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2Q7N
Biol. Unit 4
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
[
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Hetero Components
(1, 6)
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
-1
Ligand/Ion
ALPHA-L-FUCOSE
2
MAN
-1
Ligand/Ion
ALPHA-D-MANNOSE
3
NAG
6
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
close Hetero Component info
]
Sites
(25, 25)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC4 (SOFTWARE)
04: AC5 (SOFTWARE)
05: AC6 (SOFTWARE)
06: AC8 (SOFTWARE)
07: AD2 (SOFTWARE)
08: AD4 (SOFTWARE)
09: BC3 (SOFTWARE)
10: BC5 (SOFTWARE)
11: BC6 (SOFTWARE)
12: CC3 (SOFTWARE)
13: CC5 (SOFTWARE)
14: CC7 (SOFTWARE)
15: CC9 (SOFTWARE)
16: DC1 (SOFTWARE)
17: DC2 (SOFTWARE)
18: DC5 (SOFTWARE)
19: DC8 (SOFTWARE)
20: EC1 (SOFTWARE)
21: EC3 (SOFTWARE)
22: EC5 (SOFTWARE)
23: EC6 (SOFTWARE)
24: EC8 (SOFTWARE)
25: 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
AC4
SOFTWARE
LEU A:106 , ASN A:156 , NAG F:203
BINDING SITE FOR RESIDUE NAG F 201
04
AC5
SOFTWARE
LYS D:136 , NAG F:201
BINDING SITE FOR RESIDUE NAG F 203
05
AC6
SOFTWARE
LEU A:193 , ASN A:195 , NAG G:302
BINDING SITE FOR RESIDUE NAG G 301
06
AC8
SOFTWARE
ASN A:218 , FUC H:402 , NAG H:403
BINDING SITE FOR RESIDUE NAG H 401
07
AD2
SOFTWARE
ASN A:342 , FUC I:502 , NAG I:503
BINDING SITE FOR RESIDUE NAG I 501
08
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
09
BC3
SOFTWARE
ASN A:342 , ASP C:35 , NAG I:501
BINDING SITE FOR RESIDUE FUC I 502
10
BC5
SOFTWARE
ASN A:359
BINDING SITE FOR RESIDUE NAG A 601
11
BC6
SOFTWARE
GLU A:356 , ASN A:378 , GLU A:381 , NAG J:702
BINDING SITE FOR RESIDUE NAG J 701
12
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
13
CC5
SOFTWARE
ASN A:410 , GLU A:440 , NAG L:902
BINDING SITE FOR RESIDUE NAG L 901
14
CC7
SOFTWARE
ASN C:121 , THR C:144 , NAG M:102
BINDING SITE FOR RESIDUE NAG M 101
15
CC9
SOFTWARE
ALA C:98 , SER C:104 , ASN C:156
BINDING SITE FOR RESIDUE NAG C 501
16
DC1
SOFTWARE
ASN C:195
BINDING SITE FOR RESIDUE NAG C 601
17
DC2
SOFTWARE
ASN C:218 , FUC N:402 , NAG N:403
BINDING SITE FOR RESIDUE NAG N 401
18
DC5
SOFTWARE
ASN C:342 , FUC O:502 , NAG O:503
BINDING SITE FOR RESIDUE NAG O 501
19
DC8
SOFTWARE
ASN C:359 , NAG P:603
BINDING SITE FOR RESIDUE NAG P 601
20
EC1
SOFTWARE
ASN C:378 , THR C:380 , GLU C:381 , NAG Q:703
BINDING SITE FOR RESIDUE NAG Q 701
21
EC3
SOFTWARE
ASN C:397 , THR C:399 , FUC R:802 , NAG R:803
BINDING SITE FOR RESIDUE NAG R 801
22
EC5
SOFTWARE
GLN D:32 , SER D:36 , NAG R:801 , MAN R:804
BINDING SITE FOR RESIDUE NAG R 803
23
EC6
SOFTWARE
GLY D:35 , NAG R:803 , MAN R:805
BINDING SITE FOR RESIDUE MAN R 804
24
EC8
SOFTWARE
GLY C:354 , ASN C:410 , GLU C:440 , NAG S:902
BINDING SITE FOR RESIDUE NAG S 901
25
EC9
SOFTWARE
HIS C:352 , NAG S:901
BINDING SITE FOR RESIDUE NAG S 902
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
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PROSITE Patterns/Profiles
(2, 12)
Info
All PROSITE Patterns/Profiles
1: LIF_OSM (B:151-170,D:151-170)
2: FN3 (A:287-386,A:387-486,C:387-486|-|-)
;
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
4
B:151-170
D:151-170
2
FN3
PS50853
Fibronectin type-III domain profile.
LIFR_MOUSE
330-429
430-529
533-624
719-828
8
A:287-386
C:287-386
A:387-486
C:387-486
-
-
[
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Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
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
(1, 2)
Info
All SCOP Domains
1a: SCOP_d2q7nb1 (B:12-180)
1b: SCOP_d2q7nd1 (D:12-180)
View:
Select:
Label:
Classes
(
)
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Folds
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Superfamilies
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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
:
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:
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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
(
)
(
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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
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Chain E
Chain F
Chain G
Chain H
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Chain J
Chain K
Chain L
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Asym.Unit (234 KB)
Header - Asym.Unit
Biol.Unit 1 (107 KB)
Header - Biol.Unit 1
Biol.Unit 2 (107 KB)
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Biol.Unit 3 (411 KB)
Header - Biol.Unit 3
Biol.Unit 4 (410 KB)
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