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1Y8X
Asym. Unit
Info
Asym.Unit (48 KB)
Biol.Unit 1 (44 KB)
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(1)
Title
:
STRUCTURAL BASIS FOR RECRUITMENT OF UBC12 BY AN E2-BINDING DOMAIN IN NEDD8'S E1
Authors
:
D. T. Huang, A. Paydar, M. Zhuang, M. B. Waddell, J. M. Holton, B. A. Schulman
Date
:
13 Dec 04 (Deposition) - 08 Feb 05 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.40
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Ubiquitin-Conjugating Enzyme E2 M, Ligase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. T. Huang, A. Paydar, M. Zhuang, M. B. Waddell, J. M. Holton, B. A. Schulman
Structural Basis For Recruitment Of Ubc12 By An E2 Binding Domain In Nedd8'S E1.
Mol. Cell V. 17 341 2005
(for further references see the
PDB file header
)
[
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]
Hetero Components
(1, 5)
Info
All Hetero Components
1a: SELENOMETHIONINE (MSEa)
1b: SELENOMETHIONINE (MSEb)
1c: SELENOMETHIONINE (MSEc)
1d: SELENOMETHIONINE (MSEd)
1e: SELENOMETHIONINE (MSEe)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MSE
5
Mod. Amino Acid
SELENOMETHIONINE
[
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Sites
(0, 0)
Info
All Sites
View:
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Label:
Sorry, no Info available
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Label:
Sorry, no Info available
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PROSITE Patterns/Profiles
(2, 2)
Info
All PROSITE Patterns/Profiles
1: UBIQUITIN_CONJUGAT_2 (A:32-162)
2: UBIQUITIN_CONJUGAT_1 (A:100-115)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
UBIQUITIN_CONJUGAT_2
PS50127
Ubiquitin-conjugating enzymes family profile.
UBC12_HUMAN
32-162
1
A:32-162
2
UBIQUITIN_CONJUGAT_1
PS00183
Ubiquitin-conjugating enzymes active site.
UBC12_HUMAN
100-115
1
A:100-115
[
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]
Exons
(10, 10)
Info
All Exons
Exon 1.1 (A:24-37 (gaps))
Exon 1.2 (A:37-68)
Exon 1.3 (A:69-81)
Exon 1.4 (A:82-116)
Exon 1.5 (A:116-137)
Exon 1.6 (A:138-183)
Exon 2.15 (B:349-374)
Exon 2.16 (B:374-395)
Exon 2.17 (B:396-414)
Exon 2.18b (B:414-440)
View:
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All Exon Boundaries
01: Boundary -/1.1
02: Boundary 1.1/1.2
03: Boundary 1.2/1.3
04: Boundary 1.3/1.4
05: Boundary 1.4/1.5
06: Boundary 1.5/1.6
07: Boundary 1.6/-
08: Boundary 2.14/2.15
09: Boundary 2.15/2.16
10: Boundary 2.16/2.17
11: Boundary 2.17/2.18b
12: Boundary 2.18b/-
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
ENST00000253023
1
ENSE00000892667
chr19:
59070343-59069640
704
UBC12_HUMAN
1-37
37
1
A:24-37 (gaps)
16
1.2
ENST00000253023
2
ENSE00000655803
chr19:
59068524-59068430
95
UBC12_HUMAN
37-68
32
1
A:37-68
32
1.3
ENST00000253023
3
ENSE00000655805
chr19:
59068297-59068259
39
UBC12_HUMAN
69-81
13
1
A:69-81
13
1.4
ENST00000253023
4
ENSE00000655806
chr19:
59068157-59068054
104
UBC12_HUMAN
82-116
35
1
A:82-116
35
1.5
ENST00000253023
5
ENSE00000655807
chr19:
59067746-59067683
64
UBC12_HUMAN
116-137
22
1
A:116-137
22
1.6
ENST00000253023
6
ENSE00000892668
chr19:
59067596-59067080
517
UBC12_HUMAN
138-183
46
1
A:138-183
46
2.1a
ENST00000361055
1a
ENSE00001864869
chr3:
69129559-69129485
75
UBA3_HUMAN
1-7
7
0
-
-
2.2a
ENST00000361055
2a
ENSE00001417479
chr3:
69129304-69129263
42
UBA3_HUMAN
7-21
15
0
-
-
2.3a
ENST00000361055
3a
ENSE00000966869
chr3:
69127069-69126949
121
UBA3_HUMAN
21-61
41
0
-
-
2.4a
ENST00000361055
4a
ENSE00001377164
chr3:
69124661-69124581
81
UBA3_HUMAN
62-88
27
0
-
-
2.5a
ENST00000361055
5a
ENSE00001376644
chr3:
69120768-69120686
83
UBA3_HUMAN
89-116
28
0
-
-
2.6
ENST00000361055
6
ENSE00000966872
chr3:
69117159-69117079
81
UBA3_HUMAN
116-143
28
0
-
-
2.7a
ENST00000361055
7a
ENSE00000966873
chr3:
69113262-69113219
44
UBA3_HUMAN
143-158
16
0
-
-
2.8
ENST00000361055
8
ENSE00000966874
chr3:
69112654-69112590
65
UBA3_HUMAN
158-179
22
0
-
-
2.9
ENST00000361055
9
ENSE00000966875
chr3:
69112288-69112133
156
UBA3_HUMAN
180-231
52
0
-
-
2.10
ENST00000361055
10
ENSE00000966876
chr3:
69111330-69111228
103
UBA3_HUMAN
232-266
35
0
-
-
2.11a
ENST00000361055
11a
ENSE00000966877
chr3:
69111078-69110965
114
UBA3_HUMAN
266-304
39
0
-
-
2.12
ENST00000361055
12
ENSE00000966878
chr3:
69106460-69106407
54
UBA3_HUMAN
304-322
19
0
-
-
2.13
ENST00000361055
13
ENSE00001656120
chr3:
69105966-69105930
37
UBA3_HUMAN
322-334
13
0
-
-
2.14
ENST00000361055
14
ENSE00001685710
chr3:
69105844-69105763
82
UBA3_HUMAN
334-361
28
0
-
-
2.15
ENST00000361055
15
ENSE00001754233
chr3:
69105434-69105334
101
UBA3_HUMAN
362-395
34
1
B:349-374
26
2.16
ENST00000361055
16
ENSE00001711956
chr3:
69105214-69105151
64
UBA3_HUMAN
395-416
22
1
B:374-395
22
2.17
ENST00000361055
17
ENSE00001673741
chr3:
69105056-69105002
55
UBA3_HUMAN
417-435
19
1
B:396-414
19
2.18b
ENST00000361055
18b
ENSE00001518240
chr3:
69104676-69103881
796
UBA3_HUMAN
435-463
29
1
B:414-440
27
[
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SCOP Domains
(2, 2)
Info
All SCOP Domains
1a: SCOP_d1y8xa1 (A:27-183)
2a: SCOP_d1y8xb1 (B:349-440)
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)
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)
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)
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)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
UBC-like
(176)
Superfamily
:
UBC-like
(176)
Family
:
UBC-related
(135)
Protein domain
:
Ubiquitin conjugating enzyme, UBC
(84)
Human (Homo sapiens), E2 M [TaxId: 9606]
(2)
1a
d1y8xa1
A:27-183
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Activating enzymes of the ubiquitin-like proteins
(27)
Superfamily
:
Activating enzymes of the ubiquitin-like proteins
(27)
Family
:
Ubiquitin activating enzymes (UBA)
(21)
Protein domain
:
UBA3
(12)
Human (Homo sapiens) [TaxId: 9606]
(12)
2a
d1y8xb1
B:349-440
[
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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
(2, 2)
Info
all PFAM domains
1a: PFAM_UQ_con_1y8xA01 (A:33-168)
2a: PFAM_E2_bind_1y8xB01 (B:353-440)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
UBC
(69)
Family
:
UQ_con
(55)
Homo sapiens (Human)
(36)
1a
UQ_con-1y8xA01
A:33-168
Clan
:
no clan defined [family: E2_bind]
(5)
Family
:
E2_bind
(5)
Homo sapiens (Human)
(5)
2a
E2_bind-1y8xB01
B:353-440
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Asymmetric Unit 1
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