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.
1X6H
Asym. Unit
Info
Asym.Unit (423 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
Models
(20 )
Title
:
SOLUTION STRUCTURES OF THE C2H2 TYPE ZINC FINGER DOMAIN OF HUMAN TRANSCRIPTIONAL REPRESSOR CTCF
Authors
:
M. Sato, K. Saito, S. Koshiba, M. Inoue, T. Kigawa, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date
:
17 May 05 (Deposition) - 17 Nov 05 (Release) - 24 Feb 09 (Revision)
Method
:
SOLUTION NMR
Resolution
:
NOT APPLICABLE
Chains
:
Asym. Unit : A (20 x)
Keywords
:
Zinc Finger Protein, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi, Dna Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Sato, K. Saito, S. Koshiba, M. Inoue, T. Kigawa, S. Yokoyama
Solution Structures Of The C2H2 Type Zinc Finger Domain Of Human Transcriptional Repressor Ctcf
To Be Published
(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
CYS A:18 , CYS A:21 , HIS A:34 , HIS A:39
BINDING SITE FOR RESIDUE ZN A 201
2
AC2
SOFTWARE
CYS A:50 , CYS A:53 , HIS A:66 , CYS A:70
BINDING SITE FOR RESIDUE ZN A 401
[
close Site info
]
SAPs(SNPs)/Variants
(1, 1)
Info
(mutated residues are not available in "Model" view)
All SNPs/Variants
1: VAR_070776 (R60W, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_070776
R
567
W
CTCF_HUMAN
Disease (MRD21)
---
A
R
60
W
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 3)
Info
All PROSITE Patterns/Profiles
1: ZINC_FINGER_C2H2_1 (-|-|-|A:6-7|-|-|A:8-10|A:18-39)
;
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.
CTCF_HUMAN
268-288
296-316
324-345
409-430
439-460
469-489
497-517
525-546
3
-
-
-
A:6-7
-
-
A:8-10
A:18-39
[
close PROSITE info
]
Exons
(4, 4)
Info
All Exons
Exon 1.6 (A:1-4 (gaps))
Exon 1.7 (A:4-7 (gaps))
Exon 1.9a (A:8-60)
Exon 1.10 (A:61-86 (gaps))
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.5b/1.6
2: Boundary 1.6/1.7
3: Boundary 1.7/1.8
4: Boundary 1.8/1.9a
5: Boundary 1.9a/1.10
6: Boundary 1.10/1.11
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
1.1a
ENST00000264010
1a
ENSE00001558712
chr16:
67596310-67596627
318
CTCF_HUMAN
-
0
0
-
-
1.2
ENST00000264010
2
ENSE00001664803
chr16:
67605051-67605167
117
CTCF_HUMAN
-
0
0
-
-
1.3
ENST00000264010
3
ENSE00002191256
chr16:
67644727-67645516
790
CTCF_HUMAN
1-261
261
0
-
-
1.4
ENST00000264010
4
ENSE00001645353
chr16:
67645854-67646024
171
CTCF_HUMAN
261-318
58
0
-
-
1.5b
ENST00000264010
5b
ENSE00001787619
chr16:
67650648-67650781
134
CTCF_HUMAN
318-362
45
0
-
-
1.6
ENST00000264010
6
ENSE00000690280
chr16:
67654600-67654720
121
CTCF_HUMAN
363-403
41
1
A:1-4 (gaps)
17
1.7
ENST00000264010
7
ENSE00000690296
chr16:
67655345-67655494
150
CTCF_HUMAN
403-453
51
1
A:4-7 (gaps)
18
1.8
ENST00000264010
8
ENSE00000690297
chr16:
67660458-67660618
161
CTCF_HUMAN
453-506
54
0
-
-
1.9a
ENST00000264010
9a
ENSE00001251143
chr16:
67662273-67662455
183
CTCF_HUMAN
507-567
61
1
A:8-60
53
1.10
ENST00000264010
10
ENSE00000690303
chr16:
67663301-67663436
136
CTCF_HUMAN
568-613
46
1
A:61-86 (gaps)
30
1.11
ENST00000264010
11
ENSE00000690304
chr16:
67670593-67670754
162
CTCF_HUMAN
613-667
55
0
-
-
1.12a
ENST00000264010
12a
ENSE00001548234
chr16:
67671591-67673086
1496
CTCF_HUMAN
667-727
61
0
-
-
[
close EXON info
]
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d1x6ha1 (A:44-80)
1b: SCOP_d1x6ha2 (A:8-43)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Small proteins
(3458)
Fold
:
beta-beta-alpha zinc fingers
(183)
Superfamily
:
beta-beta-alpha zinc fingers
(183)
Family
:
Classic zinc finger, C2H2
(162)
Protein domain
:
Transcriptional repressor CTCF
(2)
Human (Homo sapiens) [TaxId: 9606]
(2)
1a
d1x6ha1
A:44-80
1b
d1x6ha2
A:8-43
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(2, 2)
Info
all PFAM domains
1a: PFAM_zf_C2H2_4_1x6hA01 (A:48-71)
2a: PFAM_zf_H2C2_2_1x6hA02 (A:8-27)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
C2H2-zf
(71)
Family
:
zf-C2H2_4
(2)
Homo sapiens (Human)
(1)
1a
zf-C2H2_4-1x6hA01
A:48-71
Family
:
zf-H2C2_2
(52)
Homo sapiens (Human)
(37)
2a
zf-H2C2_2-1x6hA02
A:8-27
[
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 (423 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
1X6H
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help