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2WO9
Asym. Unit
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
[
close entry info
]
Hetero Components
(6, 31)
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
2
Ligand/Ion
N^2^-[(2R)-2-{(1S)-1-[FORMYL(HYDROXY)AMINO]ETHYL}-5-PHENYLPENTANOYL]-N,3-DIMETHYL-L-VALINAMIDE
2
068
2
Ligand/Ion
(3S)-5-(4'-ACETYLBIPHENYL-4-YL)-3-HYDROXYPENTANOIC ACID
3
CA
7
Ligand/Ion
CALCIUM ION
4
GOL
3
Ligand/Ion
GLYCEROL
5
SO4
9
Ligand/Ion
SULFATE ION
6
ZN
8
Ligand/Ion
ZINC ION
[
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]
Sites
(31, 31)
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)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
View:
Select:
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
AC2
SOFTWARE
GLN C:259 , SER C:260 , GLY D:179 , ILE D:180 , LEU D:181 , ALA D:182 , LEU D:214 , 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:2142 , HOH D:2143
BINDING SITE FOR RESIDUE 023 D1266
03
AC3
SOFTWARE
HIS A:218 , HIS A:222 , HIS A:228 , 068 A:1271
BINDING SITE FOR RESIDUE ZN A1268
04
AC4
SOFTWARE
HIS A:168 , ASP A:170 , HIS A:183 , HIS A:196
BINDING SITE FOR RESIDUE ZN A1269
05
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
06
AC6
SOFTWARE
HIS B:218 , HIS B:222 , HIS B:228 , 023 B:1267
BINDING SITE FOR RESIDUE ZN B1268
07
AC7
SOFTWARE
HIS B:168 , ASP B:170 , HIS B:183 , HIS B:196
BINDING SITE FOR RESIDUE ZN B1269
08
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
09
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
10
BC1
SOFTWARE
ASP B:124 , GLU B:199 , GLU B:201 , HOH B:2113 , HOH B:2118
BINDING SITE FOR RESIDUE CA B1272
11
BC2
SOFTWARE
HIS C:218 , HIS C:222 , HIS C:228 , 068 C:1272
BINDING SITE FOR RESIDUE ZN C1269
12
BC3
SOFTWARE
HIS C:168 , ASP C:170 , HIS C:183 , HIS C:196
BINDING SITE FOR RESIDUE ZN C1270
13
BC4
SOFTWARE
ASP C:175 , GLY C:176 , GLY C:178 , ILE C:180 , ASP C:198 , GLU C:201
BINDING SITE FOR RESIDUE CA C1271
14
BC5
SOFTWARE
HIS D:218 , HIS D:222 , HIS D:228 , 023 D:1266
BINDING SITE FOR RESIDUE ZN D1267
15
BC6
SOFTWARE
HIS D:168 , ASP D:170 , HIS D:183 , HIS D:196
BINDING SITE FOR RESIDUE ZN D1268
16
BC7
SOFTWARE
ASP D:175 , GLY D:176 , GLY D:178 , ILE D:180 , ASP D:198 , GLU D:201
BINDING SITE FOR RESIDUE CA D1269
17
BC8
SOFTWARE
ASP D:124 , GLU D:199 , GLU D:201 , HOH D:2012
BINDING SITE FOR RESIDUE CA D1270
18
BC9
SOFTWARE
ILE A:180 , LEU A:181 , ALA A:182 , LEU A:214 , HIS A:218 , GLU A:219 , HIS A:222 , HIS A:228 , LYS A:233 , VAL A:235 , PHE A:237 , PRO A:238 , THR A:239 , TYR A:240 , LYS A:241 , VAL A:243 , PHE A:248 , ZN A:1268 , HOH A:2145 , HOH A:2162 , HOH A:2163 , HOH A:2164
BINDING SITE FOR RESIDUE 068 A1271
19
CC1
SOFTWARE
LEU C:181 , ALA C:182 , LEU C:214 , HIS C:218 , GLU C:219 , HIS C:222 , HIS C:228 , LYS C:233 , ALA C:234 , VAL C:235 , PHE C:237 , THR C:239 , TYR C:240 , VAL C:243 , PHE C:248 , ZN C:1269 , HOH C:2093 , HOH C:2153 , HOH C:2154 , HOH C:2155
BINDING SITE FOR RESIDUE 068 C1272
20
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
21
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
22
CC4
SOFTWARE
ARG B:249 , HOH B:2155 , ALA C:252 , HOH C:2156
BINDING SITE FOR RESIDUE GOL C1273
23
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
24
CC6
SOFTWARE
ARG C:110 , HOH C:2157 , HOH C:2158 , HOH C:2159 , HOH C:2160 , ALA D:167 , HIS D:168 , GLY D:169 , ASP D:170 , PHE D:171 , HIS D:172 , ALA D:173
BINDING SITE FOR RESIDUE SO4 C1274
25
CC7
SOFTWARE
ARG D:135 , LYS D:136 , GLN D:139
BINDING SITE FOR RESIDUE SO4 D1273
26
CC8
SOFTWARE
ARG D:117 , THR D:154 , GLY D:155 , ARG D:256
BINDING SITE FOR RESIDUE SO4 D1274
27
CC9
SOFTWARE
ALA A:167 , HIS A:168 , GLY A:169 , ASP A:170 , PHE A:171 , HOH A:2092 , HOH A:2094
BINDING SITE FOR RESIDUE SO4 A1272
28
DC1
SOFTWARE
ARG A:135 , LYS A:136 , GLN A:139 , HOH A:2165
BINDING SITE FOR RESIDUE SO4 A1273
29
DC2
SOFTWARE
ARG A:117 , THR A:154 , GLY A:155 , GLY D:190
BINDING SITE FOR RESIDUE SO4 A1274
30
DC3
SOFTWARE
ARG B:135 , LYS B:136 , GLN B:139
BINDING SITE FOR RESIDUE SO4 B1274
31
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 not available)
All SNPs/Variants
View:
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Sorry, no Info available
[
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PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: ZINC_PROTEASE (A:215-224,B:215-224,C:215-224,D:21...)
;
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
4
A:215-224
B:215-224
C:215-224
D: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.
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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(
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Protein Domains
(
)
(
)
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
(
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(
)
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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Asym.Unit (130 KB)
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Biol.Unit 3 (34 KB)
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