PLEASE WAIT...
Getting 'Biological Unit' information from database.
PLEASE WAIT...
Getting 'Hetero Component' information from database.
PLEASE WAIT...
Getting 'Site' information from database.
PLEASE WAIT...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
3BPN
Asym. Unit
Info
Asym.Unit (111 KB)
Biol.Unit 1 (104 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
CRYSTAL STRUCTURE OF THE IL4-IL4R-IL13RA TERNARY COMPLEX
Authors
:
K. C. Garcia
Date
:
18 Dec 07 (Deposition) - 05 Feb 08 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.02
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (1x)
Keywords
:
Il4, Il13, Il13R, Il4R, Cytokine, Receptor, B-Cell Activation, Glycoprotein, Growth Factor, Secreted, Immune Response, Membrane, Phosphoprotein, Transmembrane, Cytokine-Cytokine Receptor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. L. Laporte, Z. S. Juo, J. Vaclavikova, L. A. Colf, X. Qi, N. M. Heller, A. D. Keegan, K. C. Garcia
Molecular And Structural Basis Of Cytokine Receptor Pleiotropy In The Interleukin-4/13 System.
Cell(Cambridge, Mass. ) V. 132 259 2008
[
close entry info
]
Hetero Components
(1, 2)
Info
All Hetero Components
1a: N-ACETYL-D-GLUCOSAMINE (NAGa)
1b: N-ACETYL-D-GLUCOSAMINE (NAGb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
NAG
2
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
close Hetero Component info
]
Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASN B:103 , HOH B:917
BINDING SITE FOR RESIDUE NAG B 901
2
AC2
SOFTWARE
ASN B:184
BINDING SITE FOR RESIDUE NAG B 911
[
close Site info
]
SAPs(SNPs)/Variants
(4, 4)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_020392 (C3R, chain A, )
2: VAR_059302 (I50F, chain B, )
3: VAR_059303 (I50L, chain B, )
4: VAR_008034 (I50V, chain B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_020392
C
27
R
IL4_HUMAN
Polymorphism
4986964
A
C
3
R
2
UniProt
VAR_059302
I
75
F
IL4RA_HUMAN
Polymorphism
1805010
B
I
50
F
3
UniProt
VAR_059303
I
75
L
IL4RA_HUMAN
Polymorphism
1805010
B
I
50
L
4
UniProt
VAR_008034
I
75
V
IL4RA_HUMAN
Polymorphism
1805010
B
I
50
V
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(4, 7)
Info
All PROSITE Patterns/Profiles
1: INTERLEUKIN_4_13 (A:7-32)
2: FN3 (C:34-123|C:227-338|C:128-226,B:100...)
3: HEMATOPO_REC_S_F2 (C:142-173)
4: HEMATOPO_REC_S_F1 (B:166-196)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
INTERLEUKIN_4_13
PS00838
Interleukins -4 and -13 signature.
IL4_HUMAN
31-56
1
A:7-32
2
FN3
PS50853
Fibronectin type-III domain profile.
I13R1_HUMAN
34-123
227-339
128-226
3
C:34-123
C:227-338
C:128-226
IL4RA_HUMAN
125-224
1
B:100-198
3
HEMATOPO_REC_S_F2
PS01356
Short hematopoietin receptor family 2 signature.
I13R1_HUMAN
142-173
1
C:142-173
4
HEMATOPO_REC_S_F1
PS01355
Short hematopoietin receptor family 1 signature.
IL4RA_HUMAN
191-221
1
B:166-196
[
close PROSITE info
]
Exons
(17, 17)
Info
All Exons
Exon 1.1a (A:3-21)
Exon 1.2b (A:22-37)
Exon 1.3b (A:38-96)
Exon 1.4b (A:97-128)
Exon 2.1a (C:30-30)
Exon 2.2 (C:30-76)
Exon 2.3 (C:77-123)
Exon 2.4a (C:123-163)
Exon 2.5 (C:163-226 (gaps))
Exon 2.7a (C:226-276)
Exon 2.8 (C:277-292 (gaps))
Exon 2.9b (C:293-337)
Exon 2.11 (C:337-338)
Exon 3.5 (B:0-45)
Exon 3.6 (B:45-96)
Exon 3.7 (B:96-146)
Exon 3.8 (B:147-198)
View:
Select:
Label:
All Exon Boundaries
01: Boundary -/1.1a
02: Boundary 1.1a/1.2b
03: Boundary 1.2b/1.3b
04: Boundary 1.3b/1.4b
05: Boundary 1.4b/-
06: Boundary -/2.1a
07: Boundary 2.1a/2.2
08: Boundary 2.2/2.3
09: Boundary 2.3/2.4a
10: Boundary 2.4a/2.5
11: Boundary 2.5/2.7a
12: Boundary 2.7a/2.8
13: Boundary 2.8/2.9b
14: Boundary 2.9b/2.11
15: Boundary 2.11/2.12
16: Boundary 3.3b/3.5
17: Boundary 3.5/3.6
18: Boundary 3.6/3.7
19: Boundary 3.7/3.8
20: Boundary 3.8/3.10
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
ENST00000231449
1a
ENSE00001334422
chr5:
132009678-132009877
200
IL4_HUMAN
1-45
45
1
A:3-21
19
1.2b
ENST00000231449
2b
ENSE00000763068
chr5:
132010151-132010198
48
IL4_HUMAN
46-61
16
1
A:22-37
16
1.3b
ENST00000231449
3b
ENSE00000763067
chr5:
132015406-132015582
177
IL4_HUMAN
62-120
59
1
A:38-96
59
1.4b
ENST00000231449
4b
ENSE00000854399
chr5:
132018178-132018368
191
IL4_HUMAN
121-153
33
1
A:97-128
32
2.1a
ENST00000371666
1a
ENSE00001455886
X:117861535-117861689
155
I13R1_HUMAN
1-30
30
1
C:30-30
1
2.2
ENST00000371666
2
ENSE00001125702
X:117874980-117875119
140
I13R1_HUMAN
30-76
47
1
C:30-76
47
2.3
ENST00000371666
3
ENSE00001125697
X:117880917-117881055
139
I13R1_HUMAN
77-123
47
1
C:77-123
47
2.4a
ENST00000371666
4a
ENSE00001125692
X:117883621-117883741
121
I13R1_HUMAN
123-163
41
1
C:123-163
41
2.5
ENST00000371666
5
ENSE00001125685
X:117892018-117892205
188
I13R1_HUMAN
163-226
64
1
C:163-226 (gaps)
64
2.7a
ENST00000371666
7a
ENSE00000899851
X:117895101-117895252
152
I13R1_HUMAN
226-276
51
1
C:226-276
51
2.8
ENST00000371666
8
ENSE00000899852
X:117900493-117900540
48
I13R1_HUMAN
277-292
16
1
C:277-292 (gaps)
16
2.9b
ENST00000371666
9b
ENSE00000899853
X:117900807-117900939
133
I13R1_HUMAN
293-337
45
1
C:293-337
45
2.11
ENST00000371666
11
ENSE00000899854
X:117907842-117907938
97
I13R1_HUMAN
337-369
33
1
C:337-338
2
2.12
ENST00000371666
12
ENSE00000899855
X:117910390-117910474
85
I13R1_HUMAN
369-397
29
0
-
-
2.13b
ENST00000371666
13b
ENSE00001896146
X:117925725-117928502
2778
I13R1_HUMAN
398-427
30
0
-
-
3.1c
ENST00000395762
1c
ENSE00001522740
chr16:
27325252-27325341
90
IL4RA_HUMAN
-
0
0
-
-
3.2
ENST00000395762
2
ENSE00001522738
chr16:
27341387-27341519
133
IL4RA_HUMAN
-
0
0
-
-
3.3b
ENST00000395762
3b
ENSE00001522737
chr16:
27351507-27351594
88
IL4RA_HUMAN
1-24
24
0
-
-
3.5
ENST00000395762
5
ENSE00000681600
chr16:
27353442-27353580
139
IL4RA_HUMAN
24-70
47
1
B:0-45
46
3.6
ENST00000395762
6
ENSE00000411237
chr16:
27356190-27356341
152
IL4RA_HUMAN
70-121
52
1
B:45-96
52
3.7
ENST00000395762
7
ENSE00000681616
chr16:
27357788-27357939
152
IL4RA_HUMAN
121-171
51
1
B:96-146
51
3.8
ENST00000395762
8
ENSE00000681622
chr16:
27363861-27364017
157
IL4RA_HUMAN
172-224
53
1
B:147-198
52
3.10
ENST00000395762
10
ENSE00000681627
chr16:
27367129-27367228
100
IL4RA_HUMAN
224-257
34
0
-
-
3.11
ENST00000395762
11
ENSE00000681633
chr16:
27370237-27370315
79
IL4RA_HUMAN
257-283
27
0
-
-
3.12
ENST00000395762
12
ENSE00000830176
chr16:
27372087-27372136
50
IL4RA_HUMAN
284-300
17
0
-
-
3.13b
ENST00000395762
13b
ENSE00001522736
chr16:
27373573-27376099
2527
IL4RA_HUMAN
300-825
526
0
-
-
[
close EXON info
]
SCOP Domains
(2, 3)
Info
All SCOP Domains
1a: SCOP_d3bpna_ (A:)
2a: SCOP_d3bpnb1 (B:0-96)
2b: SCOP_d3bpnb2 (B:97-198)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
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-4 (IL-4)
(16)
Human (Homo sapiens) [TaxId: 9606]
(16)
1a
d3bpna_
A:
Class
:
All beta proteins
(24004)
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
Fibronectin type III
(212)
Family
:
Fibronectin type III
(180)
Protein domain
:
automated matches
(23)
Human (Homo sapiens) [TaxId: 9606]
(23)
2a
d3bpnb1
B:0-96
2b
d3bpnb2
B:97-198
[
close SCOP info
]
CATH Domains
(2, 3)
Info
all CATH domains
1a: CATH_3bpnA00 (A:3-128)
2a: CATH_3bpnB01 (B:0-96)
2b: CATH_3bpnB02 (B:97-198)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
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
3bpnA00
A:3-128
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
Human (Homo sapiens)
(912)
2a
3bpnB01
B:0-96
2b
3bpnB02
B:97-198
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Chain B
Chain C
Asymmetric Unit 1
Rendering
(selected part)
Molecule Coloring
(selected part)
by Chain (Asym. Unit)
by Chain (Biol. Unit)
by Secondary Structure
by Atom (CPK)
by SCOP Domain
by CATH Domain
by Pfam Domain
by Asymmetric Unit
by Exon
by Amino Acid
by Nucleotide
by Temperature
by Charge
by Rainbow (Group)
by Custom Color
Background Coloring
Choose
molecule
background
color...
[
close
]
RGB value
(e.g.: "#3cb371" or "60,179,113")
Stereo
Graphics Window
x
pixel
Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
[
close Script example commands
]
Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
QuickSearch:
by PDB,NDB,UniProt,PROSITE Code or
Search Term(s)
Show PDB file:
Asym.Unit (111 KB)
Header - Asym.Unit
Biol.Unit 1 (104 KB)
Header - Biol.Unit 1
Plain Text
HTML (compressed size)
use JSmol [Javascript]
use Jmol [Java applet]
Upload:
Select a local file
OR
Enter a remote file address
You can upload any molecular structure file format that is recognized by Jmol,
e.g.: PDB, mmCif, CIF, CML, MOL, XYZ
(also compressed with 'gzip', see the
Jmol documentation
for a complete list)
JenaLib Atlas Page
|
Sequence/Alignment View
3BPN
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help