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.
2P6V
Asym. Unit
Info
Asym.Unit (24 KB)
Biol.Unit 1 (101 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 TAFH DOMAIN OF THE HUMAN TAF4 SUBUNIT OF TFIID
Authors
:
X. Wang, D. M. Truckses, S. Takada, T. Matsumura, N. Tanese, R. H. Jacobson
Date
:
19 Mar 07 (Deposition) - 15 May 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A
Biol. Unit 1: A (6x)
Keywords
:
Alpha Helix, Transcription
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
X. Wang, D. M. Truckses, S. Takada, T. Matsumura, N. Tanese, R. H. Jacobson
Conserved Region I Of Human Coactivator Taf4 Binds To A Short Hydrophobic Motif Present In Transcriptional Regulators.
Proc. Natl. Acad. Sci. Usa V. 104 7839 2007
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(2, 9)
Info
All Hetero Components
1a: N-DIMETHYL-LYSINE (MLYa)
1b: N-DIMETHYL-LYSINE (MLYb)
1c: N-DIMETHYL-LYSINE (MLYc)
1d: N-DIMETHYL-LYSINE (MLYd)
1e: N-DIMETHYL-LYSINE (MLYe)
1f: N-DIMETHYL-LYSINE (MLYf)
1g: N-DIMETHYL-LYSINE (MLYg)
1h: N-DIMETHYL-LYSINE (MLYh)
2a: SULFATE ION (SO4a)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MLY
8
Mod. Amino Acid
N-DIMETHYL-LYSINE
2
SO4
1
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(1, 1)
Info
All Sites
1: AC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
SER A:646 , SER A:647
BINDING SITE FOR RESIDUE SO4 A 700
[
close Site info
]
SAPs(SNPs)/Variants
(1, 1)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_052258 (P650L, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_052258
P
651
L
TAF4_HUMAN
Polymorphism
6089604
A
P
650
L
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: TAFH (A:589-678)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TAFH
PS51119
TAFH/NHR1 domain profile.
TAF4_HUMAN
590-687
1
A:589-678
[
close PROSITE info
]
Exons
(4, 4)
Info
All Exons
Exon 1.4a (A:582-586)
Exon 1.5a (A:587-627)
Exon 1.6a (A:628-657)
Exon 1.7b (A:658-678)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.3/1.4a
2: Boundary 1.4a/1.5a
3: Boundary 1.5a/1.6a
4: Boundary 1.6a/1.7b
5: Boundary 1.7b/1.8b
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
ENST00000252996
1a
ENSE00001379037
chr20:
60640866-60639507
1360
TAF4_HUMAN
1-454
454
0
-
-
1.2
ENST00000252996
2
ENSE00000897226
chr20:
60589763-60589603
161
TAF4_HUMAN
454-507
54
0
-
-
1.3
ENST00000252996
3
ENSE00000897221
chr20:
60587990-60587871
120
TAF4_HUMAN
508-547
40
0
-
-
1.4a
ENST00000252996
4a
ENSE00000897216
chr20:
60585221-60585102
120
TAF4_HUMAN
548-587
40
1
A:582-586
5
1.5a
ENST00000252996
5a
ENSE00000897212
chr20:
60584230-60584108
123
TAF4_HUMAN
588-628
41
1
A:587-627
41
1.6a
ENST00000252996
6a
ENSE00000897207
chr20:
60582692-60582603
90
TAF4_HUMAN
629-658
30
1
A:628-657
30
1.7b
ENST00000252996
7b
ENSE00000897200
chr20:
60581814-60581566
249
TAF4_HUMAN
659-741
83
1
A:658-678
21
1.8b
ENST00000252996
8b
ENSE00000897193
chr20:
60578934-60578787
148
TAF4_HUMAN
742-791
50
0
-
-
1.9
ENST00000252996
9
ENSE00000897187
chr20:
60578330-60578216
115
TAF4_HUMAN
791-829
39
0
-
-
1.11b
ENST00000252996
11b
ENSE00000897178
chr20:
60575777-60575608
170
TAF4_HUMAN
829-886
58
0
-
-
1.12
ENST00000252996
12
ENSE00000897167
chr20:
60575310-60575180
131
TAF4_HUMAN
886-929
44
0
-
-
1.13
ENST00000252996
13
ENSE00001453942
chr20:
60574164-60574039
126
TAF4_HUMAN
930-971
42
0
-
-
1.14a
ENST00000252996
14a
ENSE00001453940
chr20:
60573248-60573192
57
TAF4_HUMAN
972-990
19
0
-
-
1.15
ENST00000252996
15
ENSE00000897149
chr20:
60572725-60572606
120
TAF4_HUMAN
991-1030
40
0
-
-
1.16
ENST00000252996
16
ENSE00001636878
chr20:
60551391-60549852
1540
TAF4_HUMAN
1031-1085
55
0
-
-
[
close EXON info
]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d2p6va1 (A:582-678)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
TAFH domain-like
(4)
Superfamily
:
TAFH domain-like
(4)
Family
:
TAFH domain-like
(4)
Protein domain
:
Transcription initiation factor TFIID subunit 4, TAF4
(1)
Human (Homo sapiens) [TaxId: 9606]
(1)
1a
d2p6va1
A:582-678
[
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_TAFH_2p6vA01 (A:589-678)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: TAFH]
(3)
Family
:
TAFH
(3)
Homo sapiens (Human)
(3)
1a
TAFH-2p6vA01
A:589-678
[
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 (24 KB)
Header - Asym.Unit
Biol.Unit 1 (101 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
2P6V
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
