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1RJ7
Biol. Unit 1
Info
Asym.Unit (282 KB)
Biol.Unit 1 (72 KB)
Biol.Unit 2 (73 KB)
Biol.Unit 3 (71 KB)
Biol.Unit 4 (72 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF EDA-A1
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) - 19 Oct 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B,D,E,F,G,H,I,J,K,L,M
Biol. Unit 1: A,B,D (1x)
Biol. Unit 2: E,F,G (1x)
Biol. Unit 3: H,I,J (1x)
Biol. Unit 4: K,L,M (1x)
Keywords
:
Eda, Tnf, Beta-Bulge, Morphogen, Hormone-Growth Factor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. G. Hymowitz, D. M. Compaan, M. Yan, H. J. Wallweber, V. M. Dixit, M. A. Starovasnik, A. M. De Vos
The Crystal Structures Of Eda-A1 And Eda-A2: Splice Variant 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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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:
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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)
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
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SCOP Domains
(1, 12)
Info
All SCOP Domains
1a: SCOP_d1rj7a_ (A:)
1b: SCOP_d1rj7f_ (F:)
1c: SCOP_d1rj7g_ (G:)
1d: SCOP_d1rj7h_ (H:)
1e: SCOP_d1rj7i_ (I:)
1f: SCOP_d1rj7j_ (J:)
1g: SCOP_d1rj7k_ (K:)
1h: SCOP_d1rj7l_ (L:)
1i: SCOP_d1rj7m_ (M:)
1j: SCOP_d1rj7b_ (B:)
1k: SCOP_d1rj7d_ (D:)
1l: SCOP_d1rj7e_ (E:)
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(
)
(
)
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(
)
(
)
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
d1rj7a_
A:
1b
d1rj7f_
F:
1c
d1rj7g_
G:
1d
d1rj7h_
H:
1e
d1rj7i_
I:
1f
d1rj7j_
J:
1g
d1rj7k_
K:
1h
d1rj7l_
L:
1i
d1rj7m_
M:
1j
d1rj7b_
B:
1k
d1rj7d_
D:
1l
d1rj7e_
E:
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CATH Domains
(1, 12)
Info
all CATH domains
1a: CATH_1rj7H00 (H:247-388)
1b: CATH_1rj7I00 (I:247-389)
1c: CATH_1rj7J00 (J:248-390)
1d: CATH_1rj7A00 (A:247-390)
1e: CATH_1rj7B00 (B:247-390)
1f: CATH_1rj7D00 (D:247-390)
1g: CATH_1rj7F00 (F:247-390)
1h: CATH_1rj7G00 (G:247-390)
1i: CATH_1rj7M00 (M:247-390)
1j: CATH_1rj7K00 (K:247-391)
1k: CATH_1rj7L00 (L:246-390)
1l: CATH_1rj7E00 (E:242-390)
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)
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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
1rj7H00
H:247-388
1b
1rj7I00
I:247-389
1c
1rj7J00
J:248-390
1d
1rj7A00
A:247-390
1e
1rj7B00
B:247-390
1f
1rj7D00
D:247-390
1g
1rj7F00
F:247-390
1h
1rj7G00
G:247-390
1i
1rj7M00
M:247-390
1j
1rj7K00
K:247-391
1k
1rj7L00
L:246-390
1l
1rj7E00
E:242-390
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Pfam Domains
(1, 12)
Info
all PFAM domains
1a: PFAM_TNF_1rj7M01 (M:272-385)
1b: PFAM_TNF_1rj7M02 (M:272-385)
1c: PFAM_TNF_1rj7M03 (M:272-385)
1d: PFAM_TNF_1rj7M04 (M:272-385)
1e: PFAM_TNF_1rj7M05 (M:272-385)
1f: PFAM_TNF_1rj7M06 (M:272-385)
1g: PFAM_TNF_1rj7M07 (M:272-385)
1h: PFAM_TNF_1rj7M08 (M:272-385)
1i: PFAM_TNF_1rj7M09 (M:272-385)
1j: PFAM_TNF_1rj7M10 (M:272-385)
1k: PFAM_TNF_1rj7M11 (M:272-385)
1l: PFAM_TNF_1rj7M12 (M:272-385)
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(
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Clan
:
C1q_TNF
(45)
Family
:
TNF
(37)
Homo sapiens (Human)
(26)
1a
TNF-1rj7M01
M:272-385
1b
TNF-1rj7M02
M:272-385
1c
TNF-1rj7M03
M:272-385
1d
TNF-1rj7M04
M:272-385
1e
TNF-1rj7M05
M:272-385
1f
TNF-1rj7M06
M:272-385
1g
TNF-1rj7M07
M:272-385
1h
TNF-1rj7M08
M:272-385
1i
TNF-1rj7M09
M:272-385
1j
TNF-1rj7M10
M:272-385
1k
TNF-1rj7M11
M:272-385
1l
TNF-1rj7M12
M:272-385
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