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2WO8
Biol. Unit 3
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, 2)
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:
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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
1
Ligand/Ion
SULFATE ION
6
ZN
-1
Ligand/Ion
ZINC ION
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Sites
(7, 7)
Info
All Sites
1: AC2 (SOFTWARE)
2: BC1 (SOFTWARE)
3: BC2 (SOFTWARE)
4: BC3 (SOFTWARE)
5: BC9 (SOFTWARE)
6: CC4 (SOFTWARE)
7: CC5 (SOFTWARE)
View:
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No.
Name
Evidence
Residues
Description
1
AC2
SOFTWARE
GLN C:259 , SER C:260 , GLY D:179 , ILE D:180 , LEU D:181 , ALA D:182 , THR D:215 , HIS D:218 , GLU D:219 , HIS D:222 , HIS D:228 , PRO D:238 , THR D:239 , TYR D:240 , LYS D:241 , ZN D:1267 , GOL D:1271 , HOH D:2105 , HOH D:2106
BINDING SITE FOR RESIDUE 023 D1266
2
BC1
SOFTWARE
HIS C:218 , HIS C:222 , HIS C:228 , 077 C:1271
BINDING SITE FOR RESIDUE ZN C1268
3
BC2
SOFTWARE
HIS C:168 , ASP C:170 , HIS C:183 , HIS C:196
BINDING SITE FOR RESIDUE ZN C1269
4
BC3
SOFTWARE
ASP C:175 , GLY C:176 , GLY C:178 , ILE C:180 , ASP C:198 , GLU C:201
BINDING SITE FOR RESIDUE CA C1270
5
BC9
SOFTWARE
LEU C:181 , ALA C:182 , HIS C:218 , GLU C:219 , HIS C:222 , HIS C:228 , ALA C:234 , VAL C:235 , PHE C:237 , THR C:239 , TYR C:240 , LYS C:241 , ZN C:1268 , HOH C:2076 , HOH C:2122
BINDING SITE FOR RESIDUE 077 C1271
6
CC4
SOFTWARE
ARG C:110 , ALA D:167 , HIS D:168 , GLY D:169 , ASP D:170 , PHE D:171 , HIS D:172 , ALA D:173 , HOH D:2050 , HOH D:2110 , HOH D:2111 , HOH D:2112
BINDING SITE FOR RESIDUE SO4 D1273
7
CC5
SOFTWARE
THR C:204 , THR C:205 , HIS C:206 , SER C:207 , GLY C:208 , HOH C:2123
BINDING SITE FOR RESIDUE SO4 C1272
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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 (C: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
-
-
C:215-224
-
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Exons
(0, 0)
Info
All Exons
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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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(
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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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(
)
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 C
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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