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3DJI
Asym. Unit
Info
Asym.Unit (117 KB)
Biol.Unit 1 (58 KB)
Biol.Unit 2 (57 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF MACROPHAGE MIGRATION INHIBITORY FACTOR BOUND TO AN ACETAMINOPHEN DIMER DERIVED FROM NAPQI
Authors
:
G. V. Crichlow, E. Lolis
Date
:
23 Jun 08 (Deposition) - 23 Dec 08 (Release) - 13 Aug 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.95
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C (1x)
Biol. Unit 2: D,E,F (1x)
Keywords
:
Homotrimer, Acetaminophen Dimer, Cytokine, Inflammatory Response, Isomerase, Phosphoprotein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
G. V. Crichlow, J. B. Lubetsky, L. Leng, R. Bucala, E. J. Lolis
Structural And Kinetic Analyses Of Macrophage Migration Inhibitory Factor Active Site Interactions.
Biochemistry V. 48 132 2009
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Hetero Components
(2, 16)
Info
All Hetero Components
1a: N,N'-(6,6'-DIHYDROXYBIPHENYL-3,3'-... (3E1a)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
2c: CHLORIDE ION (CLc)
2d: CHLORIDE ION (CLd)
2e: CHLORIDE ION (CLe)
2f: CHLORIDE ION (CLf)
2g: CHLORIDE ION (CLg)
2h: CHLORIDE ION (CLh)
2i: CHLORIDE ION (CLi)
2j: CHLORIDE ION (CLj)
2k: CHLORIDE ION (CLk)
2l: CHLORIDE ION (CLl)
2m: CHLORIDE ION (CLm)
2n: CHLORIDE ION (CLn)
2o: CHLORIDE ION (CLo)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
3E1
1
Ligand/Ion
N,N'-(6,6'-DIHYDROXYBIPHENYL-3,3'-DIYL)DIACETAMIDE
2
CL
15
Ligand/Ion
CHLORIDE ION
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Sites
(16, 16)
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: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLY A:68 , GLY A:69 , ALA A:70 , GLN A:71
BINDING SITE FOR RESIDUE CL A 601
02
AC2
SOFTWARE
ASN A:102 , ASN A:105 , HOH C:312
BINDING SITE FOR RESIDUE CL A 602
03
AC3
SOFTWARE
ARG A:11
BINDING SITE FOR RESIDUE CL A 603
04
AC4
SOFTWARE
TYR A:95 , LYS B:32 , TYR B:36 , HOH B:334 , HOH B:351
BINDING SITE FOR RESIDUE 3E1 B 201
05
AC5
SOFTWARE
GLY B:68 , GLY B:69 , ALA B:70 , GLN B:71
BINDING SITE FOR RESIDUE CL B 202
06
AC6
SOFTWARE
GLY B:17 , PHE B:18 , LEU B:19
BINDING SITE FOR RESIDUE CL B 203
07
AC7
SOFTWARE
ASN B:102 , ASN B:105
BINDING SITE FOR RESIDUE CL B 204
08
AC8
SOFTWARE
GLY C:68 , ALA C:70 , GLN C:71
BINDING SITE FOR RESIDUE CL C 201
09
AC9
SOFTWARE
ASN C:102 , ASN C:105
BINDING SITE FOR RESIDUE CL C 202
10
BC1
SOFTWARE
HOH B:305 , GLN C:35 , HOH C:314
BINDING SITE FOR RESIDUE CL C 203
11
BC2
SOFTWARE
GLY D:68 , ALA D:70 , GLN D:71
BINDING SITE FOR RESIDUE CL D 201
12
BC3
SOFTWARE
GLY D:17 , PHE D:18 , LEU D:19 , HOH D:313
BINDING SITE FOR RESIDUE CL D 202
13
BC4
SOFTWARE
ASN D:102 , ASN D:105 , HOH F:321
BINDING SITE FOR RESIDUE CL D 203
14
BC5
SOFTWARE
GLY F:68 , ALA F:70 , GLN F:71
BINDING SITE FOR RESIDUE CL F 201
15
BC6
SOFTWARE
PRO F:34 , GLN F:35
BINDING SITE FOR RESIDUE CL F 202
16
BC7
SOFTWARE
ASN F:102 , ASN F:105
BINDING SITE FOR RESIDUE CL F 203
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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PROSITE Patterns/Profiles
(1, 6)
Info
All PROSITE Patterns/Profiles
1: MIF (A:54-68,B:54-68,C:54-68,D:54-68,E:...)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
MIF
PS01158
Macrophage migration inhibitory factor family signature.
MIF_HUMAN
55-69
6
A:54-68
B:54-68
C:54-68
D:54-68
E:54-68
F:54-68
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Exons
(3, 18)
Info
All Exons
Exon 1.1a (A:1-35 | B:1-35 | C:1-35 | D:1-35 ...)
Exon 1.2b (A:36-93 | B:36-93 | C:36-93 | D:36...)
Exon 1.2d (A:93-114 | B:93-114 | C:93-114 | D...)
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All Exon Boundaries
1: Boundary -/1.1a
2: Boundary 1.1a/1.2b
3: Boundary 1.2b/1.2d
4: Boundary 1.2d/-
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
ENST00000215754
1a
ENSE00001922200
chr22:
24236191-24236769
579
MIF_HUMAN
1-36
36
6
A:1-35
B:1-35
C:1-35
D:1-35
E:1-35
F:1-35
35
35
35
35
35
35
1.2b
ENST00000215754
2b
ENSE00000651496
chr22:
24236959-24237131
173
MIF_HUMAN
37-94
58
6
A:36-93
B:36-93
C:36-93
D:36-93
E:36-93
F:36-93
58
58
58
58
58
58
1.2d
ENST00000215754
2d
ENSE00001839840
chr22:
24237227-24237413
187
MIF_HUMAN
94-115
22
6
A:93-114
B:93-114
C:93-114
D:93-114
E:93-114
F:93-114
22
22
22
22
22
22
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SCOP Domains
(1, 6)
Info
All SCOP Domains
1a: SCOP_d3djia_ (A:)
1b: SCOP_d3djib_ (B:)
1c: SCOP_d3djic_ (C:)
1d: SCOP_d3djid_ (D:)
1e: SCOP_d3djie_ (E:)
1f: SCOP_d3djif_ (F:)
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Protein Domains
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Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Tautomerase/MIF
(104)
Superfamily
:
Tautomerase/MIF
(104)
Family
:
MIF-related
(58)
Protein domain
:
Microphage migration inhibition factor (MIF)
(55)
Human (Homo sapiens) [TaxId: 9606]
(46)
1a
d3djia_
A:
1b
d3djib_
B:
1c
d3djic_
C:
1d
d3djid_
D:
1e
d3djie_
E:
1f
d3djif_
F:
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CATH Domains
(1, 6)
Info
all CATH domains
1a: CATH_3djiA00 (A:1-114)
1b: CATH_3djiB00 (B:1-114)
1c: CATH_3djiC00 (C:1-114)
1d: CATH_3djiD00 (D:1-114)
1e: CATH_3djiE00 (E:1-114)
1f: CATH_3djiF00 (F:1-114)
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Homologous Superfamilies
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)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Macrophage Migration Inhibitory Factor
(40)
Homologous Superfamily
:
Macrophage Migration Inhibitory Factor
(40)
Homo sapiens. Organism_taxid: 9606.
(2)
1a
3djiA00
A:1-114
1b
3djiB00
B:1-114
1c
3djiC00
C:1-114
1d
3djiD00
D:1-114
1e
3djiE00
E:1-114
1f
3djiF00
F:1-114
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Chain F
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Asym.Unit (117 KB)
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