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4G0D
Biol. Unit 3
Info
Asym.Unit (302 KB)
Biol.Unit 1 (79 KB)
Biol.Unit 2 (78 KB)
Biol.Unit 3 (79 KB)
Biol.Unit 4 (79 KB)
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Title
:
HUMAN COLLAGENASE 3 (MMP-13) FULL FORM WITH PEPTIDES FROM PRO-DOMAIN
Authors
:
E. A. Stura, L. Vera, R. Visse, H. Nagase, V. Dive
Date
:
09 Jul 12 (Deposition) - 21 Aug 13 (Release) - 05 Feb 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.54
Chains
:
Asym. Unit : A,B,C,D,W,X,Y,Z
Biol. Unit 1: A,W (1x)
Biol. Unit 2: B,X (1x)
Biol. Unit 3: C,Y (1x)
Biol. Unit 4: D,Z (1x)
Keywords
:
Protein-Peptide Complex, Collagenase, Cleavage With Mmp3, Hydrolase, Pro-Peptide, Metzincin, Zinc Metalloprotease, Collagen Cleavage, Collagen
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
E. A. Stura, R. Visse, P. Cuniasse, V. Dive, H. Nagase
Crystal Structure Of Full-Length Human Collagenase 3 (Mmp-13) With Peptides In The Active Site Defines Exosites In The Catalytic Domain.
Faseb J. V. 27 4395 2013
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Hetero Components
(2, 14)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
1e: CALCIUM ION (CAe)
1f: CALCIUM ION (CAf)
1g: CALCIUM ION (CAg)
1h: CALCIUM ION (CAh)
1i: CALCIUM ION (CAi)
1j: CALCIUM ION (CAj)
1k: CALCIUM ION (CAk)
1l: CALCIUM ION (CAl)
1m: CALCIUM ION (CAm)
1n: CALCIUM ION (CAn)
1o: CALCIUM ION (CAo)
1p: CALCIUM ION (CAp)
1q: CALCIUM ION (CAq)
1r: CALCIUM ION (CAr)
1s: CALCIUM ION (CAs)
1t: CALCIUM ION (CAt)
1u: CALCIUM ION (CAu)
1v: CALCIUM ION (CAv)
1w: CALCIUM ION (CAw)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
2c: CHLORIDE ION (CLc)
2d: CHLORIDE ION (CLd)
2e: CHLORIDE ION (CLe)
2f: CHLORIDE ION (CLf)
2g: CHLORIDE ION (CLg)
2h: CHLORIDE ION (CLh)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
3d: GLYCEROL (GOLd)
3e: GLYCEROL (GOLe)
4a: DI(HYDROXYETHYL)ETHER (PEGa)
4b: DI(HYDROXYETHYL)ETHER (PEGb)
4c: DI(HYDROXYETHYL)ETHER (PEGc)
4d: DI(HYDROXYETHYL)ETHER (PEGd)
5a: S-1,2-PROPANEDIOL (PGOa)
5aa: S-1,2-PROPANEDIOL (PGOaa)
5ab: S-1,2-PROPANEDIOL (PGOab)
5ac: S-1,2-PROPANEDIOL (PGOac)
5ad: S-1,2-PROPANEDIOL (PGOad)
5ae: S-1,2-PROPANEDIOL (PGOae)
5af: S-1,2-PROPANEDIOL (PGOaf)
5ag: S-1,2-PROPANEDIOL (PGOag)
5ah: S-1,2-PROPANEDIOL (PGOah)
5ai: S-1,2-PROPANEDIOL (PGOai)
5aj: S-1,2-PROPANEDIOL (PGOaj)
5ak: S-1,2-PROPANEDIOL (PGOak)
5al: S-1,2-PROPANEDIOL (PGOal)
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)
5g: S-1,2-PROPANEDIOL (PGOg)
5h: S-1,2-PROPANEDIOL (PGOh)
5i: S-1,2-PROPANEDIOL (PGOi)
5j: S-1,2-PROPANEDIOL (PGOj)
5k: S-1,2-PROPANEDIOL (PGOk)
5l: S-1,2-PROPANEDIOL (PGOl)
5m: S-1,2-PROPANEDIOL (PGOm)
5n: S-1,2-PROPANEDIOL (PGOn)
5o: S-1,2-PROPANEDIOL (PGOo)
5p: S-1,2-PROPANEDIOL (PGOp)
5q: S-1,2-PROPANEDIOL (PGOq)
5r: S-1,2-PROPANEDIOL (PGOr)
5s: S-1,2-PROPANEDIOL (PGOs)
5t: S-1,2-PROPANEDIOL (PGOt)
5u: S-1,2-PROPANEDIOL (PGOu)
5v: S-1,2-PROPANEDIOL (PGOv)
5w: S-1,2-PROPANEDIOL (PGOw)
5x: S-1,2-PROPANEDIOL (PGOx)
5y: S-1,2-PROPANEDIOL (PGOy)
5z: S-1,2-PROPANEDIOL (PGOz)
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
CA
-1
Ligand/Ion
CALCIUM ION
2
CL
-1
Ligand/Ion
CHLORIDE ION
3
GOL
3
Ligand/Ion
GLYCEROL
4
PEG
-1
Ligand/Ion
DI(HYDROXYETHYL)ETHER
5
PGO
11
Ligand/Ion
S-1,2-PROPANEDIOL
6
ZN
-1
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(29, 29)
Info
All Sites
01: BC2 (SOFTWARE)
02: DC7 (SOFTWARE)
03: EC5 (SOFTWARE)
04: EC6 (SOFTWARE)
05: EC7 (SOFTWARE)
06: EC8 (SOFTWARE)
07: EC9 (SOFTWARE)
08: FC1 (SOFTWARE)
09: FC2 (SOFTWARE)
10: FC3 (SOFTWARE)
11: FC4 (SOFTWARE)
12: FC5 (SOFTWARE)
13: FC6 (SOFTWARE)
14: FC7 (SOFTWARE)
15: FC8 (SOFTWARE)
16: FC9 (SOFTWARE)
17: GC1 (SOFTWARE)
18: GC2 (SOFTWARE)
19: GC3 (SOFTWARE)
20: GC4 (SOFTWARE)
21: GC5 (SOFTWARE)
22: GC6 (SOFTWARE)
23: GC7 (SOFTWARE)
24: GC8 (SOFTWARE)
25: GC9 (SOFTWARE)
26: HC1 (SOFTWARE)
27: IC7 (SOFTWARE)
28: IC9 (SOFTWARE)
29: JC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
BC2
SOFTWARE
LYS A:170 , TRP C:455
BINDING SITE FOR RESIDUE PGO A 511
02
DC7
SOFTWARE
ASN B:124 , TYR B:125 , HIS B:131 , TRP C:455
BINDING SITE FOR RESIDUE PEG B 514
03
EC5
SOFTWARE
HIS C:222 , HIS C:226 , HIS C:232 , SER Y:45 , CL Y:101
BINDING SITE FOR RESIDUE ZN C 501
04
EC6
SOFTWARE
HIS C:172 , ASP C:174 , HIS C:187 , HIS C:200
BINDING SITE FOR RESIDUE ZN C 502
05
EC7
SOFTWARE
ASP C:128 , ASP C:203 , GLU C:205
BINDING SITE FOR RESIDUE CA C 503
06
EC8
SOFTWARE
ASP C:179 , GLY C:180 , SER C:182 , LEU C:184 , ASP C:202 , GLU C:205
BINDING SITE FOR RESIDUE CA C 504
07
EC9
SOFTWARE
ASP C:162 , ASN C:194 , GLY C:196 , ASP C:198 , HOH C:630 , HOH C:768
BINDING SITE FOR RESIDUE CA C 505
08
FC1
SOFTWARE
ASP C:291 , ASP C:335 , SER C:383 , ASP C:432 , HOH C:621 , HOH C:656 , HOH C:709
BINDING SITE FOR RESIDUE CA C 506
09
FC2
SOFTWARE
ILE C:293 , ALA C:337 , ALA C:385 , VAL C:434 , CL C:508
BINDING SITE FOR RESIDUE CA C 507
10
FC3
SOFTWARE
ALA C:292 , ILE C:293 , ALA C:337 , ALA C:385 , CA C:507
BINDING SITE FOR RESIDUE CL C 508
11
FC4
SOFTWARE
SER C:146 , THR C:149 , HOH C:659 , HOH C:660
BINDING SITE FOR RESIDUE CA C 509
12
FC5
SOFTWARE
ILE C:243 , THR C:245 , HOH C:611 , HOH C:634
BINDING SITE FOR RESIDUE CA C 510
13
FC6
SOFTWARE
MET C:253 , PRO C:278 , ARG C:306 , ARG C:333 , PGO C:519 , HOH C:636
BINDING SITE FOR RESIDUE PGO C 511
14
FC7
SOFTWARE
GLU A:319 , HOH A:643 , ASP C:317 , ALA C:318
BINDING SITE FOR RESIDUE GOL C 512
15
FC8
SOFTWARE
GLU C:171
BINDING SITE FOR RESIDUE GOL C 513
16
FC9
SOFTWARE
THR C:300 , LEU C:311 , HIS C:312 , PRO C:313 , GLN C:315 , TRP C:470 , PGO C:515
BINDING SITE FOR RESIDUE PGO C 514
17
GC1
SOFTWARE
SER C:467 , ILE C:468 , PGO C:514
BINDING SITE FOR RESIDUE PGO C 515
18
GC2
SOFTWARE
GLN A:314 , SER C:325 , TYR C:360 , HOH C:692 , HOH C:722 , HOH C:782
BINDING SITE FOR RESIDUE PGO C 516
19
GC3
SOFTWARE
ASN C:194 , ASP C:198
BINDING SITE FOR RESIDUE PGO C 517
20
GC4
SOFTWARE
PRO B:127 , TRP C:455
BINDING SITE FOR RESIDUE PGO C 518
21
GC5
SOFTWARE
PHE C:252 , MET C:253 , ARG C:306 , PGO C:511 , PGO C:520
BINDING SITE FOR RESIDUE PGO C 519
22
GC6
SOFTWARE
THR C:247 , PHE C:252 , PRO C:255 , ARG C:306 , LEU C:322 , PGO C:519 , HOH C:776
BINDING SITE FOR RESIDUE PGO C 520
23
GC7
SOFTWARE
ASP C:282 , ASP C:285 , LEU C:288 , HOH C:637
BINDING SITE FOR RESIDUE PGO C 521
24
GC8
SOFTWARE
PRO C:417 , LEU C:419
BINDING SITE FOR RESIDUE GOL C 522
25
GC9
SOFTWARE
GLN C:263 , LEU C:265
BINDING SITE FOR RESIDUE PGO C 523
26
HC1
SOFTWARE
LYS C:140 , THR C:247 , GLY C:248 , SER C:250 , HOH C:740
BINDING SITE FOR RESIDUE PGO C 524
27
IC7
SOFTWARE
ILE C:459 , GLU D:421 , GLY D:426 , ILE D:427 , GLY D:428 , HOH D:640
BINDING SITE FOR RESIDUE PGO D 515
28
IC9
SOFTWARE
PRO C:464 , HOH C:775 , ASN D:445 , ILE D:448
BINDING SITE FOR RESIDUE PGO D 517
29
JC4
SOFTWARE
HIS C:222 , HIS C:226 , ZN C:501 , HOH C:715 , ARG Y:44 , SER Y:45 , TYR Y:46
BINDING SITE FOR RESIDUE CL Y 101
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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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PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
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End label:
Sorry, no Info available
[
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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
(0, 0)
Info
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CATH Domains
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all CATH domains
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Pfam Domains
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Info
all PFAM domains
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Sorry, no Info available
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