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1X23
Asym. Unit
Info
Asym.Unit (116 KB)
Biol.Unit 1 (30 KB)
Biol.Unit 2 (30 KB)
Biol.Unit 3 (29 KB)
Biol.Unit 4 (29 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF UBCH5C
Authors
:
M. Nakanishi, N. Teshima, T. Mizushima, S. Murata, K. Tanaka, T. Yamane
Date
:
19 Apr 05 (Deposition) - 03 May 05 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.85
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Keywords
:
Ubiquitin Conjugating Enzyme, Ubiquitin, E2, Ligase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Nakanishi, N. Teshima, T. Mizushima, S. Murata, K. Tanaka, T. Yamane
Crystal Structure Of Ubch5C
To Be Published
(for further references see the
PDB file header
)
[
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Hetero Components
(0, 0)
Info
All Hetero Components
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Sorry, no Info available
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Sites
(0, 0)
Info
All Sites
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Sorry, no Info available
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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Sorry, no Info available
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PROSITE Patterns/Profiles
(2, 8)
Info
All PROSITE Patterns/Profiles
1: UBIQUITIN_CONJUGAT_2 (A:4-136,B:4-136,C:4-136,D:4-136)
2: UBIQUITIN_CONJUGAT_1 (A:74-89,B:74-89,C:74-89,D:74-89)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
UBIQUITIN_CONJUGAT_2
PS50127
Ubiquitin-conjugating enzymes family profile.
UB2D3_HUMAN
4-136
4
A:4-136
B:4-136
C:4-136
D:4-136
2
UBIQUITIN_CONJUGAT_1
PS00183
Ubiquitin-conjugating enzymes active site.
UB2D3_HUMAN
74-89
4
A:74-89
B:74-89
C:74-89
D:74-89
[
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Exons
(7, 28)
Info
All Exons
Exon 1.3d (A:1-8 | B:1-8 | C:1-8 | D:1-8)
Exon 1.6c (A:9-30 | B:9-30 | C:9-30 | D:9-30)
Exon 1.7b (A:30-40 | B:30-40 | C:30-40 | D:30...)
Exon 1.9c (A:41-66 | B:41-66 | C:41-66 | D:41...)
Exon 1.9l (A:67-102 | B:67-102 | C:67-102 | D...)
Exon 1.10b (A:102-133 | B:102-133 | C:102-133 ...)
Exon 1.12n (A:133-147 | B:133-147 | C:133-147 ...)
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All Exon Boundaries
1: Boundary 1.2f/1.3d
2: Boundary 1.3d/1.6c
3: Boundary 1.6c/1.7b
4: Boundary 1.7b/1.9c
5: Boundary 1.9c/1.9l
6: Boundary 1.9l/1.10b
7: Boundary 1.10b/1.12n
8: Boundary 1.12n/-
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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
1.2f
ENST00000394804
2f
ENSE00001519644
chr4:
103749105-103748749
357
UB2D3_HUMAN
-
0
0
-
-
1.3d
ENST00000394804
3d
ENSE00001519643
chr4:
103748001-103747642
360
UB2D3_HUMAN
1-8
8
4
A:1-8
B:1-8
C:1-8
D:1-8
8
8
8
8
1.6c
ENST00000394804
6c
ENSE00001606620
chr4:
103731012-103730949
64
UB2D3_HUMAN
9-30
22
4
A:9-30
B:9-30
C:9-30
D:9-30
22
22
22
22
1.7b
ENST00000394804
7b
ENSE00001282316
chr4:
103730860-103730829
32
UB2D3_HUMAN
30-40
11
4
A:30-40
B:30-40
C:30-40
D:30-40
11
11
11
11
1.9c
ENST00000394804
9c
ENSE00001646734
chr4:
103723795-103723718
78
UB2D3_HUMAN
41-66
26
4
A:41-66
B:41-66
C:41-66
D:41-66
26
26
26
26
1.9l
ENST00000394804
9l
ENSE00002170004
chr4:
103722716-103722611
106
UB2D3_HUMAN
67-102
36
4
A:67-102
B:67-102
C:67-102
D:67-102
36
36
36
36
1.10b
ENST00000394804
10b
ENSE00001645140
chr4:
103720657-103720564
94
UB2D3_HUMAN
102-133
32
4
A:102-133
B:102-133
C:102-133
D:102-133
32
32
32
32
1.12n
ENST00000394804
12n
ENSE00001703317
chr4:
103718617-103717134
1484
UB2D3_HUMAN
133-147
15
4
A:133-147
B:133-147
C:133-147
D:133-147
15
15
15
15
[
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SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d1x23b_ (B:)
1b: SCOP_d1x23c_ (C:)
1c: SCOP_d1x23d_ (D:)
2a: SCOP_d1x23a1 (A:1-147)
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Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
UBC-like
(176)
Superfamily
:
UBC-like
(176)
Family
:
UBC-related
(135)
Protein domain
:
automated matches
(40)
Human (Homo sapiens) [TaxId: 9606]
(25)
1a
d1x23b_
B:
1b
d1x23c_
C:
1c
d1x23d_
D:
Protein domain
:
Ubiquitin conjugating enzyme, UBC
(84)
Human (Homo sapiens), E2 D3 [TaxId: 9606]
(3)
2a
d1x23a1
A:1-147
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CATH Domains
(0, 0)
Info
all CATH domains
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_UQ_con_1x23D01 (D:5-142)
1b: PFAM_UQ_con_1x23D02 (D:5-142)
1c: PFAM_UQ_con_1x23D03 (D:5-142)
1d: PFAM_UQ_con_1x23D04 (D:5-142)
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Clan
:
UBC
(69)
Family
:
UQ_con
(55)
Homo sapiens (Human)
(36)
1a
UQ_con-1x23D01
D:5-142
1b
UQ_con-1x23D02
D:5-142
1c
UQ_con-1x23D03
D:5-142
1d
UQ_con-1x23D04
D:5-142
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Asym.Unit (116 KB)
Header - Asym.Unit
Biol.Unit 1 (30 KB)
Header - Biol.Unit 1
Biol.Unit 2 (30 KB)
Header - Biol.Unit 2
Biol.Unit 3 (29 KB)
Header - Biol.Unit 3
Biol.Unit 4 (29 KB)
Header - Biol.Unit 4
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