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2ERJ
Biol. Unit 1
Info
Asym.Unit (237 KB)
Biol.Unit 1 (115 KB)
Biol.Unit 2 (115 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE HETEROTRIMERIC INTERLEUKIN-2 RECEPTOR IN COMPLEX WITH INTERLEUKIN-2
Authors
:
E. W. Debler, D. J. Stauber, I. A. Wilson
Date
:
25 Oct 05 (Deposition) - 21 Feb 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.00
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E,F,G,H (1x)
Keywords
:
Interleukin-2, Interleukin-2 Alpha Receptor, Interleukin-2 Beta Receptor, Interleukin-2 Gamma Receptor, Immune System-Cytokine Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. J. Stauber, E. W. Debler, P. A. Horton, K. A. Smith, I. A. Wilson
Crystal Structure Of The Il-2 Signaling Complex: Paradigm For A Heterotrimeric Cytokine Receptor.
Proc. Natl. Acad. Sci. Usa V. 103 2793 2006
[
close entry info
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Hetero Components
(3, 13)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
1c: BETA-D-MANNOSE (BMAc)
1d: BETA-D-MANNOSE (BMAd)
2a: ALPHA-L-FUCOSE (FUCa)
2b: ALPHA-L-FUCOSE (FUCb)
2c: ALPHA-L-FUCOSE (FUCc)
2d: ALPHA-L-FUCOSE (FUCd)
3a: N-ACETYL-D-GLUCOSAMINE (NAGa)
3b: N-ACETYL-D-GLUCOSAMINE (NAGb)
3c: N-ACETYL-D-GLUCOSAMINE (NAGc)
3d: N-ACETYL-D-GLUCOSAMINE (NAGd)
3e: N-ACETYL-D-GLUCOSAMINE (NAGe)
3f: N-ACETYL-D-GLUCOSAMINE (NAGf)
3g: N-ACETYL-D-GLUCOSAMINE (NAGg)
3h: N-ACETYL-D-GLUCOSAMINE (NAGh)
3i: N-ACETYL-D-GLUCOSAMINE (NAGi)
3j: N-ACETYL-D-GLUCOSAMINE (NAGj)
3k: N-ACETYL-D-GLUCOSAMINE (NAGk)
3l: N-ACETYL-D-GLUCOSAMINE (NAGl)
3m: N-ACETYL-D-GLUCOSAMINE (NAGm)
3n: N-ACETYL-D-GLUCOSAMINE (NAGn)
3o: N-ACETYL-D-GLUCOSAMINE (NAGo)
3p: N-ACETYL-D-GLUCOSAMINE (NAGp)
3q: N-ACETYL-D-GLUCOSAMINE (NAGq)
3r: N-ACETYL-D-GLUCOSAMINE (NAGr)
3s: N-ACETYL-D-GLUCOSAMINE (NAGs)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
2
Ligand/Ion
BETA-D-MANNOSE
2
FUC
2
Ligand/Ion
ALPHA-L-FUCOSE
3
NAG
9
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
close Hetero Component info
]
Sites
(14, 14)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: CC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN B:17 , ASN B:61 , FUC B:216 , NAG B:217
BINDING SITE FOR RESIDUE NAG B 215
02
AC2
SOFTWARE
SER B:19 , ARG B:105 , LEU B:106 , MET B:107 , PRO B:196 , NAG B:215
BINDING SITE FOR RESIDUE FUC B 216
03
AC3
SOFTWARE
NAG B:215 , BMA B:218
BINDING SITE FOR RESIDUE NAG B 217
04
AC4
SOFTWARE
NAG B:217
BINDING SITE FOR RESIDUE BMA B 218
05
AC5
SOFTWARE
ARG B:43 , ASN B:45 , FUC B:220
BINDING SITE FOR RESIDUE NAG B 219
06
AC6
SOFTWARE
HIS B:36 , ARG B:81 , TRP B:90 , NAG B:219
BINDING SITE FOR RESIDUE FUC B 220
07
AC7
SOFTWARE
ASN B:123 , TRP B:166 , NAG B:222
BINDING SITE FOR RESIDUE NAG B 221
08
AC8
SOFTWARE
NAG B:221 , BMA B:223
BINDING SITE FOR RESIDUE NAG B 222
09
AC9
SOFTWARE
NAG B:222 , GLU C:177
BINDING SITE FOR RESIDUE BMA B 223
10
BC1
SOFTWARE
ARG A:140 , PHE C:43 , TYR C:47 , ASN C:49 , LEU C:84 , GLN C:94 , NAG C:301
BINDING SITE FOR RESIDUE NAG C 300
11
BC2
SOFTWARE
LEU A:138 , ARG A:140 , NAG C:300
BINDING SITE FOR RESIDUE NAG C 301
12
BC3
SOFTWARE
ASN C:62 , GLU C:88 , LYS E:31 , PHE E:34
BINDING SITE FOR RESIDUE NAG C 400
13
BC4
SOFTWARE
GLY A:124 , ASN C:137
BINDING SITE FOR RESIDUE NAG C 500
14
CC2
SOFTWARE
GLU B:49 , TRP F:38 , NAG F:219
BINDING SITE FOR RESIDUE NAG F 221
[
close Site info
]
SAPs(SNPs)/Variants
(31, 31)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
01: VAR_002669 (C40G, chain C, )
02: VAR_002670 (E46G, chain C, )
03: VAR_002671 (E46K, chain C, )
04: VAR_021994 (S57F, chain B, )
05: VAR_002672 (N62K, chain C, )
06: VAR_002673 (Y67C, chain C, )
07: VAR_002674 (Y83C, chain C, )
08: VAR_020611 (E87K, chain C, )
09: VAR_002675 (G92D, chain C, )
10: VAR_002676 (C93F, chain C, )
11: VAR_002677 (C93R, chain C, )
12: VAR_002678 (H101P, chain C, )
13: VAR_002679 (Y103N, chain C, )
14: VAR_002680 (Q122P, chain C, )
15: VAR_002681 (I131N, chain C, )
16: VAR_002682 (A134V, chain C, )
17: VAR_002683 (L140H, chain C, )
18: VAR_002684 (L150P, chain C, )
19: VAR_002685 (L150Q, chain C, )
20: VAR_002686 (C160R, chain C, )
21: VAR_002687 (L161S, chain C, )
22: VAR_002688 (R200C, chain C, )
23: VAR_002689 (R202W, chain C, )
24: VAR_002690 (R204C, chain C, )
25: VAR_002691 (R204H, chain C, )
26: VAR_002692 (F205C, chain C, )
27: VAR_002693 (L208P, chain C, )
28: VAR_002694 (C209Y, chain C, )
29: VAR_002695 (G210R, chain C, )
30: VAR_002697 (W218C, chain C, )
31: VAR_002698 (S219I, chain C, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_002669
C
62
G
IL2RG_HUMAN
Disease (XSCID)
---
C
C
40
G
02
UniProt
VAR_002670
E
68
G
IL2RG_HUMAN
Disease (XSCID)
---
C
E
46
G
03
UniProt
VAR_002671
E
68
K
IL2RG_HUMAN
Disease (XSCID)
---
C
E
46
K
04
UniProt
VAR_021994
S
83
F
IL2RB_HUMAN
Polymorphism
2228143
B
S
57
F
05
UniProt
VAR_002672
N
84
K
IL2RG_HUMAN
Disease (XSCID)
---
C
N
62
K
06
UniProt
VAR_002673
Y
89
C
IL2RG_HUMAN
Disease (XSCID)
---
C
Y
67
C
07
UniProt
VAR_002674
Y
105
C
IL2RG_HUMAN
Disease (XSCID)
---
C
Y
83
C
08
UniProt
VAR_020611
E
109
K
IL2RG_HUMAN
Polymorphism
17875899
C
E
87
K
09
UniProt
VAR_002675
G
114
D
IL2RG_HUMAN
Disease (XSCID)
---
C
G
92
D
10
UniProt
VAR_002676
C
115
F
IL2RG_HUMAN
Disease (XSCID)
---
C
C
93
F
11
UniProt
VAR_002677
C
115
R
IL2RG_HUMAN
Disease (XSCID)
---
C
C
93
R
12
UniProt
VAR_002678
H
123
P
IL2RG_HUMAN
Disease (XSCID)
---
C
H
101
P
13
UniProt
VAR_002679
Y
125
N
IL2RG_HUMAN
Disease (XSCID)
---
C
Y
103
N
14
UniProt
VAR_002680
Q
144
P
IL2RG_HUMAN
Disease (XSCID)
---
C
Q
122
P
15
UniProt
VAR_002681
I
153
N
IL2RG_HUMAN
Disease (XSCID)
---
C
I
131
N
16
UniProt
VAR_002682
A
156
V
IL2RG_HUMAN
Disease (XSCID)
---
C
A
134
V
17
UniProt
VAR_002683
L
162
H
IL2RG_HUMAN
Disease (XSCID)
---
C
L
140
H
18
UniProt
VAR_002684
L
172
P
IL2RG_HUMAN
Disease (XSCID)
---
C
L
150
P
19
UniProt
VAR_002685
L
172
Q
IL2RG_HUMAN
Disease (XSCID)
---
C
L
150
Q
20
UniProt
VAR_002686
C
182
R
IL2RG_HUMAN
Disease (XSCID)
---
C
C
160
R
21
UniProt
VAR_002687
L
183
S
IL2RG_HUMAN
Disease (XSCID)
---
C
L
161
S
22
UniProt
VAR_002688
R
222
C
IL2RG_HUMAN
Disease (XCID)
---
C
R
200
C
23
UniProt
VAR_002689
R
224
W
IL2RG_HUMAN
Disease (XSCID)
---
C
R
202
W
24
UniProt
VAR_002690
R
226
C
IL2RG_HUMAN
Disease (XSCID)
---
C
R
204
C
25
UniProt
VAR_002691
R
226
H
IL2RG_HUMAN
Disease (XSCID)
---
C
R
204
H
26
UniProt
VAR_002692
F
227
C
IL2RG_HUMAN
Disease (XSCID)
---
C
F
205
C
27
UniProt
VAR_002693
L
230
P
IL2RG_HUMAN
Disease (XSCID)
---
C
L
208
P
28
UniProt
VAR_002694
C
231
Y
IL2RG_HUMAN
Disease (XSCID)
---
C
C
209
Y
29
UniProt
VAR_002695
G
232
R
IL2RG_HUMAN
Disease (XSCID)
---
C
G
210
R
30
UniProt
VAR_002697
W
240
C
IL2RG_HUMAN
Disease (XSCID)
---
C
W
218
C
31
UniProt
VAR_002698
S
241
I
IL2RG_HUMAN
Disease (XSCID)
---
C
S
219
I
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(4, 7)
Info
All PROSITE Patterns/Profiles
1: SUSHI (A:1-63,A:102-165)
2: INTERLEUKIN_2 (D:51-63)
3: FN3 (C:134-226)
4: HEMATOPO_REC_S_F1 (C:191-224)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
SUSHI
PS50923
Sushi/CCP/SCR domain profile.
IL2RA_HUMAN
22-84
123-186
2
A:1-63
-
A:102-165
-
2
INTERLEUKIN_2
PS00424
Interleukin-2 signature.
IL2_HUMAN
71-83
1
D:51-63
-
3
FN3
PS50853
Fibronectin type-III domain profile.
IL2RB_HUMAN
134-234
1
B:108-206
-
IL2RG_HUMAN
156-253
1
C:134-226
-
4
HEMATOPO_REC_S_F1
PS01355
Short hematopoietin receptor family 1 signature.
IL2RB_HUMAN
198-229
1
B:172-203
-
IL2RG_HUMAN
213-246
1
C:191-224
-
[
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]
Exons
(0, 0)
Info
All Exons
View:
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All Exon Boundaries
View:
Label:
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
(4, 14)
Info
All SCOP Domains
1a: SCOP_d2erjd_ (D:)
1b: SCOP_d2erjh_ (H:)
2a: SCOP_d2erjc1 (C:32-129)
2b: SCOP_d2erjc2 (C:130-226)
2c: SCOP_d2erjg1 (G:32-129)
2d: SCOP_d2erjg2 (G:130-226)
3a: SCOP_d2erjb1 (B:104-206)
3b: SCOP_d2erjb2 (B:6-103)
3c: SCOP_d2erjf1 (F:104-209)
3d: SCOP_d2erjf2 (F:6-103)
4a: SCOP_d2erja1 (A:100-165)
4b: SCOP_d2erja2 (A:1-64)
4c: SCOP_d2erje1 (E:100-165)
4d: SCOP_d2erje2 (E:1-64)
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(
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(
)
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
4-helical cytokines
(168)
Superfamily
:
4-helical cytokines
(168)
Family
:
Short-chain cytokines
(78)
Protein domain
:
Interleukin-2 (IL-2)
(16)
Human (Homo sapiens) [TaxId: 9606]
(16)
1a
d2erjd_
D:
1b
d2erjh_
H:
Class
:
All beta proteins
(24004)
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
Fibronectin type III
(212)
Family
:
Fibronectin type III
(180)
Protein domain
:
Cytokine receptor common gamma chain
(4)
Human (Homo sapiens) [TaxId: 9606]
(4)
2a
d2erjc1
C:32-129
2b
d2erjc2
C:130-226
2c
d2erjg1
G:32-129
2d
d2erjg2
G:130-226
Protein domain
:
Interleukin-2 receptor beta chain
(3)
Human (Homo sapiens) [TaxId: 9606]
(3)
3a
d2erjb1
B:104-206
3b
d2erjb2
B:6-103
3c
d2erjf1
F:104-209
3d
d2erjf2
F:6-103
Class
:
Small proteins
(3458)
Fold
:
Complement control module/SCR domain
(70)
Superfamily
:
Complement control module/SCR domain
(70)
Family
:
Complement control module/SCR domain
(67)
Protein domain
:
Interleukin-2 receptor alpha chain
(4)
Human (Homo sapiens) [TaxId: 9606]
(4)
4a
d2erja1
A:100-165
4b
d2erja2
A:1-64
4c
d2erje1
E:100-165
4d
d2erje2
E:1-64
[
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_2erjD00 (D:3-133)
1b: CATH_2erjH00 (H:3-133)
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Organisms
(
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(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Growth Hormone; Chain: A;
(136)
Homologous Superfamily
:
[code=1.20.1250.10, no name defined]
(130)
Human (Homo sapiens)
(110)
1a
2erjD00
D:3-133
1b
2erjH00
H:3-133
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Label:
Sorry, no Info available
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