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2HD5
Asym. Unit
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Asym.Unit (72 KB)
Biol.Unit 1 (67 KB)
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(1)
Title
:
USP2 IN COMPLEX WITH UBIQUITIN
Authors
:
M. Renatus, M. Kroemer
Date
:
20 Jun 06 (Deposition) - 15 Aug 06 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.85
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Deubiquitinating Protease, Cysteine Protease, Substrate Enzyme Complex, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Renatus, S. G. Parrado, A. D'Arcy, U. Eidhoff, B. Gerhartz, U. Hassiepen, B. Pierrat, R. Riedl, D. Vinzenz, S. Worpenberg, M. Kroemer
Structural Basis Of Ubiquitin Recognition By The Deubiquitinating Protease Usp2.
Structure V. 14 1293 2006
(for further references see the
PDB file header
)
[
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Hetero Components
(1, 1)
Info
All Hetero Components
1a: ZINC ION (ZNa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ZN
1
Ligand/Ion
ZINC ION
[
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Sites
(1, 1)
Info
All Sites
1: AC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
CYS A:334 , CYS A:337 , CYS A:381 , CYS A:384
BINDING SITE FOR RESIDUE ZN A 201
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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]
PROSITE Patterns/Profiles
(5, 5)
Info
All PROSITE Patterns/Profiles
1: UBIQUITIN_2 (B:1-76,B:1-76,-|-|B:1-76|-,-|-|-|-...)
2: UBIQUITIN_1 (B:27-52,B:27-52,-|-|B:27-52|-,-|-|...)
3: USP_3 (A:214-521)
4: USP_1 (A:215-230)
5: USP_2 (A:448-465)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
UBIQUITIN_2
PS50053
Ubiquitin domain profile.
RS27A_BOVIN
1-76
1
B:1-76
RL40_BOVIN
1-76
1
B:1-76
UBB_BOVIN
1-76
77-152
153-228
229-304
1
-
-
B:1-76
-
UBC_BOVIN
1-76
77-152
153-228
229-304
305-380
381-456
457-532
533-608
609-684
1
-
-
-
-
-
-
-
-
B:1-76
2
UBIQUITIN_1
PS00299
Ubiquitin domain signature.
RS27A_BOVIN
27-52
1
B:27-52
RL40_BOVIN
27-52
1
B:27-52
UBB_BOVIN
27-52
103-128
179-204
255-280
1
-
-
B:27-52
-
UBC_BOVIN
27-52
103-128
179-204
255-280
331-356
407-432
483-508
559-584
635-660
1
-
-
-
-
-
-
-
-
B:27-52
3
USP_3
PS50235
Ubiquitin specific protease (USP) domain profile.
UBP2_HUMAN
267-599
1
A:214-521
4
USP_1
PS00972
Ubiquitin specific protease (USP) domain signature 1.
UBP2_HUMAN
268-283
1
A:215-230
5
USP_2
PS00973
Ubiquitin specific protease (USP) domain signature 2.
UBP2_HUMAN
541-558
1
A:448-465
[
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]
Exons
(11, 11)
Info
All Exons
Exon 1.7a (A:211-222)
Exon 1.8 (A:223-259 (gaps))
Exon 1.9a (A:259-292)
Exon 1.9c (A:292-313P (gaps))
Exon 1.10a (A:313P-322)
Exon 1.11 (A:322-355)
Exon 1.12b (A:358-379)
Exon 1.13 (A:380-405)
Exon 1.14 (A:405-442 (gaps))
Exon 1.15 (A:442-484 (gaps))
Exon 1.16b (A:484-521 (gaps))
View:
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All Exon Boundaries
01: Boundary 1.4c/1.7a
02: Boundary 1.7a/1.8
03: Boundary 1.8/1.9a
04: Boundary 1.9a/1.9c
05: Boundary 1.9c/1.10a
06: Boundary 1.10a/1.11
07: Boundary 1.11/1.12b
08: Boundary 1.12b/1.13
09: Boundary 1.13/1.14
10: Boundary 1.14/1.15
11: Boundary 1.15/1.16b
12: Boundary 1.16b/-
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
ENST00000260187
1a
ENSE00001206641
chr11:
119252436-119252183
254
UBP2_HUMAN
-
0
0
-
-
1.4c
ENST00000260187
4c
ENSE00001103488
chr11:
119244231-119243417
815
UBP2_HUMAN
1-258
258
0
-
-
1.7a
ENST00000260187
7a
ENSE00000796206
chr11:
119230944-119230894
51
UBP2_HUMAN
259-275
17
1
A:211-222
12
1.8
ENST00000260187
8
ENSE00000930899
chr11:
119230370-119230247
124
UBP2_HUMAN
276-317
42
1
A:223-259 (gaps)
42
1.9a
ENST00000260187
9a
ENSE00000748560
chr11:
119230052-119229941
112
UBP2_HUMAN
317-354
38
1
A:259-292
38
1.9c
ENST00000260187
9c
ENSE00000930897
chr11:
119229844-119229734
111
UBP2_HUMAN
354-391
38
1
A:292-313P (gaps)
38
1.10a
ENST00000260187
10a
ENSE00000748557
chr11:
119229547-119229483
65
UBP2_HUMAN
391-413
23
1
A:313P-322
23
1.11
ENST00000260187
11
ENSE00000748556
chr11:
119228962-119228859
104
UBP2_HUMAN
413-447
35
1
A:322-355
34
1.12b
ENST00000260187
12b
ENSE00000748555
chr11:
119228771-119228691
81
UBP2_HUMAN
448-474
27
1
A:358-379
22
1.13
ENST00000260187
13
ENSE00000930893
chr11:
119228545-119228467
79
UBP2_HUMAN
475-501
27
1
A:380-405
27
1.14
ENST00000260187
14
ENSE00000796207
chr11:
119228300-119228193
108
UBP2_HUMAN
501-537
37
1
A:405-442 (gaps)
39
1.15
ENST00000260187
15
ENSE00000796208
chr11:
119228017-119227897
121
UBP2_HUMAN
537-577
41
1
A:442-484 (gaps)
43
1.16b
ENST00000260187
16b
ENSE00001128464
chr11:
119227632-119225926
1707
UBP2_HUMAN
577-605
29
1
A:484-521 (gaps)
38
[
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]
SCOP Domains
(2, 2)
Info
All SCOP Domains
1a: SCOP_d2hd5b_ (B:)
2a: SCOP_d2hd5a1 (A:211-521)
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)
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)
(
)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
beta-Grasp (ubiquitin-like)
(1032)
Superfamily
:
Ubiquitin-like
(546)
Family
:
Ubiquitin-related
(337)
Protein domain
:
Ubiquitin
(162)
Cow (Bos taurus) [TaxId: 9913]
(24)
1a
d2hd5b_
B:
Fold
:
Cysteine proteinases
(392)
Superfamily
:
Cysteine proteinases
(392)
Family
:
Ubiquitin carboxyl-terminal hydrolase, UCH
(14)
Protein domain
:
Ubiquitin carboxyl-terminal hydrolase 2, USP2
(2)
Human (Homo sapiens) [TaxId: 9606]
(2)
2a
d2hd5a1
A:211-521
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_2hd5B00 (B:1-76)
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)
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Topologies
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(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Roll
(3276)
Topology
:
Ubiquitin-like (UB roll)
(674)
Homologous Superfamily
:
Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1
(286)
Human (Homo sapiens)
(177)
1a
2hd5B00
B:1-76
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Pfam Domains
(0, 0)
Info
all PFAM domains
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