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.
3PSL
Asym. Unit
Info
Asym.Unit (203 KB)
Biol.Unit 1 (99 KB)
Biol.Unit 2 (101 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
FINE-TUNING THE STIMULATION OF MLL1 METHYLTRANSFERASE ACTIVITY BY A HISTONE H3 BASED PEPTIDE MIMETIC
Authors
:
V. Avdic, P. Zhang, S. Lanouette, A. Voronova, I. Skerjanc, J. -F. Coutu
Date
:
01 Dec 10 (Deposition) - 22 Dec 10 (Release) - 24 Aug 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.70
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,C (1x)
Biol. Unit 2: B,D (1x)
Keywords
:
Chromatin, Histone, Beta-Propeller, Scaffolding, Rbbp5, Mll1, Nucleus, Transcription - Transcription Inhibitor Complex, Transcription-Transcription Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
V. Avdic, P. Zhang, S. Lanouette, A. Voronova, I. Skerjanc, J. F. Couture
Fine-Tuning The Stimulation Of Mll1 Methyltransferase Activity By A Histone H3-Based Peptide Mimetic.
Faseb J. V. 25 960 2011
[
close entry info
]
Hetero Components
(1, 2)
Info
All Hetero Components
1a: ACETYL GROUP (ACEa)
1b: ACETYL GROUP (ACEb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACE
2
Mod. Amino Acid
ACETYL GROUP
[
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
HOH A:13 , ALA A:47 , VAL A:48 , SER A:49 , GLY A:89 , ILE A:90 , SER A:91 , ASP A:107 , TYR A:131 , PHE A:133 , CYS A:261 , PHE A:263 , GLU A:322 , HOH A:368 , HOH B:407 , HOH C:11 , HOH C:74 , HOH C:157
BINDING SITE FOR CHAIN C OF N-ALPHA ACETYLATED FORM OF HISTONE H3
2
AC2
SOFTWARE
GLU A:151 , HIS A:170 , HOH B:9 , ALA B:47 , SER B:49 , GLY B:89 , ILE B:90 , SER B:91 , ASP B:107 , TYR B:131 , PHE B:133 , TYR B:260 , CYS B:261 , PHE B:263 , HOH B:336 , HOH B:349 , HOH B:363 , HOH B:454 , HOH D:12 , HOH D:64 , HOH D:68 , HOH D:479
BINDING SITE FOR CHAIN D OF N-ALPHA ACETYLATED FORM OF HISTONE H3
[
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
(1, 8)
Info
All PROSITE Patterns/Profiles
1: WD_REPEATS_1 (A:102-116,B:102-116|A:144-158,B:14...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
WD_REPEATS_1
PS00678
Trp-Asp (WD) repeats signature.
WDR5_HUMAN
102-116
144-158
186-200
274-288
8
A:102-116
B:102-116
A:144-158
B:144-158
A:186-200
B:186-200
A:274-288
B:274-288
[
close PROSITE info
]
Exons
(12, 24)
Info
All Exons
Exon 1.3 (A:32-64 | B:32-64)
Exon 1.4 (A:64-88 | B:64-88)
Exon 1.5 (A:89-118 | B:89-118)
Exon 1.6 (A:119-148 | B:119-148)
Exon 1.7 (A:149-176 | B:149-176)
Exon 1.8 (A:177-195 | B:177-195)
Exon 1.9 (A:195-209 | B:195-209)
Exon 1.10 (A:215-236 | B:215-236)
Exon 1.11 (A:236-247 | B:236-247)
Exon 1.12 (A:248-272 | B:248-272)
Exon 1.13 (A:273-302 | B:273-302)
Exon 1.14a (A:302-334 | B:302-334)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.2b/1.3
02: Boundary 1.3/1.4
03: Boundary 1.4/1.5
04: Boundary 1.5/1.6
05: Boundary 1.6/1.7
06: Boundary 1.7/1.8
07: Boundary 1.8/1.9
08: Boundary 1.9/1.10
09: Boundary 1.10/1.11
10: Boundary 1.11/1.12
11: Boundary 1.12/1.13
12: Boundary 1.13/1.14a
13: Boundary 1.14a/-
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
ENST00000358625
1
ENSE00001422154
chr9:
137001210-137001322
113
WDR5_HUMAN
-
0
0
-
-
1.2b
ENST00000358625
2b
ENSE00001399325
chr9:
137004942-137005080
139
WDR5_HUMAN
1-27
27
0
-
-
1.3
ENST00000358625
3
ENSE00001378987
chr9:
137005825-137005933
109
WDR5_HUMAN
28-64
37
2
A:32-64
B:32-64
33
33
1.4
ENST00000358625
4
ENSE00001370072
chr9:
137006632-137006705
74
WDR5_HUMAN
64-88
25
2
A:64-88
B:64-88
25
25
1.5
ENST00000358625
5
ENSE00001422107
chr9:
137007071-137007160
90
WDR5_HUMAN
89-118
30
2
A:89-118
B:89-118
30
30
1.6
ENST00000358625
6
ENSE00001415339
chr9:
137007455-137007544
90
WDR5_HUMAN
119-148
30
2
A:119-148
B:119-148
30
30
1.7
ENST00000358625
7
ENSE00001416091
chr9:
137007758-137007841
84
WDR5_HUMAN
149-176
28
2
A:149-176
B:149-176
28
28
1.8
ENST00000358625
8
ENSE00001401373
chr9:
137013410-137013465
56
WDR5_HUMAN
177-195
19
2
A:177-195
B:177-195
19
19
1.9
ENST00000358625
9
ENSE00001430459
chr9:
137017105-137017151
47
WDR5_HUMAN
195-211
17
2
A:195-209
B:195-209
15
15
1.10
ENST00000358625
10
ENSE00001411527
chr9:
137019588-137019663
76
WDR5_HUMAN
211-236
26
2
A:215-236
B:215-236
22
22
1.11
ENST00000358625
11
ENSE00001429531
chr9:
137020462-137020495
34
WDR5_HUMAN
236-247
12
2
A:236-247
B:236-247
12
12
1.12
ENST00000358625
12
ENSE00001431152
chr9:
137020815-137020889
75
WDR5_HUMAN
248-272
25
2
A:248-272
B:248-272
25
25
1.13
ENST00000358625
13
ENSE00001417345
chr9:
137021628-137021715
88
WDR5_HUMAN
273-302
30
2
A:273-302
B:273-302
30
30
1.14a
ENST00000358625
14a
ENSE00001833493
chr9:
137023015-137025090
2076
WDR5_HUMAN
302-334
33
2
A:302-334
B:302-334
33
33
[
close EXON info
]
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d3psla_ (A:)
1b: SCOP_d3pslb_ (B:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
7-bladed beta-propeller
(245)
Superfamily
:
WD40 repeat-like
(95)
Family
:
automated matches
(36)
Protein domain
:
automated matches
(36)
Human (Homo sapiens) [TaxId: 9606]
(34)
1a
d3psla_
A:
1b
d3pslb_
B:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(1, 14)
Info
all PFAM domains
1a: PFAM_WD40_3pslB01 (B:291-331)
1b: PFAM_WD40_3pslB02 (B:291-331)
1c: PFAM_WD40_3pslB03 (B:291-331)
1d: PFAM_WD40_3pslB04 (B:291-331)
1e: PFAM_WD40_3pslB05 (B:291-331)
1f: PFAM_WD40_3pslB06 (B:291-331)
1g: PFAM_WD40_3pslB07 (B:291-331)
1h: PFAM_WD40_3pslB08 (B:291-331)
1i: PFAM_WD40_3pslB09 (B:291-331)
1j: PFAM_WD40_3pslB10 (B:291-331)
1k: PFAM_WD40_3pslB11 (B:291-331)
1l: PFAM_WD40_3pslB12 (B:291-331)
1m: PFAM_WD40_3pslB13 (B:291-331)
1n: PFAM_WD40_3pslB14 (B:291-331)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Beta_propeller
(192)
Family
:
WD40
(64)
Homo sapiens (Human)
(18)
1a
WD40-3pslB01
B:291-331
1b
WD40-3pslB02
B:291-331
1c
WD40-3pslB03
B:291-331
1d
WD40-3pslB04
B:291-331
1e
WD40-3pslB05
B:291-331
1f
WD40-3pslB06
B:291-331
1g
WD40-3pslB07
B:291-331
1h
WD40-3pslB08
B:291-331
1i
WD40-3pslB09
B:291-331
1j
WD40-3pslB10
B:291-331
1k
WD40-3pslB11
B:291-331
1l
WD40-3pslB12
B:291-331
1m
WD40-3pslB13
B:291-331
1n
WD40-3pslB14
B:291-331
[
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
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 (203 KB)
Header - Asym.Unit
Biol.Unit 1 (99 KB)
Header - Biol.Unit 1
Biol.Unit 2 (101 KB)
Header - Biol.Unit 2
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
3PSL
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help