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5I3M
Asym. Unit
Info
Asym.Unit (126 KB)
Biol.Unit 1 (33 KB)
Biol.Unit 2 (33 KB)
Biol.Unit 3 (33 KB)
Biol.Unit 4 (32 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF MMP-12 IN COMPLEX WITH A SELECTIVE SUGAR-CONJUGATED THIOUREA-LINKED CARBOXYLATE ZINC-CHELATOR WATER-SOLUBLE INHIBITOR (DC31).
Authors
:
E. A. Stura, L. Rosalia, D. Cuffaro, L. Tepshi, L. Ciccone, A. Rossello
Date
:
10 Feb 16 (Deposition) - 06 Jul 16 (Release) - 17 Aug 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.17
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
:
Inhibitor, Complex, Glycoconjugate, Metalloprotease, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
E. Nuti, D. Cuffaro, F. D'Andrea, L. Rosalia, L. Tepshi, M. Fabbi, G. Carbotti, S. Ferrini, S. Santamaria, C. Camodeca, L. Ciccone, E. Orlandini, S. Nencetti, E. A. Stura, V. Dive, A. Rossello
Sugar-Based Arylsulfonamide Carboxylates As Selective And Water-Soluble Matrix Metalloproteinase-12 Inhibitors.
Chemmedchem V. 11 1626 2016
[
close entry info
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Hetero Components
(7, 32)
Info
All Hetero Components
1a: (2S)-2-{[2-({[(2R,3R,4R,5S,6R)-3-(... (67Fa)
1b: (2S)-2-{[2-({[(2R,3R,4R,5S,6R)-3-(... (67Fb)
1c: (2S)-2-{[2-({[(2R,3R,4R,5S,6R)-3-(... (67Fc)
1d: (2S)-2-{[2-({[(2R,3R,4R,5S,6R)-3-(... (67Fd)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
2d: CALCIUM ION (CAd)
2e: CALCIUM ION (CAe)
2f: CALCIUM ION (CAf)
2g: CALCIUM ION (CAg)
2h: CALCIUM ION (CAh)
2i: CALCIUM ION (CAi)
2j: CALCIUM ION (CAj)
2k: CALCIUM ION (CAk)
2l: CALCIUM ION (CAl)
3a: 1,4-DIETHYLENE DIOXIDE (DIOa)
3b: 1,4-DIETHYLENE DIOXIDE (DIOb)
3c: 1,4-DIETHYLENE DIOXIDE (DIOc)
4a: DIMETHYL SULFOXIDE (DMSa)
4b: DIMETHYL SULFOXIDE (DMSb)
5a: 1,2-ETHANEDIOL (EDOa)
6a: S-1,2-PROPANEDIOL (PGOa)
6b: S-1,2-PROPANEDIOL (PGOb)
7a: ZINC ION (ZNa)
7b: ZINC ION (ZNb)
7c: ZINC ION (ZNc)
7d: ZINC ION (ZNd)
7e: ZINC ION (ZNe)
7f: ZINC ION (ZNf)
7g: ZINC ION (ZNg)
7h: ZINC ION (ZNh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
67F
4
Ligand/Ion
(2S)-2-{[2-({[(2R,3R,4R,5S,6R)-3-(ACETYLAMINO)-4,5-DIHYDROXY-6-(HYDROXYMETHYL)TETRAHYDRO-2H-PYRAN-2-YL]CARBAMOTHIOYL}AMINO)ETHYL](BIPHENYL-4-YLSULFONYL)AMINO}-3-METHYLBUTANOIC ACID (NON-PREFERRED NAME)
2
CA
12
Ligand/Ion
CALCIUM ION
3
DIO
3
Ligand/Ion
1,4-DIETHYLENE DIOXIDE
4
DMS
2
Ligand/Ion
DIMETHYL SULFOXIDE
5
EDO
1
Ligand/Ion
1,2-ETHANEDIOL
6
PGO
2
Ligand/Ion
S-1,2-PROPANEDIOL
7
ZN
8
Ligand/Ion
ZINC ION
[
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]
Sites
(32, 32)
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)
14: AD5 (SOFTWARE)
15: AD6 (SOFTWARE)
16: AD7 (SOFTWARE)
17: AD8 (SOFTWARE)
18: AD9 (SOFTWARE)
19: AE1 (SOFTWARE)
20: AE2 (SOFTWARE)
21: AE3 (SOFTWARE)
22: AE4 (SOFTWARE)
23: AE5 (SOFTWARE)
24: AE6 (SOFTWARE)
25: AE7 (SOFTWARE)
26: AE8 (SOFTWARE)
27: AE9 (SOFTWARE)
28: AF1 (SOFTWARE)
29: AF2 (SOFTWARE)
30: AF3 (SOFTWARE)
31: AF4 (SOFTWARE)
32: AF5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ILE A:180 , LEU A:181 , ALA A:182 , HIS A:183 , LEU A:214 , HIS A:218 , GLN A:219 , HIS A:222 , HIS A:228 , VAL A:235 , PHE A:237 , PRO A:238 , THR A:239 , TYR A:240 , ZN A:302 , HOH A:455 , GLU C:128
binding site for residue 67F A 301
02
AC2
SOFTWARE
HIS A:218 , HIS A:222 , HIS A:228 , 67F A:301
binding site for residue ZN A 302
03
AC3
SOFTWARE
HIS A:168 , ASP A:170 , HIS A:183 , HIS A:196
binding site for residue ZN A 303
04
AC4
SOFTWARE
ASP A:158 , GLY A:190 , GLY A:192 , ASP A:194 , HOH A:403
binding site for residue CA A 304
05
AC5
SOFTWARE
ASP A:124 , GLU A:199 , GLU A:201 , HOH A:452 , HOH A:462
binding site for residue CA A 305
06
AC6
SOFTWARE
ASP A:175 , GLY A:176 , GLY A:178 , ILE A:180 , ASP A:198 , GLU A:201
binding site for residue CA A 306
07
AC7
SOFTWARE
HIS A:172 , PHE A:185
binding site for residue DMS A 307
08
AC8
SOFTWARE
LYS A:136 , THR A:205 , PHE A:213 , HOH A:439 , HOH A:472
binding site for residue PGO A 308
09
AC9
SOFTWARE
ILE B:180 , LEU B:181 , ALA B:182 , HIS B:183 , LEU B:214 , THR B:215 , HIS B:218 , GLN B:219 , HIS B:222 , HIS B:228 , VAL B:235 , PHE B:237 , PRO B:238 , TYR B:240 , ZN B:302 , HOH B:450 , ASP D:231
binding site for residue 67F B 301
10
AD1
SOFTWARE
HIS B:218 , HIS B:222 , HIS B:228 , 67F B:301
binding site for residue ZN B 302
11
AD2
SOFTWARE
HIS B:168 , ASP B:170 , HIS B:183 , HIS B:196
binding site for residue ZN B 303
12
AD3
SOFTWARE
ASP B:158 , GLY B:190 , GLY B:192 , ASP B:194 , HOH B:430 , HOH B:444
binding site for residue CA B 304
13
AD4
SOFTWARE
ASP B:124 , GLU B:199 , GLU B:201 , HOH B:467 , HOH B:471
binding site for residue CA B 305
14
AD5
SOFTWARE
ASP B:175 , GLY B:176 , GLY B:178 , ILE B:180 , ASP B:198 , GLU B:201
binding site for residue CA B 306
15
AD6
SOFTWARE
LEU B:226 , SER B:229 , ASP B:253
binding site for residue PGO B 307
16
AD7
SOFTWARE
ALA B:184 , PHE B:185
binding site for residue DIO B 308
17
AD8
SOFTWARE
ALA B:133 , THR B:205 , HOH B:442
binding site for residue DIO B 309
18
AD9
SOFTWARE
ARG A:135 , ASP C:175 , GLY C:179 , ILE C:180 , LEU C:181 , ALA C:182 , HIS C:183 , LEU C:214 , HIS C:218 , GLN C:219 , HIS C:222 , HIS C:228 , VAL C:235 , PHE C:237 , PRO C:238 , TYR C:240 , ZN C:302 , HOH C:409 , HOH C:420
binding site for residue 67F C 301
19
AE1
SOFTWARE
HIS C:218 , HIS C:222 , HIS C:228 , 67F C:301
binding site for residue ZN C 302
20
AE2
SOFTWARE
HIS C:168 , ASP C:170 , HIS C:183 , HIS C:196
binding site for residue ZN C 303
21
AE3
SOFTWARE
ASP C:158 , GLY C:190 , GLY C:192 , ASP C:194 , HOH C:410 , HOH C:437
binding site for residue CA C 304
22
AE4
SOFTWARE
ASP C:124 , GLU C:199 , GLU C:201 , HOH C:468 , HOH C:469
binding site for residue CA C 305
23
AE5
SOFTWARE
ASP C:175 , GLY C:176 , GLY C:178 , ILE C:180 , ASP C:198 , GLU C:201
binding site for residue CA C 306
24
AE6
SOFTWARE
THR C:205 , PHE C:213 , ILE C:245 , HOH C:407 , HOH C:435 , HOH C:470
binding site for residue EDO C 307
25
AE7
SOFTWARE
HIS C:183 , ALA C:184 , PHE C:185 , HOH C:431
binding site for residue DIO C 308
26
AE8
SOFTWARE
PRO B:232 , HOH B:423 , ILE D:180 , LEU D:181 , ALA D:182 , HIS D:183 , LEU D:214 , HIS D:218 , GLN D:219 , HIS D:222 , HIS D:228 , VAL D:235 , PHE D:237 , PRO D:238 , THR D:239 , TYR D:240 , ZN D:302 , DMS D:307 , HOH D:486
binding site for residue 67F D 301
27
AE9
SOFTWARE
HIS D:218 , HIS D:222 , HIS D:228 , 67F D:301
binding site for residue ZN D 302
28
AF1
SOFTWARE
HIS D:168 , ASP D:170 , HIS D:183 , HIS D:196
binding site for residue ZN D 303
29
AF2
SOFTWARE
ASP D:158 , GLY D:190 , GLY D:192 , ASP D:194 , HOH D:415 , HOH D:440
binding site for residue CA D 304
30
AF3
SOFTWARE
ASP D:124 , GLU D:199 , GLU D:201 , HOH D:429 , HOH D:450
binding site for residue CA D 305
31
AF4
SOFTWARE
ASP D:175 , GLY D:176 , GLY D:178 , ILE D:180 , ASP D:198 , GLU D:201
binding site for residue CA D 306
32
AF5
SOFTWARE
HIS D:172 , ALA D:184 , 67F D:301
binding site for residue DMS D 307
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
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Exons
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
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CATH Domains
(0, 0)
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all CATH domains
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Pfam Domains
(0, 0)
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all PFAM domains
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Sorry, no Info available
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