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.
2K1J
Asym. Unit
Info
Asym.Unit (421 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
Models
(25 )
Title
:
PLAN HOMEODOMAIN FINGER OF TUMOUR SUPRESSOR ING4
Authors
:
A. Palacios, P. Garcia, D. Padro, E. Lopez-Hernandez, F. J. Blanco
Date
:
05 Mar 08 (Deposition) - 15 Apr 08 (Release) - 24 Feb 09 (Revision)
Method
:
SOLUTION NMR
Resolution
:
NOT APPLICABLE
Chains
:
Asym. Unit : A (25 x)
Keywords
:
Phd, Zn, Gene Regulation, Acetylation, Alternative Splicing, Anti-Oncogene, Cell Cycle, Coiled Coil, Metal-Binding, Nucleus, Zinc, Zinc-Finger
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. Palacios, P. Garcia, D. Padro, E. Lopez-Hernandez, I. Martin, F. J. Blanco
Solution Structure And Nmr Characterization Of The Binding To Methylated Histone Tails Of The Plant Homeodomain Finger Of The Tumour Suppressor Ing4.
Febs Lett. V. 580 6903 2006
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(1, 2)
Info
All Hetero Components
1a: ZINC ION (ZNa)
1b: ZINC ION (ZNb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ZN
2
Ligand/Ion
ZINC ION
[
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
TYR A:198 , CYS A:199 , GLN A:203 , HIS A:223
BINDING SITE FOR RESIDUE ZN A 250
2
AC2
SOFTWARE
GLY A:211 , CYS A:212 , ASN A:214 , PHE A:222 , CYS A:239
BINDING SITE FOR RESIDUE ZN A 251
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available in "Model" view)
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: ZF_PHD_2 (A:196-245)
2: ZF_PHD_1 (A:199-242)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ZF_PHD_2
PS50016
Zinc finger PHD-type profile.
ING4_HUMAN
196-245
1
A:196-245
2
ZF_PHD_1
PS01359
Zinc finger PHD-type signature.
ING4_HUMAN
199-242
1
A:199-242
[
close PROSITE info
]
Exons
(3, 3)
Info
All Exons
Exon 1.10i (A:187-216)
Exon 1.11b (A:217-237)
Exon 1.11n (A:237-249)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.10d/1.10i
2: Boundary 1.10i/1.11b
3: Boundary 1.11b/1.11n
4: Boundary 1.11n/-
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
1.1c
ENST00000396807
1c
ENSE00001945605
chr12:
6772306-6772231
76
ING4_HUMAN
1-13
13
0
-
-
1.7a
ENST00000396807
7a
ENSE00000866946
chr12:
6765964-6765893
72
ING4_HUMAN
13-37
25
0
-
-
1.9b
ENST00000396807
9b
ENSE00000715744
chr12:
6762562-6762396
167
ING4_HUMAN
37-92
56
0
-
-
1.10b
ENST00000396807
10b
ENSE00001789862
chr12:
6762216-6762102
115
ING4_HUMAN
93-131
39
0
-
-
1.10d
ENST00000396807
10d
ENSE00001526324
chr12:
6761936-6761828
109
ING4_HUMAN
131-167
37
0
-
-
1.10i
ENST00000396807
10i
ENSE00001721883
chr12:
6761584-6761437
148
ING4_HUMAN
167-216
50
1
A:187-216
30
1.11b
ENST00000396807
11b
ENSE00001640958
chr12:
6760551-6760490
62
ING4_HUMAN
217-237
21
1
A:217-237
21
1.11n
ENST00000396807
11n
ENSE00001876036
chr12:
6760400-6759757
644
ING4_HUMAN
237-249
13
1
A:237-249
13
[
close EXON info
]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d2k1ja_ (A:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Small proteins
(3458)
Fold
:
FYVE/PHD zinc finger
(57)
Superfamily
:
FYVE/PHD zinc finger
(57)
Family
:
PHD domain
(30)
Protein domain
:
Inhibitor of growth protein 4, Ing4
(4)
Human (Homo sapiens) [TaxId: 9606]
(2)
1a
d2k1ja_
A:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_PHD_2k1jA01 (A:198-245)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
zf-FYVE-PHD
(57)
Family
:
PHD
(44)
Homo sapiens (Human)
(33)
1a
PHD-2k1jA01
A:198-245
[
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 (421 KB)
Header - Asym.Unit
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
2K1J
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
