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2YDR
Asym. Unit
Info
Asym.Unit (107 KB)
Biol.Unit 1 (98 KB)
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(1)
Title
:
CPOGA D298N IN COMPLEX WITH P53-DERIVED O-GLCNAC PEPTIDE
Authors
:
M. Schimpl, V. S. Borodkin, L. J. Gray, D. M. F. Van Aalten
Date
:
24 Mar 11 (Deposition) - 14 Mar 12 (Release) - 14 Mar 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.75
Chains
:
Asym. Unit : A,P
Biol. Unit 1: A,P (1x)
Keywords
:
Hydrolase-Peptide Complex, Cell Cycle
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Schimpl, V. S. Borodkin, L. J. Gray, D. M. F. Van Aalten
Synergy Of Peptide And Sugar In O-Glcnacase Substrate Recognition.
Chem. Biol. V. 19 173 2012
[
close entry info
]
Hetero Components
(2, 19)
Info
All Hetero Components
1a: CADMIUM ION (CDa)
1b: CADMIUM ION (CDb)
1c: CADMIUM ION (CDc)
1d: CADMIUM ION (CDd)
1e: CADMIUM ION (CDe)
1f: CADMIUM ION (CDf)
1g: CADMIUM ION (CDg)
1h: CADMIUM ION (CDh)
1i: CADMIUM ION (CDi)
1j: CADMIUM ION (CDj)
1k: CADMIUM ION (CDk)
1l: CADMIUM ION (CDl)
1m: CADMIUM ION (CDm)
1n: CADMIUM ION (CDn)
1o: CADMIUM ION (CDo)
1p: CADMIUM ION (CDp)
1q: CADMIUM ION (CDq)
1r: CADMIUM ION (CDr)
2a: N-ACETYL-D-GLUCOSAMINE (NAGa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CD
18
Ligand/Ion
CADMIUM ION
2
NAG
1
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
close Hetero Component info
]
Sites
(19, 19)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LEU A:68 , GLU A:71 , GLU A:72 , HOH A:2008
BINDING SITE FOR RESIDUE CD A1620
02
AC2
SOFTWARE
GLU A:73 , GLU A:108 , ASP A:111
BINDING SITE FOR RESIDUE CD A1621
03
AC3
SOFTWARE
ASP A:112 , GLU A:550
BINDING SITE FOR RESIDUE CD A1622
04
AC4
SOFTWARE
ASP A:117 , GLU A:145 , GLU A:545
BINDING SITE FOR RESIDUE CD A1623
05
AC5
SOFTWARE
ASN A:138 , ASP A:139 , ASP A:268
BINDING SITE FOR RESIDUE CD A1624
06
AC6
SOFTWARE
ASP A:150 , ASP A:252
BINDING SITE FOR RESIDUE CD A1625
07
AC7
SOFTWARE
GLU A:170 , HOH A:2005
BINDING SITE FOR RESIDUE CD A1626
08
AC8
SOFTWARE
GLU A:272 , HIS A:276 , HOH A:2046 , HOH A:2047
BINDING SITE FOR RESIDUE CD A1627
09
AC9
SOFTWARE
GLU A:282 , ASP A:286 , GLU A:588
BINDING SITE FOR RESIDUE CD A1628
10
BC1
SOFTWARE
GLU A:362 , ASP A:424
BINDING SITE FOR RESIDUE CD A1629
11
BC2
SOFTWARE
HIS A:413
BINDING SITE FOR RESIDUE CD A1630
12
BC3
SOFTWARE
LYS A:404 , HIS A:433 , HOH A:2096
BINDING SITE FOR RESIDUE CD A1631
13
BC4
SOFTWARE
GLU A:51 , ASN A:450 , ASP A:452
BINDING SITE FOR RESIDUE CD A1632
14
BC5
SOFTWARE
GLU A:271 , ASN A:275 , ARG A:313 , GLU A:581
BINDING SITE FOR RESIDUE CD A1633
15
BC6
SOFTWARE
ASP A:58 , GLU A:272 , HOH A:2006
BINDING SITE FOR RESIDUE CD A1634
16
BC7
SOFTWARE
GLU A:54 , ASP A:266 , LYS A:306
BINDING SITE FOR RESIDUE CD A1635
17
BC8
SOFTWARE
ASP A:474 , ARG A:531 , GLU A:534
BINDING SITE FOR RESIDUE CD A1636
18
BC9
SOFTWARE
GLU A:545 , GLU A:549
BINDING SITE FOR RESIDUE CD A1637
19
CC1
SOFTWARE
GLY A:187 , PHE A:188 , TYR A:189 , LYS A:218 , ASP A:297 , TYR A:335 , THR A:366 , VAL A:370 , TRP A:394 , ASN A:396 , ASP A:401 , ASN A:429 , SER P:149
BINDING SITE FOR MONO-SACCHARIDE NAG P1153 BOUND TO SER P 149
[
close Site info
]
SAPs(SNPs)/Variants
(43, 43)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_044792 (L145M, chain P, )
02: VAR_005889 (L145P, chain P, )
03: VAR_005890 (L145Q, chain P, )
04: VAR_044793 (L145R, chain P, )
05: VAR_044794 (L145V, chain P, )
06: VAR_044795 (W146C, chain P, )
07: VAR_044796 (W146G, chain P, )
08: VAR_044797 (W146L, chain P, )
09: VAR_044798 (W146R, chain P, )
10: VAR_044799 (W146S, chain P, )
11: VAR_044800 (V147A, chain P, )
12: VAR_005891 (V147D, chain P, )
13: VAR_044801 (V147E, chain P, )
14: VAR_044802 (V147F, chain P, )
15: VAR_005892 (V147G, chain P, )
16: VAR_044803 (V147I, chain P, )
17: VAR_044804 (D148A, chain P, )
18: VAR_044805 (D148E, chain P, )
19: VAR_044806 (D148G, chain P, )
20: VAR_044807 (D148N, chain P, )
21: VAR_044808 (D148V, chain P, )
22: VAR_044809 (D148Y, chain P, )
23: VAR_044810 (S149F, chain P, )
24: VAR_005893 (S149P, chain P, )
25: VAR_044811 (S149T, chain P, )
26: VAR_044812 (T150A, chain P, )
27: VAR_044813 (T150I, chain P, )
28: VAR_044814 (T150K, chain P, )
29: VAR_044815 (T150N, chain P, )
30: VAR_044816 (T150P, chain P, )
31: VAR_044817 (T150R, chain P, )
32: VAR_005894 (P151A, chain P, )
33: VAR_044818 (P151H, chain P, )
34: VAR_044819 (P151L, chain P, )
35: VAR_044820 (P151R, chain P, )
36: VAR_005895 (P151S, chain P, )
37: VAR_005896 (P151T, chain P, )
38: VAR_044821 (P152A, chain P, )
39: VAR_005897 (P152L, chain P, )
40: VAR_044822 (P152Q, chain P, )
41: VAR_044823 (P152R, chain P, )
42: VAR_005898 (P152S, chain P, )
43: VAR_044824 (P152T, chain P, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_044792
L
145
M
P53_HUMAN
Unclassified
---
P
L
145
M
02
UniProt
VAR_005889
L
145
P
P53_HUMAN
Unclassified
---
P
L
145
P
03
UniProt
VAR_005890
L
145
Q
P53_HUMAN
Unclassified
---
P
L
145
Q
04
UniProt
VAR_044793
L
145
R
P53_HUMAN
Unclassified
---
P
L
145
R
05
UniProt
VAR_044794
L
145
V
P53_HUMAN
Unclassified
---
P
L
145
V
06
UniProt
VAR_044795
W
146
C
P53_HUMAN
Unclassified
---
P
W
146
C
07
UniProt
VAR_044796
W
146
G
P53_HUMAN
Unclassified
---
P
W
146
G
08
UniProt
VAR_044797
W
146
L
P53_HUMAN
Unclassified
---
P
W
146
L
09
UniProt
VAR_044798
W
146
R
P53_HUMAN
Unclassified
---
P
W
146
R
10
UniProt
VAR_044799
W
146
S
P53_HUMAN
Unclassified
---
P
W
146
S
11
UniProt
VAR_044800
V
147
A
P53_HUMAN
Unclassified
---
P
V
147
A
12
UniProt
VAR_005891
V
147
D
P53_HUMAN
Unclassified
---
P
V
147
D
13
UniProt
VAR_044801
V
147
E
P53_HUMAN
Unclassified
---
P
V
147
E
14
UniProt
VAR_044802
V
147
F
P53_HUMAN
Unclassified
---
P
V
147
F
15
UniProt
VAR_005892
V
147
G
P53_HUMAN
Unclassified
---
P
V
147
G
16
UniProt
VAR_044803
V
147
I
P53_HUMAN
Unclassified
---
P
V
147
I
17
UniProt
VAR_044804
D
148
A
P53_HUMAN
Unclassified
---
P
D
148
A
18
UniProt
VAR_044805
D
148
E
P53_HUMAN
Unclassified
---
P
D
148
E
19
UniProt
VAR_044806
D
148
G
P53_HUMAN
Unclassified
---
P
D
148
G
20
UniProt
VAR_044807
D
148
N
P53_HUMAN
Unclassified
---
P
D
148
N
21
UniProt
VAR_044808
D
148
V
P53_HUMAN
Unclassified
---
P
D
148
V
22
UniProt
VAR_044809
D
148
Y
P53_HUMAN
Unclassified
---
P
D
148
Y
23
UniProt
VAR_044810
S
149
F
P53_HUMAN
Unclassified
---
P
S
149
F
24
UniProt
VAR_005893
S
149
P
P53_HUMAN
Unclassified
---
P
S
149
P
25
UniProt
VAR_044811
S
149
T
P53_HUMAN
Unclassified
---
P
S
149
T
26
UniProt
VAR_044812
T
150
A
P53_HUMAN
Unclassified
---
P
T
150
A
27
UniProt
VAR_044813
T
150
I
P53_HUMAN
Unclassified
---
P
T
150
I
28
UniProt
VAR_044814
T
150
K
P53_HUMAN
Unclassified
---
P
T
150
K
29
UniProt
VAR_044815
T
150
N
P53_HUMAN
Unclassified
---
P
T
150
N
30
UniProt
VAR_044816
T
150
P
P53_HUMAN
Unclassified
---
P
T
150
P
31
UniProt
VAR_044817
T
150
R
P53_HUMAN
Unclassified
---
P
T
150
R
32
UniProt
VAR_005894
P
151
A
P53_HUMAN
Unclassified
---
P
P
151
A
33
UniProt
VAR_044818
P
151
H
P53_HUMAN
Unclassified
---
P
P
151
H
34
UniProt
VAR_044819
P
151
L
P53_HUMAN
Unclassified
---
P
P
151
L
35
UniProt
VAR_044820
P
151
R
P53_HUMAN
Unclassified
---
P
P
151
R
36
UniProt
VAR_005895
P
151
S
P53_HUMAN
Disease (LFS)
28934874
P
P
151
S
37
UniProt
VAR_005896
P
151
T
P53_HUMAN
Disease (LFS)
---
P
P
151
T
38
UniProt
VAR_044821
P
152
A
P53_HUMAN
Unclassified
---
P
P
152
A
39
UniProt
VAR_005897
P
152
L
P53_HUMAN
Disease (LFS)
---
P
P
152
L
40
UniProt
VAR_044822
P
152
Q
P53_HUMAN
Unclassified
---
P
P
152
Q
41
UniProt
VAR_044823
P
152
R
P53_HUMAN
Unclassified
---
P
P
152
R
42
UniProt
VAR_005898
P
152
S
P53_HUMAN
Unclassified
---
P
P
152
S
43
UniProt
VAR_044824
P
152
T
P53_HUMAN
Unclassified
---
P
P
152
T
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
close PROSITE info
]
Exons
(1, 1)
Info
All Exons
Exon 1.5d (P:145-152)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.4b/1.5d
2: Boundary 1.5d/1.6a
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
ENST00000269305
1a
ENSE00001146308
chr17:
7590856-7590695
162
P53_HUMAN
-
0
0
-
-
1.3a
ENST00000269305
3a
ENSE00002194362
chr17:
7579940-7579839
102
P53_HUMAN
1-25
25
0
-
-
1.3d
ENST00000269305
3d
ENSE00001710434
chr17:
7579721-7579700
22
P53_HUMAN
25-32
8
0
-
-
1.4b
ENST00000269305
4b
ENSE00001718735
chr17:
7579590-7579312
279
P53_HUMAN
33-125
93
0
-
-
1.5d
ENST00000269305
5d
ENSE00001255919
chr17:
7578554-7578371
184
P53_HUMAN
126-187
62
1
P:145-152
8
1.6a
ENST00000269305
6a
ENSE00001255912
chr17:
7578289-7578177
113
P53_HUMAN
187-224
38
0
-
-
1.7b
ENST00000269305
7b
ENSE00001665758
chr17:
7577608-7577499
110
P53_HUMAN
225-261
37
0
-
-
1.8
ENST00000269305
8
ENSE00001789298
chr17:
7577155-7577019
137
P53_HUMAN
261-307
47
0
-
-
1.9
ENST00000269305
9
ENSE00002149110
chr17:
7576926-7576853
74
P53_HUMAN
307-331
25
0
-
-
1.11
ENST00000269305
11
ENSE00001728015
chr17:
7574033-7573927
107
P53_HUMAN
332-367
36
0
-
-
1.12d
ENST00000269305
12d
ENSE00001757276
chr17:
7573008-7571720
1289
P53_HUMAN
367-393
27
0
-
-
[
close EXON info
]
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
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]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
close Pfam info
]
Atom Selection
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Nucleic
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Asym.Unit (107 KB)
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