:28 , HOH B:317
BINDING SITE FOR RESIDUE SO4 F 312
09
AC9
SOFTWARE
ARG C:23 , SER E:30 , ARG E:31 , ASN E:58 , HOH E:317 , SER F:46
BINDING SITE FOR RESIDUE SO4 E 313
10
BC1
SOFTWARE
SER B:30 , ARG B:31 , ASN B:58 , LYS F:39 , SER F:52
BINDING SITE FOR RESIDUE SO4 F 314
11
BC2
SOFTWARE
SER A:30 , ARG A:31 , ASN A:58 , SER B:46 , LYS E:39
BINDING SITE FOR RESIDUE SO4 E 315
[
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
(1, 6)
Info
All Exons
Exon 1.5 (A:15-20 | B:15-20 | C:15-20 | D:15...)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.4/1.5
2: Boundary 1.5/1.6
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
1.2
ENST00000396373
2
ENSE00001696637
chr12:
11903767-11903782
16
ETV6_HUMAN
1-6
6
0
-
-
1.3
ENST00000396373
3
ENSE00001770390
chr12:
11904330-11904335
6
ETV6_HUMAN
6-8
3
0
-
-
1.4
ENST00000396373
4
ENSE00001639290
chr12:
11904772-11904779
8
ETV6_HUMAN
8-10
3
0
-
-
1.5
ENST00000396373
5
ENSE00002180215
chr12:
11905384-11905513
130
ETV6_HUMAN
11-52
42
6
A:15-20
B:15-20
C:15-20
D:15-20
E:15-20
F:15-20
6
6
6
6
6
6
1.6
ENST00000396373
6
ENSE00001803058
chr12:
11992074-11992238
165
ETV6_HUMAN
-
0
0
-
-
1.7
ENST00000396373
7
ENSE00001688954
chr12:
12006361-12006495
135
ETV6_HUMAN
-
0
0
-
-
1.8
ENST00000396373
8
ENSE00001700080
chr12:
12022358-12022903
546
ETV6_HUMAN
-
0
0
-
-
1.9
ENST00000396373
9
ENSE00001691733
chr12:
12037379-12037521
143
ETV6_HUMAN
-
0
0
-
-
1.10
ENST00000396373
10
ENSE00001595848
chr12:
12038860-12038960
101
ETV6_HUMAN
-
0
0
-
-
1.11a
ENST00000396373
11a
ENSE00001746849
chr12:
12043875-12044063
189
ETV6_HUMAN
-
0
0
-
-
[
close EXON info
]
SCOP Domains
(1, 6)
Info
All SCOP Domains
1a: SCOP_d1lkya_ (A:)
1b: SCOP_d1lkyb_ (B:)
1c: SCOP_d1lkyc_ (C:)
1d: SCOP_d1lkyd_ (D:)
1e: SCOP_d1lkye_ (E:)
1f: SCOP_d1lkyf_ (F:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
SAM domain-like
(639)
Superfamily
:
SAM/Pointed domain
(61)
Family
:
Pointed domain
(12)
Protein domain
:
Etv6 transcription factor pointed domain (Tel SAM)
(5)
Human (Homo sapiens) [TaxId: 9606]
(2)
1a
d1lkya_
A:
1b
d1lkyb_
B:
1c
d1lkyc_
C:
1d
d1lkyd_
D:
1e
d1lkye_
E:
1f
d1lkyf_
F:
[
close SCOP info
]
CATH Domains
(1, 6)
Info
all CATH domains
1a: CATH_1lkyA00 (A:15-91)
1b: CATH_1lkyC00 (C:15-91)
1c: CATH_1lkyE00 (E:15-91)
1d: CATH_1lkyB00 (B:15-91)
1e: CATH_1lkyD00 (D:15-91)
1f: CATH_1lkyF00 (F:15-91)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
DNA polymerase; domain 1
(617)
Homologous Superfamily
:
Transcription Factor, Ets-1
(30)
Human (Homo sapiens)
(14)
1a
1lkyA00
A:15-91
1b
1lkyC00
C:15-91
1c
1lkyE00
E:15-91
1d
1lkyB00
B:15-91
1e
1lkyD00
D:15-91
1f
1lkyF00
F:15-91
[
close CATH info
]
Pfam Domains
(1, 6)
Info
all PFAM domains
1a: PFAM_SAM_PNT_1lkyF01 (F:15-91)
1b: PFAM_SAM_PNT_1lkyF02 (F:15-91)
1c: PFAM_SAM_PNT_1lkyF03 (F:15-91)
1d: PFAM_SAM_PNT_1lkyF04 (F:15-91)
1e: PFAM_SAM_PNT_1lkyF05 (F:15-91)
1f: PFAM_SAM_PNT_1lkyF06 (F:15-91)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
SAM
(26)
Family
:
SAM_PNT
(9)
Homo sapiens (Human)
(5)
1a
SAM_PNT-1lkyF01
F:15-91
1b
SAM_PNT-1lkyF02
F:15-91
1c
SAM_PNT-1lkyF03
F:15-91
1d
SAM_PNT-1lkyF04
F:15-91
1e
SAM_PNT-1lkyF05
F:15-91
1f
SAM_PNT-1lkyF06
F:15-91
[
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 (89 KB)
Header - Asym.Unit
Biol.Unit 1 (84 KB)
Header - Biol.Unit 1
Biol.Unit 2 (84 KB)
Header - Biol.Unit 2
Biol.Unit 3 (84 KB)
Header - Biol.Unit 3
Biol.Unit 4 (84 KB)
Header - Biol.Unit 4
Biol.Unit 5 (84 KB)
Header - Biol.Unit 5
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
1LKY
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
