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5I43
Asym. Unit
Info
Asym.Unit (136 KB)
Biol.Unit 1 (35 KB)
Biol.Unit 2 (35 KB)
Biol.Unit 3 (35 KB)
Biol.Unit 4 (36 KB)
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Title
:
CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF MMP-12 IN COMPLEX WITH A SELECTIVE SUGAR-CONJUGATED TRIAZOLE-LINKED CARBOXYLATE CHELATOR WATER-SOLUBLE INHIBITOR (DC32).
Authors
:
E. A. Stura, L. Rosalia, D. Cuffaro, L. Tepshi, L. Ciccone, A. Rossello
Date
:
11 Feb 16 (Deposition) - 06 Jul 16 (Release) - 17 Aug 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.95
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
]
Hetero Components
(6, 55)
Info
All Hetero Components
1a: (2R)-2-[({1-[3-({(2R,3R,4R,5S,6R)-... (67Ma)
1b: (2R)-2-[({1-[3-({(2R,3R,4R,5S,6R)-... (67Mb)
1c: (2R)-2-[({1-[3-({(2R,3R,4R,5S,6R)-... (67Mc)
1d: (2R)-2-[({1-[3-({(2R,3R,4R,5S,6R)-... (67Md)
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: DIMETHYL SULFOXIDE (DMSa)
3b: DIMETHYL SULFOXIDE (DMSb)
4a: 1,2-ETHANEDIOL (EDOa)
4b: 1,2-ETHANEDIOL (EDOb)
4c: 1,2-ETHANEDIOL (EDOc)
4d: 1,2-ETHANEDIOL (EDOd)
4e: 1,2-ETHANEDIOL (EDOe)
4f: 1,2-ETHANEDIOL (EDOf)
4g: 1,2-ETHANEDIOL (EDOg)
4h: 1,2-ETHANEDIOL (EDOh)
4i: 1,2-ETHANEDIOL (EDOi)
4j: 1,2-ETHANEDIOL (EDOj)
4k: 1,2-ETHANEDIOL (EDOk)
4l: 1,2-ETHANEDIOL (EDOl)
4m: 1,2-ETHANEDIOL (EDOm)
4n: 1,2-ETHANEDIOL (EDOn)
4o: 1,2-ETHANEDIOL (EDOo)
4p: 1,2-ETHANEDIOL (EDOp)
4q: 1,2-ETHANEDIOL (EDOq)
4r: 1,2-ETHANEDIOL (EDOr)
4s: 1,2-ETHANEDIOL (EDOs)
4t: 1,2-ETHANEDIOL (EDOt)
4u: 1,2-ETHANEDIOL (EDOu)
4v: 1,2-ETHANEDIOL (EDOv)
4w: 1,2-ETHANEDIOL (EDOw)
5a: S-1,2-PROPANEDIOL (PGOa)
5b: S-1,2-PROPANEDIOL (PGOb)
5c: S-1,2-PROPANEDIOL (PGOc)
5d: S-1,2-PROPANEDIOL (PGOd)
5e: S-1,2-PROPANEDIOL (PGOe)
5f: S-1,2-PROPANEDIOL (PGOf)
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
67M
4
Ligand/Ion
(2R)-2-[({1-[3-({(2R,3R,4R,5S,6R)-3-(ACETYLAMINO)-4,5-BIS(ACETYLOXY)-6-[(ACETYLOXY)METHYL]TETRAHYDRO-2H-PYRAN-2-YL}OXY)PROPYL]-1H-1,2,3-TRIAZOL-4-YL}METHYL)(BIPHENYL-4-YLSULFONYL)AMINO]-3-METHYLBUTANOIC ACID(NON-PREFERRED NAME)
2
CA
12
Ligand/Ion
CALCIUM ION
3
DMS
2
Ligand/Ion
DIMETHYL SULFOXIDE
4
EDO
23
Ligand/Ion
1,2-ETHANEDIOL
5
PGO
6
Ligand/Ion
S-1,2-PROPANEDIOL
6
ZN
8
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(55, 55)
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)
33: AF6 (SOFTWARE)
34: AF7 (SOFTWARE)
35: AF8 (SOFTWARE)
36: AF9 (SOFTWARE)
37: AG1 (SOFTWARE)
38: AG2 (SOFTWARE)
39: AG3 (SOFTWARE)
40: AG4 (SOFTWARE)
41: AG5 (SOFTWARE)
42: AG6 (SOFTWARE)
43: AG7 (SOFTWARE)
44: AG8 (SOFTWARE)
45: AG9 (SOFTWARE)
46: AH1 (SOFTWARE)
47: AH2 (SOFTWARE)
48: AH3 (SOFTWARE)
49: AH4 (SOFTWARE)
50: AH5 (SOFTWARE)
51: AH6 (SOFTWARE)
52: AH7 (SOFTWARE)
53: AH8 (SOFTWARE)
54: AH9 (SOFTWARE)
55: AI1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:218 , HIS A:222 , HIS A:228 , 67M A:306
binding site for residue ZN A 301
02
AC2
SOFTWARE
HIS A:168 , ASP A:170 , HIS A:183 , HIS A:196
binding site for residue ZN A 302
03
AC3
SOFTWARE
ASP A:158 , GLY A:190 , GLY A:192 , ASP A:194 , HOH A:428 , HOH A:432
binding site for residue CA A 303
04
AC4
SOFTWARE
ASP A:124 , GLU A:199 , GLU A:201 , HOH A:444 , HOH A:478
binding site for residue CA A 304
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 A 305
06
AC6
SOFTWARE
GLY A:178 , GLY A:179 , 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 , TYR A:240 , ZN A:301 , HOH A:413 , HOH A:436 , HOH A:466 , LYS B:241
binding site for residue 67M A 306
07
AC7
SOFTWARE
ASN A:246
binding site for residue EDO A 307
08
AC8
SOFTWARE
LEU A:226 , ASP A:253 , ASP A:254 , HOH A:441
binding site for residue EDO A 308
09
AC9
SOFTWARE
VAL A:108 , TRP A:109 , ARG A:110
binding site for residue EDO A 309
10
AD1
SOFTWARE
ASN A:153 , HOH A:412
binding site for residue EDO A 310
11
AD2
SOFTWARE
LYS A:177 , SER C:260
binding site for residue EDO A 311
12
AD3
SOFTWARE
GLN A:139 , SER A:142 , LYS A:148 , PHE A:149 , HOH A:404
binding site for residue EDO A 312
13
AD4
SOFTWARE
ASN A:120 , PHE A:163
binding site for residue EDO A 313
14
AD5
SOFTWARE
TYR A:121 , THR A:122 , ARG A:127 , HOH A:414
binding site for residue EDO A 314
15
AD6
SOFTWARE
LYS A:136 , THR A:205 , PHE A:213 , HOH A:470
binding site for residue EDO A 315
16
AD7
SOFTWARE
GLY A:166 , PHE A:174 , ASP A:175 , GLY A:176
binding site for residue EDO A 316
17
AD8
SOFTWARE
HOH A:435 , GLY B:179 , ILE B:180 , LEU B:181 , ALA B:182 , HIS B:183 , LEU B:214 , 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 , DMS B:312 , HOH B:434 , HOH B:468 , HOH B:533
binding site for residue 67M B 301
18
AD9
SOFTWARE
HIS B:218 , HIS B:222 , HIS B:228 , 67M B:301
binding site for residue ZN B 302
19
AE1
SOFTWARE
HIS B:168 , ASP B:170 , HIS B:183 , HIS B:196
binding site for residue ZN B 303
20
AE2
SOFTWARE
ASP B:158 , GLY B:190 , GLY B:192 , ASP B:194 , HOH B:442 , HOH B:454
binding site for residue CA B 304
21
AE3
SOFTWARE
ASP B:124 , GLU B:199 , GLU B:201 , HOH B:475 , HOH B:487
binding site for residue CA B 305
22
AE4
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
23
AE5
SOFTWARE
ALA B:184 , GLY B:186 , HIS B:222 , GLY B:225 , LEU B:226
binding site for residue EDO B 307
24
AE6
SOFTWARE
LYS B:241 , TYR B:242 , HOH B:449
binding site for residue EDO B 308
25
AE7
SOFTWARE
VAL B:144 , THR B:145 , PRO B:146
binding site for residue EDO B 309
26
AE8
SOFTWARE
LYS B:177 , PHE B:202 , HOH B:416 , HOH B:425
binding site for residue EDO B 310
27
AE9
SOFTWARE
HOH B:455
binding site for residue EDO B 311
28
AF1
SOFTWARE
PHE B:185 , 67M B:301
binding site for residue DMS B 312
29
AF2
SOFTWARE
ARG B:127
binding site for residue PGO B 313
30
AF3
SOFTWARE
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 , DMS C:309 , PGO C:312 , HOH C:408 , HOH C:417 , HOH C:433 , HOH C:519 , HOH C:533
binding site for residue 67M C 301
31
AF4
SOFTWARE
HIS C:218 , HIS C:222 , HIS C:228 , 67M C:301
binding site for residue ZN C 302
32
AF5
SOFTWARE
HIS C:168 , ASP C:170 , HIS C:183 , HIS C:196
binding site for residue ZN C 303
33
AF6
SOFTWARE
ASP C:158 , GLY C:190 , GLY C:192 , ASP C:194 , HOH C:420 , HOH C:460
binding site for residue CA C 304
34
AF7
SOFTWARE
ASP C:124 , GLU C:199 , GLU C:201 , HOH C:474 , HOH C:493
binding site for residue CA C 305
35
AF8
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
36
AF9
SOFTWARE
ASN C:246 , THR C:247 , HOH C:415
binding site for residue EDO C 307
37
AG1
SOFTWARE
LYS C:241 , TYR C:242 , HOH C:491
binding site for residue EDO C 308
38
AG2
SOFTWARE
GLY C:179 , LEU C:181 , TYR C:240 , 67M C:301
binding site for residue DMS C 309
39
AG3
SOFTWARE
LEU C:226 , GLY C:227 , SER C:229 , MET C:236 , ASP C:253 , HOH C:438
binding site for residue PGO C 310
40
AG4
SOFTWARE
ASP A:200 , VAL C:108 , TRP C:109 , LEU C:261 , HOH C:411 , HOH C:477
binding site for residue PGO C 311
41
AG5
SOFTWARE
HIS C:172 , ALA C:184 , 67M C:301
binding site for residue PGO C 312
42
AG6
SOFTWARE
VAL C:108 , ARG C:110
binding site for residue PGO C 313
43
AG7
SOFTWARE
LYS C:241 , GLY D:178 , GLY D:179 , 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 , TYR D:240 , ZN D:302 , EDO D:309 , HOH D:428 , HOH D:485 , HOH D:491 , HOH D:494 , HOH D:503 , HOH D:550
binding site for residue 67M D 301
44
AG8
SOFTWARE
HIS D:218 , HIS D:222 , HIS D:228 , 67M D:301
binding site for residue ZN D 302
45
AG9
SOFTWARE
HIS D:168 , ASP D:170 , HIS D:183 , HIS D:196
binding site for residue ZN D 303
46
AH1
SOFTWARE
ASP D:158 , GLY D:190 , GLY D:192 , ASP D:194 , HOH D:415 , HOH D:419
binding site for residue CA D 304
47
AH2
SOFTWARE
ASP D:124 , GLU D:199 , GLU D:201 , HOH D:448 , HOH D:501
binding site for residue CA D 305
48
AH3
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
49
AH4
SOFTWARE
HOH D:432
binding site for residue EDO D 307
50
AH5
SOFTWARE
HIS D:172 , ALA D:184 , PHE D:185
binding site for residue EDO D 308
51
AH6
SOFTWARE
PRO D:232 , ALA D:234 , PHE D:237 , THR D:239 , LYS D:241 , VAL D:243 , 67M D:301
binding site for residue EDO D 309
52
AH7
SOFTWARE
VAL D:108 , TRP D:109 , ARG D:110 , GLY D:188 , HOH D:440
binding site for residue EDO D 310
53
AH8
SOFTWARE
ARG D:135 , PHE D:138 , GLN D:139 , PHE D:149
binding site for residue EDO D 311
54
AH9
SOFTWARE
ARG D:127 , HOH D:443 , HOH D:471
binding site for residue EDO D 312
55
AI1
SOFTWARE
GLY D:225 , LEU D:226 , GLY D:227
binding site for residue PGO D 313
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
Info
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;
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[
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Exons
(0, 0)
Info
All 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
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all PFAM domains
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Asym.Unit (136 KB)
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Biol.Unit 1 (35 KB)
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