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1RJ8
Biol. Unit 1
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Asym.Unit (142 KB)
Biol.Unit 1 (69 KB)
Biol.Unit 2 (69 KB)
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(1)
Title
:
THE CRYSTAL STRUCTURE OF TNF FAMILY MEMBER EDA-A2
Authors
:
S. G. Hymowitz, D. M. Compaan, M. Yan, H. Ackerly, V. M. Dixit, M. A. Staro A. M. De Vos
Date
:
18 Nov 03 (Deposition) - 09 Dec 03 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.23
Chains
:
Asym. Unit : A,B,D,E,F,G
Biol. Unit 1: A,B,D (1x)
Biol. Unit 2: E,F,G (1x)
Keywords
:
Tnf Domain, Jelly Roll, Splice Variant, Trimer, Hormone-Growth Factor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. G. Hymowitz, D. M. Compaan, M. Yan, H. Ackerly, V. M. Dixit, M. A. Starovasnik, A. M. De Vos
The Crystal Structure Of Eda-A1 And Eda-A2: Splice Variants With Distinct Receptor Specificity
Structure V. 11 1513 2003
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Hetero Components
(0, 0)
Info
All Hetero Components
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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
(45, 135)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
01: VAR_005187 (H252L, chain A/B/D, )
02: VAR_013485 (H252Y, chain A/B/D, )
03: VAR_011077 (G255C, chain A/B/D, )
04: VAR_011078 (G255D, chain A/B/D, )
05: VAR_071454 (A259E, chain A/B/D, )
06: VAR_071455 (I260S, chain A/B/D, )
07: VAR_064862 (L266R, chain A/B/D, )
08: VAR_013486 (G269V, chain A/B/D, )
09: VAR_011079 (W274G, chain A/B/D, )
10: VAR_064863 (W274R, chain A/B/D, )
11: VAR_071456 (R289C, chain A/B/D, )
12: VAR_071457 (R289L, chain A/B/D, )
13: VAR_010613 (G291R, chain A/B/D, )
14: VAR_010614 (G291W, chain A/B/D, )
15: VAR_064864 (L293P, chain A/B/D, )
16: VAR_064865 (L296V, chain A/B/D, )
17: VAR_010615 (D298H, chain A/B/D, )
18: VAR_054466 (D298Y, chain A/B/D, )
19: VAR_064866 (G299D, chain A/B/D, )
20: VAR_005188 (G299S, chain A/B/D, )
21: VAR_013487 (F302S, chain A/B/D, )
22: VAR_054467 (Q306H, chain A/B/D, )
23: VAR_054468 (V307G, chain A/B/D, )
24: VAR_067319 (S319R, chain A/B/D, )
25: VAR_054469 (Y320C, chain A/B/D, )
26: VAR_064867 (V323G, chain A/B/D, )
27: VAR_011080 (C332Y, chain A/B/D, )
28: VAR_071458 (R334H, chain A/B/D, )
29: VAR_064868 (T338M, chain A/B/D, )
30: VAR_054470 (Y343C, chain A/B/D, )
31: VAR_064869 (C346Y, chain A/B/D, )
32: VAR_005189 (A349T, chain A/B/D, )
33: VAR_067250 (L354P, chain A/B/D, )
34: VAR_005190 (A356D, chain A/B/D, )
35: VAR_064870 (A356V, chain A/B/D, )
36: VAR_005191 (R357P, chain A/B/D, )
37: VAR_054471 (Q358E, chain A/B/D, )
38: VAR_054472 (I360N, chain A/B/D, )
39: VAR_054473 (N372D, chain A/B/D, )
40: VAR_054474 (M373I, chain A/B/D, )
41: VAR_054475 (S374R, chain A/B/D, )
42: VAR_013488 (T378M, chain A/B/D, )
43: VAR_054476 (T378P, chain A/B/D, )
44: VAR_071459 (F379V, chain A/B/D, )
45: VAR_064871 (G381R, chain A/B/D, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_005187
H
252
L
EDA_HUMAN
Disease (XHED)
---
A/B/D
H
252
L
02
UniProt
VAR_013485
H
252
Y
EDA_HUMAN
Disease (XHED)
---
A/B/D
H
252
Y
03
UniProt
VAR_011077
G
255
C
EDA_HUMAN
Disease (XHED)
---
A/B/D
G
255
C
04
UniProt
VAR_011078
G
255
D
EDA_HUMAN
Disease (XHED)
---
A/B/D
G
255
D
05
UniProt
VAR_071454
A
259
E
EDA_HUMAN
Disease (STHAGX1)
---
A/B/D
A
259
E
06
UniProt
VAR_071455
I
260
S
EDA_HUMAN
Disease (STHAGX1)
---
A/B/D
I
260
S
07
UniProt
VAR_064862
L
266
R
EDA_HUMAN
Disease (XHED)
---
A/B/D
L
266
R
08
UniProt
VAR_013486
G
269
V
EDA_HUMAN
Disease (XHED)
---
A/B/D
G
269
V
09
UniProt
VAR_011079
W
274
G
EDA_HUMAN
Disease (XHED)
---
A/B/D
W
274
G
10
UniProt
VAR_064863
W
274
R
EDA_HUMAN
Disease (XHED)
---
A/B/D
W
274
R
11
UniProt
VAR_071456
R
289
C
EDA_HUMAN
Disease (STHAGX1)
---
A/B/D
R
289
C
12
UniProt
VAR_071457
R
289
L
EDA_HUMAN
Disease (STHAGX1)
---
A/B/D
R
289
L
13
UniProt
VAR_010613
G
291
R
EDA_HUMAN
Disease (XHED)
---
A/B/D
G
291
R
14
UniProt
VAR_010614
G
291
W
EDA_HUMAN
Disease (XHED)
---
A/B/D
G
291
W
15
UniProt
VAR_064864
L
293
P
EDA_HUMAN
Disease (XHED)
---
A/B/D
L
293
P
16
UniProt
VAR_064865
L
296
V
EDA_HUMAN
Disease (XHED)
---
A/B/D
L
296
V
17
UniProt
VAR_010615
D
298
H
EDA_HUMAN
Disease (XHED)
---
A/B/D
D
298
H
18
UniProt
VAR_054466
D
298
Y
EDA_HUMAN
Disease (XHED)
---
A/B/D
D
298
Y
19
UniProt
VAR_064866
G
299
D
EDA_HUMAN
Disease (XHED)
---
A/B/D
G
299
D
20
UniProt
VAR_005188
G
299
S
EDA_HUMAN
Disease (XHED)
---
A/B/D
G
299
S
21
UniProt
VAR_013487
F
302
S
EDA_HUMAN
Disease (XHED)
---
A/B/D
F
302
S
22
UniProt
VAR_054467
Q
306
H
EDA_HUMAN
Disease (XHED)
---
A/B/D
Q
306
H
23
UniProt
VAR_054468
V
307
G
EDA_HUMAN
Disease (XHED)
---
A/B/D
V
307
G
24
UniProt
VAR_067319
S
319
R
EDA_HUMAN
Disease (XHED)
---
A/B/D
S
319
R
25
UniProt
VAR_054469
Y
320
C
EDA_HUMAN
Disease (XHED)
---
A/B/D
Y
320
C
26
UniProt
VAR_064867
V
323
G
EDA_HUMAN
Disease (XHED)
---
A/B/D
V
323
G
27
UniProt
VAR_011080
C
332
Y
EDA_HUMAN
Disease (XHED)
---
A/B/D
C
332
Y
28
UniProt
VAR_071458
R
334
H
EDA_HUMAN
Disease (STHAGX1)
---
A/B/D
R
334
H
29
UniProt
VAR_064868
T
338
M
EDA_HUMAN
Disease (STHAGX1)
---
A/B/D
T
338
M
30
UniProt
VAR_054470
Y
343
C
EDA_HUMAN
Disease (XHED)
---
A/B/D
Y
343
C
31
UniProt
VAR_064869
C
346
Y
EDA_HUMAN
Disease (XHED)
---
A/B/D
C
346
Y
32
UniProt
VAR_005189
A
349
T
EDA_HUMAN
Disease (XHED)
---
A/B/D
A
349
T
33
UniProt
VAR_067250
L
354
P
EDA_HUMAN
Disease (XHED)
---
A/B/D
L
354
P
34
UniProt
VAR_005190
A
356
D
EDA_HUMAN
Disease (XHED)
---
A/B/D
A
356
D
35
UniProt
VAR_064870
A
356
V
EDA_HUMAN
Disease (XHED)
---
A/B/D
A
356
V
36
UniProt
VAR_005191
R
357
P
EDA_HUMAN
Disease (XHED)
---
A/B/D
R
357
P
37
UniProt
VAR_054471
Q
358
E
EDA_HUMAN
Disease (XHED)
---
A/B/D
Q
358
E
38
UniProt
VAR_054472
I
360
N
EDA_HUMAN
Disease (XHED)
---
A/B/D
I
360
N
39
UniProt
VAR_054473
N
372
D
EDA_HUMAN
Disease (XHED)
---
A/B/D
N
372
D
40
UniProt
VAR_054474
M
373
I
EDA_HUMAN
Disease (XHED)
---
A/B/D
M
373
I
41
UniProt
VAR_054475
S
374
R
EDA_HUMAN
Disease (XHED)
---
A/B/D
S
374
R
42
UniProt
VAR_013488
T
378
M
EDA_HUMAN
Disease (XHED)
---
A/B/D
T
378
M
43
UniProt
VAR_054476
T
378
P
EDA_HUMAN
Disease (XHED)
---
A/B/D
T
378
P
44
UniProt
VAR_071459
F
379
V
EDA_HUMAN
Disease (STHAGX1)
---
A/B/D
F
379
V
45
UniProt
VAR_064871
G
381
R
EDA_HUMAN
Disease (XHED)
---
A/B/D
G
381
R
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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]
PROSITE Patterns/Profiles
(1, 3)
Info
All PROSITE Patterns/Profiles
1: TNF_2 (A:250-385,B:250-385,D:250-385)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TNF_2
PS50049
TNF family profile.
EDA_HUMAN
250-385
3
A:250-385
B:250-385
D:250-385
-
-
-
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Exons
(0, 0)
Info
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 6)
Info
All SCOP Domains
1a: SCOP_d1rj8a_ (A:)
1b: SCOP_d1rj8b_ (B:)
1c: SCOP_d1rj8d_ (D:)
1d: SCOP_d1rj8e_ (E:)
1e: SCOP_d1rj8f_ (F:)
1f: SCOP_d1rj8g_ (G:)
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Protein Domains
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)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
TNF-like
(100)
Superfamily
:
TNF-like
(100)
Family
:
TNF-like
(82)
Protein domain
:
Ectodysplasin A, Eda-a1
(2)
Human (Homo sapiens) [TaxId: 9606]
(2)
1a
d1rj8a_
A:
1b
d1rj8b_
B:
1c
d1rj8d_
D:
1d
d1rj8e_
E:
1e
d1rj8f_
F:
1f
d1rj8g_
G:
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CATH Domains
(1, 6)
Info
all CATH domains
1a: CATH_1rj8A00 (A:248-389)
1b: CATH_1rj8B00 (B:248-389)
1c: CATH_1rj8D00 (D:248-389)
1d: CATH_1rj8E00 (E:248-389)
1e: CATH_1rj8F00 (F:248-389)
1f: CATH_1rj8G00 (G:248-389)
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)
Homologous Superfamilies
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)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Jelly Rolls
(1293)
Homologous Superfamily
:
[code=2.60.120.40, no name defined]
(56)
Human (Homo sapiens)
(38)
1a
1rj8A00
A:248-389
1b
1rj8B00
B:248-389
1c
1rj8D00
D:248-389
1d
1rj8E00
E:248-389
1e
1rj8F00
F:248-389
1f
1rj8G00
G:248-389
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Pfam Domains
(0, 0)
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Asym.Unit (142 KB)
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