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2VPG
Asym. Unit
Info
Asym.Unit (43 KB)
Biol.Unit 1 (20 KB)
Biol.Unit 2 (20 KB)
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(1)
Title
:
DECODING OF METHYLATED HISTONE H3 TAIL BY THE PYGO-BCL9 WNT SIGNALING COMPLEX
Authors
:
M. Fiedler, M. J. Sanchez-Barrena, M. Nekrasov, J. Mieszczanek, V. Rybin, J. Muller, P. Evans, M. Bienz
Date
:
27 Feb 08 (Deposition) - 17 Jun 08 (Release) - 06 Nov 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.60
Chains
:
Asym. Unit : A,B,C,D,P,R
Biol. Unit 1: A,B,P (1x)
Biol. Unit 2: C,D,R (1x)
Keywords
:
Gene Regulation, Wnt Signaling Pathway, Wnt Signaling Complex, Chromosomal Rearrangement, Signaling Protein, Bcl9 Hd1 Domain, Hpygo1 Phd Domain, Proto-Oncogene, Phosphoprotein, Histone H3K4Me2, Zinc, Nucleus, Zinc-Finger, Metal-Binding
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Fiedler, M. J. Sanchez-Barrena, M. Nekrasov, J. Mieszczanek, V. Rybin, J. Muller, P. Evans, M. Bienz
Decoding Of Methylated Histone H3 Tail By The Pygo- Bcl9 Wnt Signaling Complex.
Mol. Cell V. 30 507 2008
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Hetero Components
(4, 9)
Info
All Hetero Components
1a: NG,NG-DIMETHYL-L-ARGININE (DA2a)
1b: NG,NG-DIMETHYL-L-ARGININE (DA2b)
2a: GLYCEROL (GOLa)
3a: N-DIMETHYL-LYSINE (MLYa)
3b: N-DIMETHYL-LYSINE (MLYb)
4a: ZINC ION (ZNa)
4b: ZINC ION (ZNb)
4c: ZINC ION (ZNc)
4d: ZINC ION (ZNd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
DA2
2
Mod. Amino Acid
NG,NG-DIMETHYL-L-ARGININE
2
GOL
1
Ligand/Ion
GLYCEROL
3
MLY
2
Mod. Amino Acid
N-DIMETHYL-LYSINE
4
ZN
4
Ligand/Ion
ZINC ION
[
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Sites
(5, 5)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLN A:354 , HIS A:368 , HOH A:2092 , HOH A:2093 , GLY C:336 , ASN C:348
BINDING SITE FOR RESIDUE GOL A1399
2
AC2
SOFTWARE
CYS C:343 , CYS C:346 , HIS C:368 , CYS C:371
BINDING SITE FOR RESIDUE ZN C1399
3
AC3
SOFTWARE
CYS C:359 , CYS C:363 , CYS C:392 , CYS C:395
BINDING SITE FOR RESIDUE ZN C1400
4
AC4
SOFTWARE
CYS A:343 , CYS A:346 , HIS A:368 , CYS A:371
BINDING SITE FOR RESIDUE ZN A1400
5
AC5
SOFTWARE
CYS A:359 , CYS A:363 , CYS A:392 , CYS A:395
BINDING SITE FOR RESIDUE ZN A1401
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: ZF_PHD_2 (A:340-398,C:340-398)
2: ZF_PHD_1 (A:343-395,C:343-395)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ZF_PHD_2
PS50016
Zinc finger PHD-type profile.
PYGO1_HUMAN
340-398
2
A:340-398
C:340-398
2
ZF_PHD_1
PS01359
Zinc finger PHD-type signature.
PYGO1_HUMAN
343-395
2
A:343-395
C:343-395
[
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Exons
(3, 6)
Info
All Exons
Exon 1.7 (B:174-187 | D:174-187)
Exon 1.8 (B:187-203 | D:187-203)
Exon 2.2b (P:1-7 | R:1-7)
View:
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All Exon Boundaries
1: Boundary 1.6b/1.7
2: Boundary 1.7/1.8
3: Boundary 1.8/1.9
4: Boundary -/2.2b
5: Boundary 2.2b/-
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
ENST00000234739
1
ENSE00001344656
chr1:
147013182-147013444
263
BCL9_HUMAN
-
0
0
-
-
1.3
ENST00000234739
3
ENSE00001344647
chr1:
147076570-147076704
135
BCL9_HUMAN
-
0
0
-
-
1.4
ENST00000234739
4
ENSE00001344643
chr1:
147078577-147078659
83
BCL9_HUMAN
-
0
0
-
-
1.5b
ENST00000234739
5b
ENSE00001156130
chr1:
147083377-147083688
312
BCL9_HUMAN
1-18
18
0
-
-
1.6b
ENST00000234739
6b
ENSE00000824226
chr1:
147084682-147084998
317
BCL9_HUMAN
18-124
107
0
-
-
1.7
ENST00000234739
7
ENSE00000787540
chr1:
147086226-147086415
190
BCL9_HUMAN
124-187
64
2
B:174-187
D:174-187
14
14
1.8
ENST00000234739
8
ENSE00000787541
chr1:
147087603-147087702
100
BCL9_HUMAN
187-220
34
2
B:187-203
D:187-203
17
17
1.9
ENST00000234739
9
ENSE00000787543
chr1:
147090622-147092863
2242
BCL9_HUMAN
221-968
748
0
-
-
1.10
ENST00000234739
10
ENSE00000903093
chr1:
147094072-147094332
261
BCL9_HUMAN
968-1055
88
0
-
-
1.11
ENST00000234739
11
ENSE00001156122
chr1:
147095643-147098017
2375
BCL9_HUMAN
1055-1426
372
0
-
-
2.2b
ENST00000359303
2b
ENSE00001974165
chr6:
27858570-27858160
411
H31_HUMAN
1-136
136
2
P:1-7
R:1-7
7
7
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SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
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Sorry, no Info available
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CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
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Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_PHD_2vpgC01 (C:342-398)
1b: PFAM_PHD_2vpgC02 (C:342-398)
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Clans
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)
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)
Clan
:
zf-FYVE-PHD
(57)
Family
:
PHD
(44)
Homo sapiens (Human)
(33)
1a
PHD-2vpgC01
C:342-398
1b
PHD-2vpgC02
C:342-398
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Asymmetric Unit 1
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Asym.Unit (43 KB)
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