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2Q7N
Asym. Unit
Info
Asym.Unit (234 KB)
Biol.Unit 1 (107 KB)
Biol.Unit 2 (107 KB)
Biol.Unit 3 (411 KB)
Biol.Unit 4 (410 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF LEUKEMIA INHIBITORY FACTOR IN COMPLEX WITH LIF RECEPTOR (DOMAINS 1-5)
Authors
:
T. Huyton, J. G. Zhang, N. A. Nicola, T. P. J. Garrett
Date
:
07 Jun 07 (Deposition) - 31 Jul 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
4.00
Chains
:
Asym. Unit : A,B,C,D,E
#
,F
#
,G
#
,H
#
,I
#
,J
#
,K
#
,L
#
,M
#
,N
#
,O
#
,P
#
,Q
#
,R
#
,S
#
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: A,B,C,D (2x)
Biol. Unit 4: A,B,C,D (2x)
(
#
: chains that contain no standard or modified protein/DNA/RNA residue)
Keywords
:
Cytokine Cell Surface Receptor Complex Lifr Lif, Cytokine Receptor- Cytokine Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
T. Huyton, J. G. Zhang, C. S. Luo, M. Z. Lou, D. J. Hilton, N. A. Nicola, T. P. Garrett
An Unusual Cytokine:Ig-Domain Interaction Revealed In The Crystal Structure Of Leukemia Inhibitory Factor (Lif) In Complex With The Lif Receptor.
Proc. Natl. Acad. Sci. Usa V. 104 12737 2007
[
close entry info
]
Hetero Components
(3, 45)
Info
All Hetero Components
1a: ALPHA-L-FUCOSE (FUCa)
1b: ALPHA-L-FUCOSE (FUCb)
1c: ALPHA-L-FUCOSE (FUCc)
1d: ALPHA-L-FUCOSE (FUCd)
1e: ALPHA-L-FUCOSE (FUCe)
1f: ALPHA-L-FUCOSE (FUCf)
1g: ALPHA-L-FUCOSE (FUCg)
2a: ALPHA-D-MANNOSE (MANa)
2b: ALPHA-D-MANNOSE (MANb)
2c: ALPHA-D-MANNOSE (MANc)
2d: ALPHA-D-MANNOSE (MANd)
2e: ALPHA-D-MANNOSE (MANe)
3a: N-ACETYL-D-GLUCOSAMINE (NAGa)
3aa: N-ACETYL-D-GLUCOSAMINE (NAGaa)
3ab: N-ACETYL-D-GLUCOSAMINE (NAGab)
3ac: N-ACETYL-D-GLUCOSAMINE (NAGac)
3ad: N-ACETYL-D-GLUCOSAMINE (NAGad)
3ae: N-ACETYL-D-GLUCOSAMINE (NAGae)
3af: N-ACETYL-D-GLUCOSAMINE (NAGaf)
3ag: N-ACETYL-D-GLUCOSAMINE (NAGag)
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)
3t: N-ACETYL-D-GLUCOSAMINE (NAGt)
3u: N-ACETYL-D-GLUCOSAMINE (NAGu)
3v: N-ACETYL-D-GLUCOSAMINE (NAGv)
3w: N-ACETYL-D-GLUCOSAMINE (NAGw)
3x: N-ACETYL-D-GLUCOSAMINE (NAGx)
3y: N-ACETYL-D-GLUCOSAMINE (NAGy)
3z: N-ACETYL-D-GLUCOSAMINE (NAGz)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
FUC
7
Ligand/Ion
ALPHA-L-FUCOSE
2
MAN
5
Ligand/Ion
ALPHA-D-MANNOSE
3
NAG
33
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
close Hetero Component info
]
Sites
(45, 45)
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: AD1 (SOFTWARE)
11: AD2 (SOFTWARE)
12: AD3 (SOFTWARE)
13: AD4 (SOFTWARE)
14: BC3 (SOFTWARE)
15: BC4 (SOFTWARE)
16: BC5 (SOFTWARE)
17: BC6 (SOFTWARE)
18: BC7 (SOFTWARE)
19: BC8 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
36: DC9 (SOFTWARE)
37: EC1 (SOFTWARE)
38: EC2 (SOFTWARE)
39: EC3 (SOFTWARE)
40: EC4 (SOFTWARE)
41: EC5 (SOFTWARE)
42: EC6 (SOFTWARE)
43: EC7 (SOFTWARE)
44: EC8 (SOFTWARE)
45: EC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:121 , FUC E:102 , NAG E:103
BINDING SITE FOR RESIDUE NAG E 101
02
AC2
SOFTWARE
HIS A:175 , NAG E:101
BINDING SITE FOR RESIDUE FUC E 102
03
AC3
SOFTWARE
NAG E:101
BINDING SITE FOR RESIDUE NAG E 103
04
AC4
SOFTWARE
LEU A:106 , ASN A:156 , NAG F:203
BINDING SITE FOR RESIDUE NAG F 201
05
AC5
SOFTWARE
LYS D:136 , NAG F:201
BINDING SITE FOR RESIDUE NAG F 203
06
AC6
SOFTWARE
LEU A:193 , ASN A:195 , NAG G:302
BINDING SITE FOR RESIDUE NAG G 301
07
AC7
SOFTWARE
NAG G:301
BINDING SITE FOR RESIDUE NAG G 302
08
AC8
SOFTWARE
ASN A:218 , FUC H:402 , NAG H:403
BINDING SITE FOR RESIDUE NAG H 401
09
AC9
SOFTWARE
NAG H:401
BINDING SITE FOR RESIDUE FUC H 402
10
AD1
SOFTWARE
NAG H:401
BINDING SITE FOR RESIDUE NAG H 403
11
AD2
SOFTWARE
ASN A:342 , FUC I:502 , NAG I:503
BINDING SITE FOR RESIDUE NAG I 501
12
AD3
SOFTWARE
MAN J:703
BINDING SITE FOR RESIDUE MAN J 704
13
AD4
SOFTWARE
ASN A:397 , SER A:398 , THR A:399 , ALA B:117 , FUC K:802 , NAG K:803
BINDING SITE FOR RESIDUE NAG K 801
14
BC3
SOFTWARE
ASN A:342 , ASP C:35 , NAG I:501
BINDING SITE FOR RESIDUE FUC I 502
15
BC4
SOFTWARE
NAG I:501
BINDING SITE FOR RESIDUE NAG I 503
16
BC5
SOFTWARE
ASN A:359
BINDING SITE FOR RESIDUE NAG A 601
17
BC6
SOFTWARE
GLU A:356 , ASN A:378 , GLU A:381 , NAG J:702
BINDING SITE FOR RESIDUE NAG J 701
18
BC7
SOFTWARE
NAG J:701 , MAN J:703
BINDING SITE FOR RESIDUE NAG J 702
19
BC8
SOFTWARE
NAG J:702 , MAN J:704
BINDING SITE FOR RESIDUE MAN J 703
20
CC2
SOFTWARE
NAG K:801
BINDING SITE FOR RESIDUE FUC K 802
21
CC3
SOFTWARE
ASP A:449 , GLY B:35 , SER B:36 , LYS B:114 , NAG K:801 , MAN K:804
BINDING SITE FOR RESIDUE NAG K 803
22
CC4
SOFTWARE
NAG K:803
BINDING SITE FOR RESIDUE MAN K 804
23
CC5
SOFTWARE
ASN A:410 , GLU A:440 , NAG L:902
BINDING SITE FOR RESIDUE NAG L 901
24
CC6
SOFTWARE
NAG L:901
BINDING SITE FOR RESIDUE NAG L 902
25
CC7
SOFTWARE
ASN C:121 , THR C:144 , NAG M:102
BINDING SITE FOR RESIDUE NAG M 101
26
CC8
SOFTWARE
NAG M:101
BINDING SITE FOR RESIDUE NAG M 102
27
CC9
SOFTWARE
ALA C:98 , SER C:104 , ASN C:156
BINDING SITE FOR RESIDUE NAG C 501
28
DC1
SOFTWARE
ASN C:195
BINDING SITE FOR RESIDUE NAG C 601
29
DC2
SOFTWARE
ASN C:218 , FUC N:402 , NAG N:403
BINDING SITE FOR RESIDUE NAG N 401
30
DC3
SOFTWARE
NAG N:401 , NAG N:403
BINDING SITE FOR RESIDUE FUC N 402
31
DC4
SOFTWARE
NAG N:401 , FUC N:402
BINDING SITE FOR RESIDUE NAG N 403
32
DC5
SOFTWARE
ASN C:342 , FUC O:502 , NAG O:503
BINDING SITE FOR RESIDUE NAG O 501
33
DC6
SOFTWARE
NAG O:501
BINDING SITE FOR RESIDUE FUC O 502
34
DC7
SOFTWARE
NAG O:501
BINDING SITE FOR RESIDUE NAG O 503
35
DC8
SOFTWARE
ASN C:359 , NAG P:603
BINDING SITE FOR RESIDUE NAG P 601
36
DC9
SOFTWARE
NAG P:601
BINDING SITE FOR RESIDUE NAG P 603
37
EC1
SOFTWARE
ASN C:378 , THR C:380 , GLU C:381 , NAG Q:703
BINDING SITE FOR RESIDUE NAG Q 701
38
EC2
SOFTWARE
NAG Q:701
BINDING SITE FOR RESIDUE NAG Q 703
39
EC3
SOFTWARE
ASN C:397 , THR C:399 , FUC R:802 , NAG R:803
BINDING SITE FOR RESIDUE NAG R 801
40
EC4
SOFTWARE
NAG R:801
BINDING SITE FOR RESIDUE FUC R 802
41
EC5
SOFTWARE
GLN D:32 , SER D:36 , NAG R:801 , MAN R:804
BINDING SITE FOR RESIDUE NAG R 803
42
EC6
SOFTWARE
GLY D:35 , NAG R:803 , MAN R:805
BINDING SITE FOR RESIDUE MAN R 804
43
EC7
SOFTWARE
MAN R:804
BINDING SITE FOR RESIDUE MAN R 805
44
EC8
SOFTWARE
GLY C:354 , ASN C:410 , GLU C:440 , NAG S:902
BINDING SITE FOR RESIDUE NAG S 901
45
EC9
SOFTWARE
HIS C:352 , NAG S:901
BINDING SITE FOR RESIDUE NAG S 902
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 6)
Info
All PROSITE Patterns/Profiles
1: LIF_OSM (B:151-170,D:151-170)
2: FN3 (A:287-386,C:287-386|A:387-486,C:38...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
LIF_OSM
PS00590
LIF / OSM family signature.
LIF_HUMAN
173-192
2
B:151-170
D:151-170
2
FN3
PS50853
Fibronectin type-III domain profile.
LIFR_MOUSE
330-429
430-529
533-624
719-828
4
A:287-386
C:287-386
A:387-486
C:387-486
-
-
[
close PROSITE info
]
Exons
(2, 4)
Info
All Exons
Exon 1.2 (B:1-44 | D:1-44)
Exon 1.3b (B:45-180 | D:45-180)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.1a/1.2
2: Boundary 1.2/1.3b
3: Boundary 1.3b/-
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
ENST00000249075
1a
ENSE00001551728
chr22:
30642840-30642666
175
LIF_HUMAN
1-7
7
0
-
-
1.2
ENST00000249075
2
ENSE00000879785
chr22:
30640922-30640744
179
LIF_HUMAN
7-66
60
2
B:1-44
D:1-44
44
44
1.3b
ENST00000249075
3b
ENSE00001215846
chr22:
30640050-30636436
3615
LIF_HUMAN
67-202
136
2
B:45-180
D:45-180
136
136
[
close EXON info
]
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d2q7nb1 (B:12-180)
1b: SCOP_d2q7nd1 (D:12-180)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
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(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
4-helical cytokines
(168)
Superfamily
:
4-helical cytokines
(168)
Family
:
Long-chain cytokines
(46)
Protein domain
:
Leukemia inhibitory factor (LIF)
(5)
Human (Homo sapiens) [TaxId: 9606]
(3)
1a
d2q7nb1
B:12-180
1b
d2q7nd1
D:12-180
[
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]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
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Pfam Domains
(2, 4)
Info
all PFAM domains
1a: PFAM_LIF_OSM_2q7nD01 (D:21-180)
1b: PFAM_LIF_OSM_2q7nD02 (D:21-180)
2a: PFAM_fn3_2q7nC01 (C:386-475)
2b: PFAM_fn3_2q7nC02 (C:386-475)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
4H_Cytokine
(48)
Family
:
LIF_OSM
(2)
Homo sapiens (Human)
(1)
1a
LIF_OSM-2q7nD01
D:21-180
1b
LIF_OSM-2q7nD02
D:21-180
Clan
:
E-set
(290)
Family
:
fn3
(66)
Mus musculus (Mouse)
(7)
2a
fn3-2q7nC01
C:386-475
2b
fn3-2q7nC02
C:386-475
[
close Pfam info
]
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Asym.Unit (234 KB)
Header - Asym.Unit
Biol.Unit 1 (107 KB)
Header - Biol.Unit 1
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Biol.Unit 3 (411 KB)
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