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Asym. Unit
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Asym.Unit (66 KB)
Biol.Unit 1 (62 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF MIF BOUND TO A NOVEL INHIBITOR, OXIM-11
Authors
:
G. V. Crichlow, Y. Al-Abed, E. Lolis
Date
:
25 Jan 07 (Deposition) - 05 Jun 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.85
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (1x)
Keywords
:
Alternative Ligand-Binding Modes, Isomerase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
G. V. Crichlow, K. F. Cheng, D. Dabideen, M. Ochani, B. Aljabari, V. A. Pavlov, E. J. Miller, E. Lolis, Y. Al-Abed
Alternative Chemical Modifications Reverse The Binding Orientation Of A Pharmacophore Scaffold In The Active Site Of Macrophage Migration Inhibitory Factor.
J. Biol. Chem. V. 282 23089 2007
[
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Hetero Components
(3, 12)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
2a: 4-HYDROXYBENZALDEHYDE O-(CYCLOHEXY... (OX3a)
2b: 4-HYDROXYBENZALDEHYDE O-(CYCLOHEXY... (OX3b)
3a: SULFATE ION (SO4a)
3b: SULFATE ION (SO4b)
3c: SULFATE ION (SO4c)
3d: SULFATE ION (SO4d)
3e: SULFATE ION (SO4e)
3f: SULFATE ION (SO4f)
3g: SULFATE ION (SO4g)
3h: SULFATE ION (SO4h)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GOL
2
Ligand/Ion
GLYCEROL
2
OX3
2
Ligand/Ion
4-HYDROXYBENZALDEHYDE O-(CYCLOHEXYLCARBONYL)OXIME
3
SO4
8
Ligand/Ion
SULFATE ION
[
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Sites
(12, 12)
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)
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 , HOH A:400
BINDING SITE FOR RESIDUE SO4 A 901
02
AC2
SOFTWARE
ARG A:73 , HOH A:232 , HOH A:422 , PRO B:15 , ASP B:16 , HOH C:453
BINDING SITE FOR RESIDUE SO4 A 905
03
AC3
SOFTWARE
PRO A:15 , ASP A:16 , HOH A:219 , HOH A:451 , SER B:53
BINDING SITE FOR RESIDUE SO4 A 906
04
AC4
SOFTWARE
ALA A:70 , ARG A:73 , HOH A:228 , HOH A:495 , HOH B:329
BINDING SITE FOR RESIDUE SO4 A 907
05
AC5
SOFTWARE
HIS A:62 , TYR A:99 , HOH A:462 , HIS B:62 , TYR B:99 , HIS C:62 , TYR C:99
BINDING SITE FOR RESIDUE SO4 A 908
06
AC6
SOFTWARE
GLY B:68 , GLY B:69 , ALA B:70 , GLN B:71 , HOH B:458
BINDING SITE FOR RESIDUE SO4 B 902
07
AC7
SOFTWARE
LYS A:77 , ASP B:16 , GLY B:17 , PHE B:18 , LEU B:19 , SER B:20 , HOH B:368
BINDING SITE FOR RESIDUE SO4 B 904
08
AC8
SOFTWARE
GLY C:68 , GLY C:69 , ALA C:70 , GLN C:71
BINDING SITE FOR RESIDUE SO4 C 903
09
AC9
SOFTWARE
HOH A:424 , PRO B:1 , MET B:2 , LYS B:32 , TYR B:36 , HIS B:62 , SER B:63 , ILE B:64 , ASP B:92 , MET B:101 , VAL B:106 , PHE B:113 , HOH B:283 , TYR C:95 , ASN C:97
BINDING SITE FOR RESIDUE OX3 B 200
10
BC1
SOFTWARE
TYR A:95 , ASN A:97 , PRO C:1 , MET C:2 , LYS C:32 , TYR C:36 , HIS C:62 , SER C:63 , ILE C:64 , MET C:101 , VAL C:106 , PHE C:113
BINDING SITE FOR RESIDUE OX3 C 200
11
BC2
SOFTWARE
PRO B:1 , HIS B:62 , SER B:63 , TYR C:95 , ASN C:97 , HOH C:204
BINDING SITE FOR RESIDUE GOL C 701
12
BC3
SOFTWARE
ASN A:97 , PRO C:1 , MET C:2 , HIS C:62 , SER C:63 , ILE C:64
BINDING SITE FOR RESIDUE GOL C 702
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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PROSITE Patterns/Profiles
(1, 3)
Info
All PROSITE Patterns/Profiles
1: MIF (A:54-68,B:54-68,C:54-68)
;
View:
Select:
Label:
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
3
A:54-68
B:54-68
C:54-68
[
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Exons
(3, 9)
Info
All Exons
Exon 1.1a (A:1-35 | B:1-35 | C:1-35)
Exon 1.2b (A:36-93 | B:36-93 | C:36-93)
Exon 1.2d (A:93-114 | B:93-114 | C:93-114)
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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
3
A:1-35
B:1-35
C:1-35
35
35
35
1.2b
ENST00000215754
2b
ENSE00000651496
chr22:
24236959-24237131
173
MIF_HUMAN
37-94
58
3
A:36-93
B:36-93
C:36-93
58
58
58
1.2d
ENST00000215754
2d
ENSE00001839840
chr22:
24237227-24237413
187
MIF_HUMAN
94-115
22
3
A:93-114
B:93-114
C:93-114
22
22
22
[
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SCOP Domains
(1, 3)
Info
All SCOP Domains
1a: SCOP_d2ooha_ (A:)
1b: SCOP_d2oohb_ (B:)
1c: SCOP_d2oohc_ (C:)
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)
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)
Protein Domains
(
)
(
)
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
d2ooha_
A:
1b
d2oohb_
B:
1c
d2oohc_
C:
[
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CATH Domains
(1, 3)
Info
all CATH domains
1a: CATH_2oohA00 (A:1-114)
1b: CATH_2oohB00 (B:1-114)
1c: CATH_2oohC00 (C:1-114)
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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)
Human (Homo sapiens)
(25)
1a
2oohA00
A:1-114
1b
2oohB00
B:1-114
1c
2oohC00
C:1-114
[
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Pfam Domains
(1, 3)
Info
all PFAM domains
1a: PFAM_MIF_2oohC01 (C:1-114)
1b: PFAM_MIF_2oohC02 (C:1-114)
1c: PFAM_MIF_2oohC03 (C:1-114)
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Clans
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Families
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(
)
Organisms
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)
(
)
Clan
:
MIF
(36)
Family
:
MIF
(22)
Homo sapiens (Human)
(16)
1a
MIF-2oohC01
C:1-114
1b
MIF-2oohC02
C:1-114
1c
MIF-2oohC03
C:1-114
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