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.
1ZNM
Asym. Unit
Info
Asym.Unit (249 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
Models
(34 )
Title
:
A ZINC FINGER WITH AN ARTIFICIAL BETA-TURN, ORIGINAL SEQUENCE TAKEN FROM THE THIRD ZINC FINGER DOMAIN OF THE HUMAN TRANSCRIPTIONAL REPRESSOR PROTEIN YY1 (YING AND YANG 1, A DELTA TRANSCRIPTION FACTOR), NMR, 34 STRUCTURES
Authors
:
J. H. Viles, S. U. Patel, J. B. O. Mitchell, C. M. Moody, D. E. Justice, J. Uppenbrink, P. M. Doyle, C. J. Harris, P. J. Sadler, J. M. Thornton
Date
:
20 Nov 97 (Deposition) - 01 Apr 98 (Release) - 24 Feb 09 (Revision)
Method
:
SOLUTION NMR
Resolution
:
NOT APPLICABLE
Chains
:
Asym. Unit : A (34 x)
Keywords
:
Zinc Finger, Zn-Btd(7, 8)-3Yy1, Beta-Turn Mimetic, Transcription Regulation
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. H. Viles, S. U. Patel, J. B. Mitchell, C. M. Moody, D. E. Justice, J. Uppenbrink, P. M. Doyle, C. J. Harris, P. J. Sadler, J. M. Thornton
Design, Synthesis And Structure Of A Zinc Finger With An Artificial Beta-Turn.
J. Mol. Biol. V. 279 973 1998
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(2, 2)
Info
All Hetero Components
1a: NORVALINE (NVAa)
2a: ZINC ION (ZNa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
NVA
1
Mod. Amino Acid
NORVALINE
2
ZN
1
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: BTD (UNKNOWN)
3: ZNB (UNKNOWN)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
CYS A:4 , CYS A:9 , HIS A:22 , HIS A:26
BINDING SITE FOR RESIDUE ZN A 29
2
BTD
UNKNOWN
NVA A:7
BETA TURN DIPEPTIDE (TYPE II' BETA TURN MIMETIC).
3
ZNB
UNKNOWN
CYS A:4 , CYS A:9 , HIS A:22 , HIS A:26
ZN BINDING SITE.
[
close Site info
]
SAPs(SNPs)/Variants
(3, 3)
Info
(mutated residues are not available in "Model" view)
All SNPs/Variants
1: VAR_079206 (L15P, chain A, )
2: VAR_079207 (L15V, chain A, )
3: VAR_074172 (T21R, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_079206
L
366
P
TYY1_HUMAN
---
---
A
L
15
P
2
UniProt
VAR_079207
L
366
V
TYY1_HUMAN
---
---
A
L
15
V
3
UniProt
VAR_074172
T
372
R
TYY1_HUMAN
Polymorphism
386834266
A
T
21
R
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: ZINC_FINGER_C2H2_1 (-|-|A:4-26|-)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ZINC_FINGER_C2H2_1
PS00028
Zinc finger C2H2 type domain signature.
TYY1_HUMAN
298-320
327-347
355-377
385-407
1
-
-
A:4-26
-
[
close PROSITE info
]
Exons
(2, 2)
Info
All Exons
Exon 1.4 (A:2-3)
Exon 1.5 (A:4-28)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.3/1.4
2: Boundary 1.4/1.5
3: Boundary 1.5/-
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
ENST00000262238
1
ENSE00001300652
chr14:
100705322-100706260
939
TYY1_HUMAN
1-227
227
0
-
-
1.2
ENST00000262238
2
ENSE00000660347
chr14:
100728641-100728803
163
TYY1_HUMAN
227-281
55
0
-
-
1.3
ENST00000262238
3
ENSE00000941427
chr14:
100741035-100741095
61
TYY1_HUMAN
281-301
21
0
-
-
1.4
ENST00000262238
4
ENSE00000941428
chr14:
100742827-100742985
159
TYY1_HUMAN
302-354
53
1
A:2-3
2
1.5
ENST00000262238
5
ENSE00001188710
chr14:
100743755-100749129
5375
TYY1_HUMAN
355-414
60
1
A:4-28
25
[
close EXON info
]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1znma_ (A:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Designed proteins
(167)
Fold
:
Zinc finger design
(10)
Superfamily
:
Zinc finger design
(10)
Family
:
Zinc finger design
(10)
Protein domain
:
Zinc finger with an artificial beta-turn
(1)
Synthetic, based on Homo sapiens sequence
(1)
1a
d1znma_
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_zf_H2C2_2_1znmA01 (A:2-14)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
C2H2-zf
(71)
Family
:
zf-H2C2_2
(52)
Homo sapiens (Human)
(37)
1a
zf-H2C2_2-1znmA01
A:2-14
[
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 (249 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
1ZNM
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help