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Getting 'Biological Unit' information from database.
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Getting 'Hetero Component' information from database.
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Getting 'PROSITE' information from database.
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Getting 'Exon' information from database.
3QQD
Asym. Unit
Info
Asym.Unit (90 KB)
Biol.Unit 1 (85 KB)
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(1)
Title
:
HUMAN SOD1 H80R VARIANT, P212121 CRYSTAL FORM
Authors
:
S. V. Seetharaman, D. D. Winkler, A. B. Taylor, X. Cao, L. J. Whitson, P. A. Doucette, J. S. Valentine, V. Schirf, B. Demeler, M. C. Carroll, V. C. Culotta, P. J. Hart
Date
:
15 Feb 11 (Deposition) - 09 Mar 11 (Release) - 09 Mar 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.65
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Oxidoreductase, Human Cu, Zn Superoxide Dismutase, Antioxidant, Metal-Binding, Amyotrophic Lateral Sclerosis, Disease Mutation, Disulfide Bond
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. V. Seetharaman, D. D. Winkler, A. B. Taylor, X. Cao, L. J. Whitson, P. A. Doucette, J. S. Valentine, V. Schirf, B. Demeler, M. C. Carroll, V. C. Culotta, P. J. Hart
Disrupted Zinc-Binding Sites In Structures Of Pathogenic Sod1 Variants D124V And H80R.
Biochemistry V. 49 5714 2010
[
close entry info
]
Hetero Components
(5, 7)
Info
All Hetero Components
1a: ACETYL GROUP (ACEa)
2a: S-OXY CYSTEINE (CSXa)
3a: CYSTEINESULFONIC ACID (OCSa)
4a: SULFATE ION (SO4a)
4b: SULFATE ION (SO4b)
5a: ZINC ION (ZNa)
5b: ZINC ION (ZNb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACE
1
Mod. Amino Acid
ACETYL GROUP
2
CSX
1
Mod. Amino Acid
S-OXY CYSTEINE
3
OCS
1
Mod. Amino Acid
CYSTEINESULFONIC ACID
4
SO4
2
Ligand/Ion
SULFATE ION
5
ZN
2
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(5, 5)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS A:46 , HIS A:48 , HIS A:63 , HIS A:120 , SO4 A:155
BINDING SITE FOR RESIDUE ZN A 154
2
AC2
SOFTWARE
HIS A:48 , HIS A:63 , HIS A:120 , ARG A:143 , ZN A:154
BINDING SITE FOR RESIDUE SO4 A 155
3
AC3
SOFTWARE
ALA B:1 , THR B:2
BINDING SITE FOR RESIDUE ACE B 0
4
AC4
SOFTWARE
HIS B:46 , HIS B:48 , HIS B:120 , SO4 B:155
BINDING SITE FOR RESIDUE ZN B 154
5
AC5
SOFTWARE
HIS B:46 , HIS B:48 , HIS B:63 , HIS B:120 , ZN B:154 , HOH B:227 , HOH B:250
BINDING SITE FOR RESIDUE SO4 B 155
[
close Site info
]
SAPs(SNPs)/Variants
(73, 143)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_013518 (A4S, chain A/B, )
02: VAR_007130 (A4T, chain A/B, )
03: VAR_007131 (A4V, chain A/B, )
04: VAR_008717 (C6F, chain A/B, )
05: VAR_007132 (V7E, chain A/B, )
06: VAR_013519 (L8Q, chain A/B, )
07: VAR_013520 (L8V, chain A/B, )
08: VAR_013521 (G12R, chain A/B, )
09: VAR_013522 (V14G, chain A/B, )
10: VAR_007133 (V14M, chain A/B, )
11: VAR_007134 (G16S, chain A/B, )
12: VAR_045876 (F20C, chain A/B, )
13: VAR_013523 (E21G, chain A/B, )
14: VAR_007135 (E21K, chain A/B, )
15: VAR_045877 (Q22L, chain A/B, )
16: VAR_007136 (G37R, chain A/B, )
17: VAR_013524 (L38R, chain A/B, )
18: VAR_007137 (L38V, chain A/B, )
19: VAR_007139 (G41D, chain A/B, )
20: VAR_007138 (G41S, chain A/B, )
21: VAR_007140 (H43R, chain A/B, )
22: VAR_013525 (F45C, chain A/B, )
23: VAR_007141 (H46R, chain A/B, )
24: VAR_007142 (H48Q, chain A/B, )
25: VAR_045878 (H48R, chain A/B, )
26: VAR_013526 (E49K, chain A/B, )
27: VAR_045879 (T54R, chain A/B, )
28: VAR_013527 (N65S, chain A/B, )
29: VAR_065560 (L67P, chain B, )
30: VAR_013528 (L67R, chain B, )
31: VAR_016874 (R80A, chain A/B, )
32: VAR_013530 (L84F, chain A/B, )
33: VAR_007143 (L84V, chain A/B, )
34: VAR_007144 (G85R, chain A/B, )
35: VAR_013531 (N86S, chain A/B, )
36: VAR_045880 (V87A, chain A/B, )
37: VAR_045881 (A89T, chain A/B, )
38: VAR_013532 (A89V, chain A/B, )
39: VAR_007145 (D90A, chain A/B, )
40: VAR_013533 (D90V, chain A/B, )
41: VAR_007146 (G93A, chain A/B, )
42: VAR_007147 (G93C, chain A/B, )
43: VAR_007148 (G93D, chain A/B, )
44: VAR_007149 (G93R, chain A/B, )
45: VAR_008719 (G93V, chain A/B, )
46: VAR_065194 (A95G, chain A/B, )
47: VAR_045882 (V97M, chain A/B, )
48: VAR_007150 (E100G, chain A/B, )
49: VAR_013534 (E100K, chain A/B, )
50: VAR_007151 (D101G, chain A/B, )
51: VAR_007152 (D101N, chain A/B, )
52: VAR_008720 (I104F, chain A/B, )
53: VAR_013535 (S105L, chain A/B, )
54: VAR_007153 (L106V, chain A/B, )
55: VAR_013536 (G108V, chain A/B, )
56: VAR_013537 (I112M, chain A/B, )
57: VAR_007154 (I112T, chain A/B, )
58: VAR_007155 (I113T, chain A/B, )
59: VAR_013538 (G114A, chain A/B, )
60: VAR_007156 (R115G, chain A/B, )
61: VAR_045883 (V118L, chain A/B, )
62: VAR_045884 (D124G, chain A/B, )
63: VAR_008722 (D124V, chain A/B, )
64: VAR_007159 (N139K, chain B, )
65: VAR_007160 (L144F, chain A/B, )
66: VAR_008724 (L144S, chain A/B, )
67: VAR_008725 (A145T, chain A/B, )
68: VAR_013540 (C146R, chain A/B, )
69: VAR_045885 (G147R, chain A/B, )
70: VAR_007161 (V148G, chain A/B, )
71: VAR_007162 (V148I, chain A/B, )
72: VAR_007163 (I149T, chain A/B, )
73: VAR_007164 (I151T, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_013518
A
5
S
SODC_HUMAN
Disease (ALS1)
---
A/B
A
4
S
02
UniProt
VAR_007130
A
5
T
SODC_HUMAN
Disease (ALS1)
---
A/B
A
4
T
03
UniProt
VAR_007131
A
5
V
SODC_HUMAN
Disease (ALS1)
---
A/B
A
4
V
04
UniProt
VAR_008717
C
7
F
SODC_HUMAN
Disease (ALS1)
---
A/B
C
6
F
05
UniProt
VAR_007132
V
8
E
SODC_HUMAN
Disease (ALS1)
---
A/B
V
7
E
06
UniProt
VAR_013519
L
9
Q
SODC_HUMAN
Disease (ALS1)
---
A/B
L
8
Q
07
UniProt
VAR_013520
L
9
V
SODC_HUMAN
Disease (ALS1)
---
A/B
L
8
V
08
UniProt
VAR_013521
G
13
R
SODC_HUMAN
Disease (ALS1)
---
A/B
G
12
R
09
UniProt
VAR_013522
V
15
G
SODC_HUMAN
Disease (ALS1)
---
A/B
V
14
G
10
UniProt
VAR_007133
V
15
M
SODC_HUMAN
Disease (ALS1)
---
A/B
V
14
M
11
UniProt
VAR_007134
G
17
S
SODC_HUMAN
Disease (ALS1)
---
A/B
G
16
S
12
UniProt
VAR_045876
F
21
C
SODC_HUMAN
Disease (ALS1)
---
A/B
F
20
C
13
UniProt
VAR_013523
E
22
G
SODC_HUMAN
Disease (ALS1)
---
A/B
E
21
G
14
UniProt
VAR_007135
E
22
K
SODC_HUMAN
Disease (ALS1)
---
A/B
E
21
K
15
UniProt
VAR_045877
Q
23
L
SODC_HUMAN
Disease (ALS1)
---
A/B
Q
22
L
16
UniProt
VAR_007136
G
38
R
SODC_HUMAN
Disease (ALS1)
---
A/B
G
37
R
17
UniProt
VAR_013524
L
39
R
SODC_HUMAN
Disease (ALS1)
---
A/B
L
38
R
18
UniProt
VAR_007137
L
39
V
SODC_HUMAN
Disease (ALS1)
---
A/B
L
38
V
19
UniProt
VAR_007139
G
42
D
SODC_HUMAN
Disease (ALS1)
---
A/B
G
41
D
20
UniProt
VAR_007138
G
42
S
SODC_HUMAN
Disease (ALS1)
---
A/B
G
41
S
21
UniProt
VAR_007140
H
44
R
SODC_HUMAN
Disease (ALS1)
---
A/B
H
43
R
22
UniProt
VAR_013525
F
46
C
SODC_HUMAN
Disease (ALS1)
---
A/B
F
45
C
23
UniProt
VAR_007141
H
47
R
SODC_HUMAN
Disease (ALS1)
---
A/B
H
46
R
24
UniProt
VAR_007142
H
49
Q
SODC_HUMAN
Disease (ALS1)
---
A/B
H
48
Q
25
UniProt
VAR_045878
H
49
R
SODC_HUMAN
Disease (ALS1)
---
A/B
H
48
R
26
UniProt
VAR_013526
E
50
K
SODC_HUMAN
Disease (ALS1)
---
A/B
E
49
K
27
UniProt
VAR_045879
T
55
R
SODC_HUMAN
Disease (ALS1)
---
A/B
T
54
R
28
UniProt
VAR_013527
N
66
S
SODC_HUMAN
Disease (ALS1)
---
A/B
N
65
S
29
UniProt
VAR_065560
L
68
P
SODC_HUMAN
Disease (ALS1)
---
B
L
67
P
30
UniProt
VAR_013528
L
68
R
SODC_HUMAN
Disease (ALS1)
---
B
L
67
R
31
UniProt
VAR_016874
H
81
A
SODC_HUMAN
Disease (ALS1)
---
A/B
R
80
A
32
UniProt
VAR_013530
L
85
F
SODC_HUMAN
Disease (ALS1)
---
A/B
L
84
F
33
UniProt
VAR_007143
L
85
V
SODC_HUMAN
Disease (ALS1)
---
A/B
L
84
V
34
UniProt
VAR_007144
G
86
R
SODC_HUMAN
Disease (ALS1)
---
A/B
G
85
R
35
UniProt
VAR_013531
N
87
S
SODC_HUMAN
Disease (ALS1)
11556620
A/B
N
86
S
36
UniProt
VAR_045880
V
88
A
SODC_HUMAN
Disease (ALS1)
---
A/B
V
87
A
37
UniProt
VAR_045881
A
90
T
SODC_HUMAN
Disease (ALS1)
---
A/B
A
89
T
38
UniProt
VAR_013532
A
90
V
SODC_HUMAN
Disease (ALS1)
---
A/B
A
89
V
39
UniProt
VAR_007145
D
91
A
SODC_HUMAN
Disease (ALS1)
80265967
A/B
D
90
A
40
UniProt
VAR_013533
D
91
V
SODC_HUMAN
Disease (ALS1)
---
A/B
D
90
V
41
UniProt
VAR_007146
G
94
A
SODC_HUMAN
Disease (ALS1)
---
A/B
G
93
A
42
UniProt
VAR_007147
G
94
C
SODC_HUMAN
Disease (ALS1)
---
A/B
G
93
C
43
UniProt
VAR_007148
G
94
D
SODC_HUMAN
Disease (ALS1)
---
A/B
G
93
D
44
UniProt
VAR_007149
G
94
R
SODC_HUMAN
Disease (ALS1)
---
A/B
G
93
R
45
UniProt
VAR_008719
G
94
V
SODC_HUMAN
Disease (ALS1)
---
A/B
G
93
V
46
UniProt
VAR_065194
A
96
G
SODC_HUMAN
Disease (ALS1)
---
A/B
A
95
G
47
UniProt
VAR_045882
V
98
M
SODC_HUMAN
Disease (ALS1)
---
A/B
V
97
M
48
UniProt
VAR_007150
E
101
G
SODC_HUMAN
Disease (ALS1)
---
A/B
E
100
G
49
UniProt
VAR_013534
E
101
K
SODC_HUMAN
Disease (ALS1)
---
A/B
E
100
K
50
UniProt
VAR_007151
D
102
G
SODC_HUMAN
Disease (ALS1)
---
A/B
D
101
G
51
UniProt
VAR_007152
D
102
N
SODC_HUMAN
Disease (ALS1)
---
A/B
D
101
N
52
UniProt
VAR_008720
I
105
F
SODC_HUMAN
Disease (ALS1)
---
A/B
I
104
F
53
UniProt
VAR_013535
S
106
L
SODC_HUMAN
Disease (ALS1)
---
A/B
S
105
L
54
UniProt
VAR_007153
L
107
V
SODC_HUMAN
Disease (ALS1)
---
A/B
L
106
V
55
UniProt
VAR_013536
G
109
V
SODC_HUMAN
Disease (ALS1)
---
A/B
G
108
V
56
UniProt
VAR_013537
I
113
M
SODC_HUMAN
Disease (ALS1)
---
A/B
I
112
M
57
UniProt
VAR_007154
I
113
T
SODC_HUMAN
Disease (ALS1)
---
A/B
I
112
T
58
UniProt
VAR_007155
I
114
T
SODC_HUMAN
Disease (ALS1)
---
A/B
I
113
T
59
UniProt
VAR_013538
G
115
A
SODC_HUMAN
Disease (ALS1)
---
A/B
G
114
A
60
UniProt
VAR_007156
R
116
G
SODC_HUMAN
Disease (ALS1)
---
A/B
R
115
G
61
UniProt
VAR_045883
V
119
L
SODC_HUMAN
Disease (ALS1)
---
A/B
V
118
L
62
UniProt
VAR_045884
D
125
G
SODC_HUMAN
Disease (ALS1)
---
A/B
D
124
G
63
UniProt
VAR_008722
D
125
V
SODC_HUMAN
Disease (ALS1)
---
A/B
D
124
V
64
UniProt
VAR_007159
N
140
K
SODC_HUMAN
Disease (ALS1)
---
B
N
139
K
65
UniProt
VAR_007160
L
145
F
SODC_HUMAN
Disease (ALS1)
---
A/B
L
144
F
66
UniProt
VAR_008724
L
145
S
SODC_HUMAN
Disease (ALS1)
---
A/B
L
144
S
67
UniProt
VAR_008725
A
146
T
SODC_HUMAN
Disease (ALS1)
---
A/B
A
145
T
68
UniProt
VAR_013540
C
147
R
SODC_HUMAN
Disease (ALS1)
---
A/B
C
146
R
69
UniProt
VAR_045885
G
148
R
SODC_HUMAN
Disease (ALS1)
---
A/B
G
147
R
70
UniProt
VAR_007161
V
149
G
SODC_HUMAN
Disease (ALS1)
---
A/B
V
148
G
71
UniProt
VAR_007162
V
149
I
SODC_HUMAN
Disease (ALS1)
---
A/B
V
148
I
72
UniProt
VAR_007163
I
150
T
SODC_HUMAN
Disease (ALS1)
---
A/B
I
149
T
73
UniProt
VAR_007164
I
152
T
SODC_HUMAN
Disease (ALS1)
---
A/B
I
151
T
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: SOD_CU_ZN_1 (A:44-54,B:44-54)
2: SOD_CU_ZN_2 (A:141-149,B:139-149)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
SOD_CU_ZN_1
PS00087
Copper/Zinc superoxide dismutase signature 1.
SODC_HUMAN
45-55
2
A:44-54
B:44-54
2
SOD_CU_ZN_2
PS00332
Copper/Zinc superoxide dismutase signature 2.
SODC_HUMAN
139-150
2
A:141-149
B:139-149
[
close PROSITE info
]
Exons
(5, 10)
Info
All Exons
Exon 1.1a (A:2-23 | B:0-23)
Exon 1.3 (A:24-56 | B:24-56)
Exon 1.4 (A:56-66 | B:56-68)
Exon 1.5b (A:80-118 | B:80-118)
Exon 1.6 (A:119-153 (gaps) | B:119-153 (gaps...)
View:
Select:
Label:
All Exon Boundaries
1: Boundary -/1.1a
2: Boundary 1.1a/1.3
3: Boundary 1.3/1.4
4: Boundary 1.4/1.5b
5: Boundary 1.5b/1.6
6: Boundary 1.6/-
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
ENST00000270142
1a
ENSE00001507447
chr21:
33031935-33032154
220
SODC_HUMAN
1-24
24
2
A:2-23
B:0-23
22
24
1.3
ENST00000270142
3
ENSE00001507446
chr21:
33036103-33036199
97
SODC_HUMAN
25-57
33
2
A:24-56
B:24-56
33
33
1.4
ENST00000270142
4
ENSE00000952640
chr21:
33038762-33038831
70
SODC_HUMAN
57-80
24
2
A:56-66
B:56-68
11
13
1.5b
ENST00000270142
5b
ENSE00000952641
chr21:
33039571-33039688
118
SODC_HUMAN
80-119
40
2
A:80-118
B:80-118
39
39
1.6
ENST00000270142
6
ENSE00001847240
chr21:
33040784-33041244
461
SODC_HUMAN
120-154
35
2
A:119-153 (gaps)
B:119-153 (gaps)
35
35
[
close EXON info
]
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d3qqda_ (A:)
1b: SCOP_d3qqdb_ (B:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
Cu,Zn superoxide dismutase-like
(165)
Family
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Cu,Zn superoxide dismutase-like
(158)
Protein domain
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Cu,Zn superoxide dismutase, SOD
(134)
Human (Homo sapiens) [TaxId: 9606]
(69)
1a
d3qqda_
A:
1b
d3qqdb_
B:
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Pfam Domains
(1, 2)
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1a: PFAM_Sod_Cu_3qqdB01 (B:4-149)
1b: PFAM_Sod_Cu_3qqdB02 (B:4-149)
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no clan defined [family: Sod_Cu]
(71)
Family
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Sod_Cu
(71)
Homo sapiens (Human)
(34)
1a
Sod_Cu-3qqdB01
B:4-149
1b
Sod_Cu-3qqdB02
B:4-149
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