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5B5O
Asym. Unit
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Asym.Unit (126 KB)
Biol.Unit 1 (62 KB)
Biol.Unit 2 (60 KB)
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Title
:
CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF MMP-13 COMPLEXED WITH N-PHENYL-4-((4H-1,2,4-TRIAZOL-3-YLSULFANYL)METHYL)-1,3-THIAZOL-2-AMINE
Authors
:
H. Oki, Y. Tanaka
Date
:
13 May 16 (Deposition) - 18 Jan 17 (Release) - 08 Feb 17 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.20
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Mmp-13, Hydrolase, Hydrolase-Hydrolase Inhibitor Complex
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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Reference
:
H. Nara, A. Kaieda, K. Sato, T. Naito, H. Mototani, H. Oki, Y. Yamamoto, H. Kuno, T. Santou, N. Kanzaki, J. Terauchi, O. Uchikawa, M. Kori
Discovery Of Novel, Highly Potent, And Selective Matrix Metalloproteinase (Mmp)-13 Inhibitors With A 1, 2, 4-Triazol-3-Yl Moiety As A Zinc Binding Group Using A Structure-Based Design Approach
J. Med. Chem. V. 60 608 2017
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Hetero Components
(5, 13)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
2a: 1,2-ETHANEDIOL (EDOa)
3a: SODIUM ION (NAa)
3b: SODIUM ION (NAb)
4a: N-PHENYL-4-[(4H-1,2,4-TRIAZOL-3-YL... (WMMa)
4b: N-PHENYL-4-[(4H-1,2,4-TRIAZOL-3-YL... (WMMb)
5a: ZINC ION (ZNa)
5b: ZINC ION (ZNb)
5c: ZINC ION (ZNc)
5d: ZINC ION (ZNd)
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No.
Name
Count
Type
Full Name
1
CA
4
Ligand/Ion
CALCIUM ION
2
EDO
1
Ligand/Ion
1,2-ETHANEDIOL
3
NA
2
Ligand/Ion
SODIUM ION
4
WMM
2
Ligand/Ion
N-PHENYL-4-[(4H-1,2,4-TRIAZOL-3-YLSULFANYL)METHYL]-1,3-THIAZOL-2-AMINE
5
ZN
4
Ligand/Ion
ZINC ION
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Sites
(13, 13)
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: AD1 (SOFTWARE)
11: AD2 (SOFTWARE)
12: AD3 (SOFTWARE)
13: AD4 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:222 , HIS A:226 , HIS A:232 , WMM A:307
binding site for residue ZN A 301
02
AC2
SOFTWARE
HIS A:172 , ASP A:174 , HIS A:187 , HIS A:200
binding site for residue ZN A 302
03
AC3
SOFTWARE
ASP A:179 , GLY A:180 , SER A:182 , LEU A:184 , ASP A:202 , GLU A:205
binding site for residue CA A 303
04
AC4
SOFTWARE
ASP A:162 , ASN A:194 , GLY A:196 , ASP A:198 , HOH A:425 , HOH A:483
binding site for residue CA A 304
05
AC5
SOFTWARE
ASP A:128 , ASP A:203 , GLU A:205
binding site for residue NA A 305
06
AC6
SOFTWARE
TYR A:176 , HIS A:187 , ALA A:188 , PHE A:189 , PRO A:190 , HOH A:468 , HOH A:568 , HOH A:574
binding site for residue EDO A 306
07
AC7
SOFTWARE
ALA A:186 , LEU A:218 , HIS A:222 , GLU A:223 , HIS A:226 , HIS A:232 , LEU A:239 , PHE A:241 , PRO A:242 , ILE A:243 , TYR A:244 , ZN A:301 , HOH A:568 , HOH A:571 , HOH A:585
binding site for residue WMM A 307
08
AC8
SOFTWARE
HIS B:222 , HIS B:226 , HIS B:232 , WMM B:306
binding site for residue ZN B 301
09
AC9
SOFTWARE
HIS B:172 , ASP B:174 , HIS B:187 , HIS B:200
binding site for residue ZN B 302
10
AD1
SOFTWARE
ASP B:179 , GLY B:180 , SER B:182 , LEU B:184 , ASP B:202 , GLU B:205
binding site for residue CA B 303
11
AD2
SOFTWARE
ASP B:162 , ASN B:194 , GLY B:196 , ASP B:198 , HOH B:441 , HOH B:460
binding site for residue CA B 304
12
AD3
SOFTWARE
HOH A:451 , ASP B:128 , ASP B:203 , GLU B:205 , HOH B:536
binding site for residue NA B 305
13
AD4
SOFTWARE
ALA B:186 , LEU B:218 , HIS B:222 , GLU B:223 , HIS B:226 , HIS B:232 , LEU B:239 , PHE B:241 , PRO B:242 , ILE B:243 , ZN B:301 , HOH B:472 , HOH B:552
binding site for residue WMM B 306
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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Exons
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SCOP Domains
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CATH Domains
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Pfam Domains
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Asym.Unit (126 KB)
Header - Asym.Unit
Biol.Unit 1 (62 KB)
Header - Biol.Unit 1
Biol.Unit 2 (60 KB)
Header - Biol.Unit 2
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