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2IO1
Asym. Unit
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Asym.Unit (164 KB)
Biol.Unit 1 (55 KB)
Biol.Unit 2 (56 KB)
Biol.Unit 3 (55 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN SENP2 IN COMPLEX WITH PRESUMO-3
Authors
:
D. Reverter, C. D. Lima
Date
:
09 Oct 06 (Deposition) - 14 Nov 06 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.60
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: E,F (1x)
Keywords
:
Sumo, Ubiquitin, Senp, Ulp, Complex, Protein Binding, Hydrolase
(Keyword Search:
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]
)
Reference
:
D. Reverter, C. D. Lima
Structural Basis For Senp2 Protease Interactions With Sumo Precursors And Conjugated Substrates.
Nat. Struct. Mol. Biol. V. 13 1060 2006
(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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Label:
Sorry, no Info available
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]
SAPs(SNPs)/Variants
(1, 3)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_052692 (P38S, chain B/D/F, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_052692
P
38
S
SUMO3_HUMAN
Polymorphism
1051311
B/D/F
P
38
S
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(2, 6)
Info
All PROSITE Patterns/Profiles
1: UBIQUITIN_2 (B:15-92,D:15-92,F:15-92)
2: ULP_PROTEASE (A:395-559,C:395-559,E:395-559)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
UBIQUITIN_2
PS50053
Ubiquitin domain profile.
SUMO3_HUMAN
15-92
3
B:15-92
D:15-92
F:15-92
2
ULP_PROTEASE
PS50600
Ubiquitin-like protease family profile.
SENP2_HUMAN
395-559
3
A:395-559
C:395-559
E:395-559
[
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Exons
(10, 30)
Info
All Exons
Exon 1.13b (A:367-370 | C:366-370 | E:367-370)
Exon 1.14b (A:371-414 | C:371-414 | E:371-414)
Exon 1.15a (A:415-482 | C:415-482 | E:415-482)
Exon 1.16 (A:483-509 | C:483-509 | E:483-509)
Exon 1.17 (A:509-537 | C:509-537 | E:509-537)
Exon 1.18b (A:538-569 | C:538-569 | E:538-569)
Exon 1.19c (A:570-589 | C:570-589 | E:570-589)
Exon 2.3a (B:15-50 | D:15-50 | F:15-50)
Exon 2.4a (B:51-74 | D:51-74 | F:51-74)
Exon 2.6b (B:75-95 | D:75-96 | F:75-95)
View:
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All Exon Boundaries
01: Boundary 1.12b/1.13b
02: Boundary 1.13b/1.14b
03: Boundary 1.14b/1.15a
04: Boundary 1.15a/1.16
05: Boundary 1.16/1.17
06: Boundary 1.17/1.18b
07: Boundary 1.18b/1.19c
08: Boundary 1.19c/-
09: Boundary 2.2a/2.3a
10: Boundary 2.3a/2.4a
11: Boundary 2.4a/2.6b
12: Boundary 2.6b/-
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
1.2a
ENST00000296257
2a
ENSE00001875109
chr3:
185303962-185304302
341
SENP2_HUMAN
1-34
34
0
-
-
1.3
ENST00000296257
3
ENSE00001324023
chr3:
185307902-185307957
56
SENP2_HUMAN
34-53
20
0
-
-
1.4b
ENST00000296257
4b
ENSE00001308929
chr3:
185316200-185316333
134
SENP2_HUMAN
53-97
45
0
-
-
1.5a
ENST00000296257
5a
ENSE00001631097
chr3:
185316746-185316812
67
SENP2_HUMAN
98-120
23
0
-
-
1.6b
ENST00000296257
6b
ENSE00001756942
chr3:
185318553-185318643
91
SENP2_HUMAN
120-150
31
0
-
-
1.8c
ENST00000296257
8c
ENSE00001644564
chr3:
185324118-185324286
169
SENP2_HUMAN
150-206
57
0
-
-
1.9d
ENST00000296257
9d
ENSE00001632364
chr3:
185327035-185327138
104
SENP2_HUMAN
207-241
35
0
-
-
1.10b
ENST00000296257
10b
ENSE00001611859
chr3:
185329439-185329533
95
SENP2_HUMAN
241-273
33
0
-
-
1.11b
ENST00000296257
11b
ENSE00001697885
chr3:
185330395-185330446
52
SENP2_HUMAN
273-290
18
0
-
-
1.12b
ENST00000296257
12b
ENSE00001732674
chr3:
185331133-185331196
64
SENP2_HUMAN
290-311
22
0
-
-
1.13b
ENST00000296257
13b
ENSE00001602918
chr3:
185332352-185332528
177
SENP2_HUMAN
312-370
59
3
A:367-370
C:366-370
E:367-370
4
5
4
1.14b
ENST00000296257
14b
ENSE00001738954
chr3:
185335268-185335399
132
SENP2_HUMAN
371-414
44
3
A:371-414
C:371-414
E:371-414
44
44
44
1.15a
ENST00000296257
15a
ENSE00001645647
chr3:
185337087-185337290
204
SENP2_HUMAN
415-482
68
3
A:415-482
C:415-482
E:415-482
68
68
68
1.16
ENST00000296257
16
ENSE00001639235
chr3:
185339614-185339693
80
SENP2_HUMAN
483-509
27
3
A:483-509
C:483-509
E:483-509
27
27
27
1.17
ENST00000296257
17
ENSE00001806686
chr3:
185341786-185341870
85
SENP2_HUMAN
509-537
29
3
A:509-537
C:509-537
E:509-537
29
29
29
1.18b
ENST00000296257
18b
ENSE00001689492
chr3:
185344086-185344181
96
SENP2_HUMAN
538-569
32
3
A:538-569
C:538-569
E:538-569
32
32
32
1.19c
ENST00000296257
19c
ENSE00001887141
chr3:
185347570-185351339
3770
SENP2_HUMAN
570-589
20
3
A:570-589
C:570-589
E:570-589
20
20
20
2.2a
ENST00000332859
2a
ENSE00001315520
chr21:
46238044-46237863
182
SUMO3_HUMAN
1-7
7
0
-
-
2.3a
ENST00000332859
3a
ENSE00001297766
chr21:
46234019-46233891
129
SUMO3_HUMAN
8-50
43
3
B:15-50
D:15-50
F:15-50
36
36
36
2.4a
ENST00000332859
4a
ENSE00001653460
chr21:
46229033-46228962
72
SUMO3_HUMAN
51-74
24
3
B:51-74
D:51-74
F:51-74
24
24
24
2.6b
ENST00000332859
6b
ENSE00001793847
chr21:
46226955-46225532
1424
SUMO3_HUMAN
75-103
29
3
B:75-95
D:75-96
F:75-95
21
22
21
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SCOP Domains
(2, 6)
Info
All SCOP Domains
1a: SCOP_d2io1b_ (B:)
1b: SCOP_d2io1d_ (D:)
1c: SCOP_d2io1f_ (F:)
2a: SCOP_d2io1a_ (A:)
2b: SCOP_d2io1c_ (C:)
2c: SCOP_d2io1e_ (E:)
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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
:
automated matches
(80)
Human (Homo sapiens) [TaxId: 9606]
(62)
1a
d2io1b_
B:
1b
d2io1d_
D:
1c
d2io1f_
F:
Fold
:
Cysteine proteinases
(392)
Superfamily
:
Cysteine proteinases
(392)
Family
:
Adenain-like
(26)
Protein domain
:
Sentrin-specific protease 2, SENP2
(6)
Human (Homo sapiens) [TaxId: 9606]
(6)
2a
d2io1a_
A:
2b
d2io1c_
C:
2c
d2io1e_
E:
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CATH Domains
(1, 3)
Info
all CATH domains
1a: CATH_2io1D00 (D:15-96)
1b: CATH_2io1B00 (B:15-95)
1c: CATH_2io1F00 (F:15-95)
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Organisms
(
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(
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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
2io1D00
D:15-96
1b
2io1B00
B:15-95
1c
2io1F00
F:15-95
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Pfam Domains
(0, 0)
Info
all PFAM domains
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