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2WO8
Biol. Unit 1
Info
Asym.Unit (126 KB)
Biol.Unit 1 (33 KB)
Biol.Unit 2 (33 KB)
Biol.Unit 3 (32 KB)
Biol.Unit 4 (32 KB)
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(1)
Title
:
MMP12 COMPLEX WITH A BETA HYDROXY CARBOXYLIC ACID
Authors
:
I. P. Holmes, S. Gaines, S. P. Watson, O. Lorthioir, A. Walker, S. J. Baddeley, S. Herbert, D. Egan, M. A. Convery, O. M. P. Singh, J. W. Gross, J. M. Strelow, R. H. Smith, A. J. Amour, D. Brown, S. L. Martin
Date
:
22 Jul 09 (Deposition) - 08 Sep 09 (Release) - 22 Sep 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Keywords
:
Hydrolase, Polymorphism, Glycoprotein, Metal-Binding, Matrix Metalloprotease Mmp-12 Complex Structure, Metalloprotease, Extracellular Matrix, Zymogen, Protease, Secreted
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
I. P. Holmes, S. Gaines, S. P. Watson, O. Lorthioir, A. Walker, S. J. Baddeley, S. Herbert, D. Egan, M. A. Convery, O. M. P. Singh, J. W. Gross, J. M. Strelow, R. H. Smith, A. J. Amour, D. Brown, S. L. Martin
The Identification Of Beta-Hydroxy Carboxylic Acids As Selective Mmp-12 Inhibitors.
Bioorg. Med. Chem. Lett. V. 19 5760 2009
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Hetero Components
(2, 3)
Info
All Hetero Components
1a: N^2^-[(2R)-2-{(1S)-1-[FORMYL(HYDRO... (023a)
1b: N^2^-[(2R)-2-{(1S)-1-[FORMYL(HYDRO... (023b)
2a: (3S)-5-BIPHENYL-4-YL-3-HYDROXYPENT... (077a)
2b: (3S)-5-BIPHENYL-4-YL-3-HYDROXYPENT... (077b)
3a: CALCIUM ION (CAa)
3b: CALCIUM ION (CAb)
3c: CALCIUM ION (CAc)
3d: CALCIUM ION (CAd)
3e: CALCIUM ION (CAe)
3f: CALCIUM ION (CAf)
4a: GLYCEROL (GOLa)
4b: GLYCEROL (GOLb)
5a: SULFATE ION (SO4a)
5b: SULFATE ION (SO4b)
5c: SULFATE ION (SO4c)
5d: SULFATE ION (SO4d)
5e: SULFATE ION (SO4e)
6a: ZINC ION (ZNa)
6b: ZINC ION (ZNb)
6c: ZINC ION (ZNc)
6d: ZINC ION (ZNd)
6e: ZINC ION (ZNe)
6f: ZINC ION (ZNf)
6g: ZINC ION (ZNg)
6h: ZINC ION (ZNh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
023
-1
Ligand/Ion
N^2^-[(2R)-2-{(1S)-1-[FORMYL(HYDROXY)AMINO]ETHYL}-5-PHENYLPENTANOYL]-N,3-DIMETHYL-L-VALINAMIDE
2
077
1
Ligand/Ion
(3S)-5-BIPHENYL-4-YL-3-HYDROXYPENTANOIC ACID
3
CA
-1
Ligand/Ion
CALCIUM ION
4
GOL
-1
Ligand/Ion
GLYCEROL
5
SO4
2
Ligand/Ion
SULFATE ION
6
ZN
-1
Ligand/Ion
ZINC ION
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Sites
(7, 7)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC3 (SOFTWARE)
3: AC4 (SOFTWARE)
4: AC5 (SOFTWARE)
5: BC8 (SOFTWARE)
6: CC3 (SOFTWARE)
7: CC6 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLN A:259 , SER A:260 , GLY B:179 , ILE B:180 , LEU B:181 , ALA B:182 , LEU B:214 , THR B:215 , HIS B:218 , GLU B:219 , HIS B:222 , HIS B:228 , VAL B:235 , PRO B:238 , THR B:239 , TYR B:240 , LYS B:241 , ZN B:1269 , HOH B:2167 , SER D:207 , GOL D:1272
BINDING SITE FOR RESIDUE 023 B1268
2
AC3
SOFTWARE
HIS A:218 , HIS A:222 , HIS A:228 , 077 A:1271
BINDING SITE FOR RESIDUE ZN A1268
3
AC4
SOFTWARE
HIS A:168 , ASP A:170 , HIS A:183 , HIS A:196
BINDING SITE FOR RESIDUE ZN A1269
4
AC5
SOFTWARE
ASP A:175 , GLY A:176 , GLY A:178 , ILE A:180 , ASP A:198 , GLU A:201
BINDING SITE FOR RESIDUE CA A1270
5
BC8
SOFTWARE
ILE A:180 , LEU A:181 , ALA A:182 , HIS A:218 , GLU A:219 , HIS A:222 , HIS A:228 , ALA A:234 , VAL A:235 , PHE A:237 , THR A:239 , TYR A:240 , LYS A:241 , ZN A:1268 , HOH A:2129 , HOH A:2130
BINDING SITE FOR RESIDUE 077 A1271
6
CC3
SOFTWARE
ARG A:110 , HOH A:2131 , HOH A:2132 , HOH A:2133 , ALA B:167 , HIS B:168 , GLY B:169 , ASP B:170 , PHE B:171 , ALA B:173
BINDING SITE FOR RESIDUE SO4 A1272
7
CC6
SOFTWARE
ALA A:167 , HIS A:168 , GLY A:169 , ASP A:170 , PHE A:171 , HIS A:172 , ALA A:173 , HOH A:2134 , HOH A:2135
BINDING SITE FOR RESIDUE SO4 A1273
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: ZINC_PROTEASE (A:215-224)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ZINC_PROTEASE
PS00142
Neutral zinc metallopeptidases, zinc-binding region signature.
MMP12_HUMAN
215-224
1
A:215-224
-
-
-
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Exons
(0, 0)
Info
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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, 4)
Info
All SCOP Domains
1a: SCOP_d2wo8a_ (A:)
1b: SCOP_d2wo8b_ (B:)
1c: SCOP_d2wo8c_ (C:)
1d: SCOP_d2wo8d_ (D:)
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Protein Domains
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Organisms
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Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Zincin-like
(701)
Superfamily
:
Metalloproteases (zincins), catalytic domain
(647)
Family
:
Matrix metalloproteases, catalytic domain
(199)
Protein domain
:
Macrophage elastase (MMP-12)
(34)
Human (Homo sapiens) [TaxId: 9606]
(34)
1a
d2wo8a_
A:
1b
d2wo8b_
B:
1c
d2wo8c_
C:
1d
d2wo8d_
D:
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CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_Peptidase_M10_2wo8D01 (D:108-263)
1b: PFAM_Peptidase_M10_2wo8D02 (D:108-263)
1c: PFAM_Peptidase_M10_2wo8D03 (D:108-263)
1d: PFAM_Peptidase_M10_2wo8D04 (D:108-263)
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Clans
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(
)
Clan
:
Peptidase_MA
(251)
Family
:
Peptidase_M10
(85)
Homo sapiens (Human)
(82)
1a
Peptidase_M10-2wo8D01
D:108-263
1b
Peptidase_M10-2wo8D02
D:108-263
1c
Peptidase_M10-2wo8D03
D:108-263
1d
Peptidase_M10-2wo8D04
D:108-263
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Chain A
Asymmetric Unit 1
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select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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Show PDB file:
Asym.Unit (126 KB)
Header - Asym.Unit
Biol.Unit 1 (33 KB)
Header - Biol.Unit 1
Biol.Unit 2 (33 KB)
Header - Biol.Unit 2
Biol.Unit 3 (32 KB)
Header - Biol.Unit 3
Biol.Unit 4 (32 KB)
Header - Biol.Unit 4
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