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2WO9
Biol. Unit 2
Info
Asym.Unit (130 KB)
Biol.Unit 1 (34 KB)
Biol.Unit 2 (34 KB)
Biol.Unit 3 (34 KB)
Biol.Unit 4 (33 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
:
1.70
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, 4)
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-(4'-ACETYLBIPHENYL-4-YL)-3-... (068a)
2b: (3S)-5-(4'-ACETYLBIPHENYL-4-YL)-3-... (068b)
3a: CALCIUM ION (CAa)
3b: CALCIUM ION (CAb)
3c: CALCIUM ION (CAc)
3d: CALCIUM ION (CAd)
3e: CALCIUM ION (CAe)
3f: CALCIUM ION (CAf)
3g: CALCIUM ION (CAg)
4a: GLYCEROL (GOLa)
4b: GLYCEROL (GOLb)
4c: GLYCEROL (GOLc)
5a: SULFATE ION (SO4a)
5b: SULFATE ION (SO4b)
5c: SULFATE ION (SO4c)
5d: SULFATE ION (SO4d)
5e: SULFATE ION (SO4e)
5f: SULFATE ION (SO4f)
5g: SULFATE ION (SO4g)
5h: SULFATE ION (SO4h)
5i: SULFATE ION (SO4i)
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
068
-1
Ligand/Ion
(3S)-5-(4'-ACETYLBIPHENYL-4-YL)-3-HYDROXYPENTANOIC ACID
3
CA
-1
Ligand/Ion
CALCIUM ION
4
GOL
-1
Ligand/Ion
GLYCEROL
5
SO4
3
Ligand/Ion
SULFATE ION
6
ZN
-1
Ligand/Ion
ZINC ION
[
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Sites
(12, 12)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC6 (SOFTWARE)
03: AC7 (SOFTWARE)
04: AC8 (SOFTWARE)
05: AC9 (SOFTWARE)
06: BC1 (SOFTWARE)
07: CC2 (SOFTWARE)
08: CC3 (SOFTWARE)
09: CC4 (SOFTWARE)
10: CC5 (SOFTWARE)
11: DC3 (SOFTWARE)
12: DC4 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
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 , PRO B:238 , THR B:239 , TYR B:240 , LYS B:241 , ZN B:1268 , HOH B:2186 , GOL D:1272
BINDING SITE FOR RESIDUE 023 B1267
02
AC6
SOFTWARE
HIS B:218 , HIS B:222 , HIS B:228 , 023 B:1267
BINDING SITE FOR RESIDUE ZN B1268
03
AC7
SOFTWARE
HIS B:168 , ASP B:170 , HIS B:183 , HIS B:196
BINDING SITE FOR RESIDUE ZN B1269
04
AC8
SOFTWARE
ASP B:175 , GLY B:176 , GLY B:178 , ILE B:180 , ASP B:198 , GLU B:201
BINDING SITE FOR RESIDUE CA B1270
05
AC9
SOFTWARE
ASP B:158 , GLY B:190 , GLY B:192 , ASP B:194 , HOH B:2069 , HOH B:2103
BINDING SITE FOR RESIDUE CA B1271
06
BC1
SOFTWARE
ASP B:124 , GLU B:199 , GLU B:201 , HOH B:2113 , HOH B:2118
BINDING SITE FOR RESIDUE CA B1272
07
CC2
SOFTWARE
SER B:207 , GLY B:209 , TYR B:240 , TYR B:242 , LEU D:181 , THR D:210 , 023 D:1266 , HOH D:2144 , HOH D:2146
BINDING SITE FOR RESIDUE GOL D1271
08
CC3
SOFTWARE
LEU B:181 , THR B:210 , 023 B:1267 , SER D:207 , GLY D:208 , GLY D:209 , TYR D:240 , TYR D:242 , HOH D:2145 , HOH D:2146
BINDING SITE FOR RESIDUE GOL D1272
09
CC4
SOFTWARE
ARG B:249 , HOH B:2155 , ALA C:252 , HOH C:2156
BINDING SITE FOR RESIDUE GOL C1273
10
CC5
SOFTWARE
ARG A:110 , ALA B:167 , HIS B:168 , GLY B:169 , ASP B:170 , PHE B:171 , HIS B:172 , ALA B:173 , HOH B:2187 , HOH B:2188 , HOH B:2189 , HOH B:2190 , HOH B:2191
BINDING SITE FOR RESIDUE SO4 B1273
11
DC3
SOFTWARE
ARG B:135 , LYS B:136 , GLN B:139
BINDING SITE FOR RESIDUE SO4 B1274
12
DC4
SOFTWARE
ARG B:117 , THR B:154 , GLY B:155
BINDING SITE FOR RESIDUE SO4 B1275
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
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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 (B:215-224)
;
View:
Select:
Label:
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
-
B:215-224
-
-
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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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_d2wo9a_ (A:)
1b: SCOP_d2wo9c_ (C:)
1c: SCOP_d2wo9d_ (D:)
1d: SCOP_d2wo9b_ (B:)
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Protein Domains
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(
)
Organisms
(
)
(
)
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
d2wo9a_
A:
1b
d2wo9c_
C:
1c
d2wo9d_
D:
1d
d2wo9b_
B:
[
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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_2wo9D01 (D:108-263)
1b: PFAM_Peptidase_M10_2wo9D02 (D:108-263)
1c: PFAM_Peptidase_M10_2wo9D03 (D:108-263)
1d: PFAM_Peptidase_M10_2wo9D04 (D:108-263)
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Clans
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)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Peptidase_MA
(251)
Family
:
Peptidase_M10
(85)
Homo sapiens (Human)
(82)
1a
Peptidase_M10-2wo9D01
D:108-263
1b
Peptidase_M10-2wo9D02
D:108-263
1c
Peptidase_M10-2wo9D03
D:108-263
1d
Peptidase_M10-2wo9D04
D:108-263
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Chain B
Asymmetric Unit 1
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Show PDB file:
Asym.Unit (130 KB)
Header - Asym.Unit
Biol.Unit 1 (34 KB)
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Biol.Unit 2 (34 KB)
Header - Biol.Unit 2
Biol.Unit 3 (34 KB)
Header - Biol.Unit 3
Biol.Unit 4 (33 KB)
Header - Biol.Unit 4
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