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4G0D
Biol. Unit 2
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
(3, 10)
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
2
Ligand/Ion
GLYCEROL
4
PEG
3
Ligand/Ion
DI(HYDROXYETHYL)ETHER
5
PGO
5
Ligand/Ion
S-1,2-PROPANEDIOL
6
ZN
-1
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(21, 21)
Info
All Sites
01: CC3 (SOFTWARE)
02: CC4 (SOFTWARE)
03: CC5 (SOFTWARE)
04: CC6 (SOFTWARE)
05: CC7 (SOFTWARE)
06: CC8 (SOFTWARE)
07: CC9 (SOFTWARE)
08: DC1 (SOFTWARE)
09: DC2 (SOFTWARE)
10: DC3 (SOFTWARE)
11: DC4 (SOFTWARE)
12: DC5 (SOFTWARE)
13: DC6 (SOFTWARE)
14: DC7 (SOFTWARE)
15: DC8 (SOFTWARE)
16: DC9 (SOFTWARE)
17: EC1 (SOFTWARE)
18: EC2 (SOFTWARE)
19: EC3 (SOFTWARE)
20: EC4 (SOFTWARE)
21: GC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
CC3
SOFTWARE
HIS B:222 , HIS B:226 , HIS B:232 , SER X:45 , HOH X:107
BINDING SITE FOR RESIDUE ZN B 501
02
CC4
SOFTWARE
HIS B:172 , ASP B:174 , HIS B:187 , HIS B:200
BINDING SITE FOR RESIDUE ZN B 502
03
CC5
SOFTWARE
ASP B:128 , ASP B:203 , GLU B:205 , HOH B:653
BINDING SITE FOR RESIDUE CA B 503
04
CC6
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 504
05
CC7
SOFTWARE
ASP B:162 , ASN B:194 , GLY B:196 , ASP B:198 , HOH B:643 , HOH B:720
BINDING SITE FOR RESIDUE CA B 505
06
CC8
SOFTWARE
ASP B:291 , ASP B:335 , SER B:383 , ASP B:432 , HOH B:605 , HOH B:675 , HOH B:801
BINDING SITE FOR RESIDUE CA B 506
07
CC9
SOFTWARE
ILE B:293 , ALA B:337 , ALA B:385 , VAL B:434 , CL B:508 , CL B:510
BINDING SITE FOR RESIDUE CA B 507
08
DC1
SOFTWARE
ILE B:293 , ALA B:337 , ALA B:385 , VAL B:434 , CA B:507
BINDING SITE FOR RESIDUE CL B 508
09
DC2
SOFTWARE
SER B:146 , THR B:149 , GLY B:269 , HOH B:711
BINDING SITE FOR RESIDUE CA B 509
10
DC3
SOFTWARE
ILE B:293 , THR B:294 , TYR B:338 , CA B:507 , HOH B:641 , HOH B:736
BINDING SITE FOR RESIDUE CL B 510
11
DC4
SOFTWARE
VAL B:106 , PHE B:107 , ARG B:109
BINDING SITE FOR RESIDUE PEG B 511
12
DC5
SOFTWARE
PRO B:278 , HOH B:633
BINDING SITE FOR RESIDUE GOL B 512
13
DC6
SOFTWARE
TYR B:125 , THR B:126 , PHE B:167 , ILE B:169 , ASP B:203 , HOH B:670
BINDING SITE FOR RESIDUE PEG B 513
14
DC7
SOFTWARE
ASN B:124 , TYR B:125 , HIS B:131 , TRP C:455
BINDING SITE FOR RESIDUE PEG B 514
15
DC8
SOFTWARE
GLU B:421 , PHE B:424 , GLY B:426 , GLY B:428
BINDING SITE FOR RESIDUE PGO B 515
16
DC9
SOFTWARE
LYS B:283 , CYS B:284 , LEU B:469 , TRP B:470
BINDING SITE FOR RESIDUE GOL B 516
17
EC1
SOFTWARE
LYS B:140 , PHE B:217 , TYR B:246 , GLY B:248 , LYS B:249 , SER B:250 , HOH B:743
BINDING SITE FOR RESIDUE PGO B 517
18
EC2
SOFTWARE
HIS B:232
BINDING SITE FOR RESIDUE PGO B 518
19
EC3
SOFTWARE
ASN B:445 , ILE B:448
BINDING SITE FOR RESIDUE PGO B 519
20
EC4
SOFTWARE
GLN B:314
BINDING SITE FOR RESIDUE PGO B 520
21
GC4
SOFTWARE
PRO B:127 , TRP C:455
BINDING SITE FOR RESIDUE PGO C 518
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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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)
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CATH Domains
(0, 0)
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all CATH domains
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Sorry, no Info available
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Atom Selection
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