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Biol. Unit 5
Info
Asym.Unit (65 KB)
Biol.Unit 1 (32 KB)
Biol.Unit 2 (31 KB)
Biol.Unit 3 (115 KB)
Biol.Unit 4 (59 KB)
Biol.Unit 5 (59 KB)
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Title
:
MMP-9 ACTIVE SITE MUTANT WITH IODINE-LABELED CARBOXYLATE INHIBITOR
Authors
:
A. Tochowicz, W. Bode, K. Maskos, P. Goettig
Date
:
15 Feb 07 (Deposition) - 19 Jun 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: A,B (2x)
Biol. Unit 4: A,B (1x)
Biol. Unit 5: A,B (1x)
Keywords
:
Matrix Metalloproteinase, Hydrolase, S1-Prime Pocket
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. Tochowicz, K. Maskos, R. Huber, R. Oltenfreiter, V. Dive, A. Yiotakis, M. Zanda, W. Bode, P. Goettig
Crystal Structures Of Mmp-9 Complexes With Five Inhibitors: Contribution Of The Flexible Arg424 Side-Chain To Selectivity.
J. Mol. Biol. V. 371 989 2007
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(1, 2)
Info
All Hetero Components
1a: N-[(4'-IODOBIPHENYL-4-YL)SULFONYL]... (6MRa)
1b: N-[(4'-IODOBIPHENYL-4-YL)SULFONYL]... (6MRb)
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)
3a: CHLORIDE ION (CLa)
3b: CHLORIDE ION (CLb)
3c: CHLORIDE ION (CLc)
3d: CHLORIDE ION (CLd)
3e: CHLORIDE ION (CLe)
3f: CHLORIDE ION (CLf)
4a: ZINC ION (ZNa)
4b: ZINC ION (ZNb)
4c: ZINC ION (ZNc)
4d: ZINC ION (ZNd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
6MR
2
Ligand/Ion
N-[(4'-IODOBIPHENYL-4-YL)SULFONYL]-D-TRYPTOPHAN
2
CA
-1
Ligand/Ion
CALCIUM ION
3
CL
-1
Ligand/Ion
CHLORIDE ION
4
ZN
-1
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(20, 20)
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: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:401 , HIS A:405 , HIS A:411 , 6MR A:501
BINDING SITE FOR RESIDUE ZN A 444
02
AC2
SOFTWARE
HIS A:175 , ASP A:177 , HIS A:190 , HIS A:203
BINDING SITE FOR RESIDUE ZN A 445
03
AC3
SOFTWARE
HIS B:401 , HIS B:405 , HIS B:411 , 6MR B:502
BINDING SITE FOR RESIDUE ZN B 444
04
AC4
SOFTWARE
HIS B:175 , ASP B:177 , HIS B:190 , HIS B:203
BINDING SITE FOR RESIDUE ZN B 445
05
AC5
SOFTWARE
ASP A:165 , GLY A:197 , GLN A:199 , ASP A:201 , HOH A:564 , HOH A:583
BINDING SITE FOR RESIDUE CA A 446
06
AC6
SOFTWARE
ASP A:182 , GLY A:183 , ASP A:185 , LEU A:187 , ASP A:205 , GLU A:208
BINDING SITE FOR RESIDUE CA A 447
07
AC7
SOFTWARE
ASP A:131 , ASP A:206 , GLU A:208
BINDING SITE FOR RESIDUE CA A 448
08
AC8
SOFTWARE
SER A:149 , THR A:152 , HOH A:528 , HOH A:535 , HOH A:547
BINDING SITE FOR RESIDUE CA A 449
09
AC9
SOFTWARE
ASP B:165 , GLY B:197 , GLN B:199 , ASP B:201 , HOH B:505 , HOH B:540
BINDING SITE FOR RESIDUE CA B 446
10
BC1
SOFTWARE
ASP B:182 , GLY B:183 , ASP B:185 , LEU B:187 , ASP B:205 , GLU B:208
BINDING SITE FOR RESIDUE CA B 447
11
BC2
SOFTWARE
ASP B:131 , ASP B:206 , GLU B:208
BINDING SITE FOR RESIDUE CA B 448
12
BC3
SOFTWARE
SER B:149 , THR B:152 , HOH B:528 , HOH B:551 , HOH B:552 , HOH B:593
BINDING SITE FOR RESIDUE CA B 449
13
BC4
SOFTWARE
GLY A:213 , SER A:394
BINDING SITE FOR RESIDUE CL A 450
14
BC5
SOFTWARE
GLY B:213 , SER B:394
BINDING SITE FOR RESIDUE CL B 450
15
BC6
SOFTWARE
HOH A:527 , ARG B:143 , PHE B:396
BINDING SITE FOR RESIDUE CL B 451
16
BC7
SOFTWARE
ARG A:143 , HOH A:565
BINDING SITE FOR RESIDUE CL A 451
17
BC8
SOFTWARE
PRO A:430 , LEU A:431 , HOH A:524 , HOH A:529 , HOH A:610
BINDING SITE FOR RESIDUE CL A 452
18
BC9
SOFTWARE
ASN A:127 , TYR A:128 , ASN B:127 , TYR B:128
BINDING SITE FOR RESIDUE CL A 453
19
CC1
SOFTWARE
LEU A:188 , ALA A:189 , HIS A:401 , GLN A:402 , HIS A:405 , HIS A:411 , LEU A:418 , TYR A:420 , PRO A:421 , MET A:422 , TYR A:423 , ZN A:444 , HOH A:503 , HOH A:608
BINDING SITE FOR RESIDUE 6MR A 501
20
CC2
SOFTWARE
LEU B:188 , ALA B:189 , HIS B:401 , GLN B:402 , HIS B:405 , HIS B:411 , LEU B:418 , TYR B:420 , PRO B:421 , MET B:422 , TYR B:423 , ZN B:444 , HOH B:545
BINDING SITE FOR RESIDUE 6MR B 502
[
close Site info
]
SAPs(SNPs)/Variants
(1, 2)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_020054 (N127K, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_020054
N
127
K
MMP9_HUMAN
Polymorphism
3918252
A/B
N
127
K
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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]
PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: ZINC_PROTEASE (A:398-407,B:398-407)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ZINC_PROTEASE
PS00142
Neutral zinc metallopeptidases, zinc-binding region signature.
MMP9_HUMAN
398-407
2
A:398-407
B:398-407
[
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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
(1, 2)
Info
All SCOP Domains
1a: SCOP_d2ow0a_ (A:)
1b: SCOP_d2ow0b_ (B:)
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Zincin-like
(701)
Superfamily
:
Metalloproteases (zincins), catalytic domain
(647)
Family
:
Matrix metalloproteases, catalytic domain
(199)
Protein domain
:
Gelatinase B (MMP-9)
(13)
Human (Homo sapiens) [TaxId: 9606]
(13)
1a
d2ow0a_
A:
1b
d2ow0b_
B:
[
close SCOP info
]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_2ow0A00 (A:110-443)
1b: CATH_2ow0B00 (B:114-443)
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(
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(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Collagenase (Catalytic Domain)
(236)
Homologous Superfamily
:
Collagenase (Catalytic Domain)
(234)
Human (Homo sapiens)
(153)
1a
2ow0A00
A:110-443
1b
2ow0B00
B:114-443
[
close CATH info
]
Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Peptidase_M10_2ow0B01 (B:115-443)
1b: PFAM_Peptidase_M10_2ow0B02 (B:115-443)
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Select:
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Peptidase_MA
(251)
Family
:
Peptidase_M10
(85)
Homo sapiens (Human)
(82)
1a
Peptidase_M10-2ow0B01
B:115-443
1b
Peptidase_M10-2ow0B02
B:115-443
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]
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Asymmetric Unit 1
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