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1EAK
Biol. Unit 1
Info
Asym.Unit (283 KB)
Biol.Unit 1 (140 KB)
Biol.Unit 2 (140 KB)
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(1)
Title
:
CATALYTIC DOMAIN OF PROMMP-2 E404Q MUTANT
Authors
:
U. Bergmann, A. Tuuttila, K. Tryggvason, E. Morgunova
Date
:
12 Jul 01 (Deposition) - 22 Aug 02 (Release) - 21 Dec 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.66
Chains
:
Asym. Unit : A,B,C,D,P,R
Biol. Unit 1: A,C,P (1x)
Biol. Unit 2: B,D,R (1x)
Keywords
:
Hydrolase-Hydrolase Inhibitor Complex, Hydrolyse, Matrix Metalloproteinase, Gelatinase A, Hydrolase- Hydrolase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
U. Bergmann, A. Tuuttila, E. Morgunova, K. Tryggvason
Crystal Structure Of Human Mmp-2 Reveals A New P
To Be Published
[
close entry info
]
Hetero Components
(1, 3)
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)
2a: SULFATE ION (SO4a)
2b: SULFATE ION (SO4b)
2c: SULFATE ION (SO4c)
2d: SULFATE ION (SO4d)
2e: SULFATE ION (SO4e)
2f: SULFATE ION (SO4f)
3a: ZINC ION (ZNa)
3b: ZINC ION (ZNb)
3c: ZINC ION (ZNc)
3d: ZINC ION (ZNd)
3e: ZINC ION (ZNe)
3f: ZINC ION (ZNf)
3g: ZINC ION (ZNg)
3h: ZINC ION (ZNh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
-1
Ligand/Ion
CALCIUM ION
2
SO4
3
Ligand/Ion
SULFATE ION
3
ZN
-1
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(12, 12)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: BC3 (SOFTWARE)
07: BC4 (SOFTWARE)
08: BC5 (SOFTWARE)
09: BC6 (SOFTWARE)
10: BC7 (SOFTWARE)
11: BC8 (SOFTWARE)
12: CC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLN A:298 , GLY A:299 , THR A:300 , THR C:307
BINDING SITE FOR RESIDUE SO4 A 851
02
AC2
SOFTWARE
HIS A:178 , ASP A:180 , HIS A:193 , HIS A:206
BINDING SITE FOR RESIDUE ZN A 996
03
AC3
SOFTWARE
CYS A:102 , HIS A:403 , HIS A:407 , HIS A:413
BINDING SITE FOR RESIDUE ZN A 997
04
AC4
SOFTWARE
ASP A:185 , GLY A:186 , ASP A:188 , LEU A:190 , ASP A:208 , GLU A:211
BINDING SITE FOR RESIDUE CA A 998
05
AC5
SOFTWARE
ALA A:167 , ASP A:168 , GLY A:198 , GLY A:200 , GLY A:202
BINDING SITE FOR RESIDUE CA A 999
06
BC3
SOFTWARE
THR A:307 , GLN C:298 , GLY C:299 , THR C:300 , ALA P:753
BINDING SITE FOR RESIDUE SO4 C 850
07
BC4
SOFTWARE
ARG C:432 , SER C:434 , GLN C:435
BINDING SITE FOR RESIDUE SO4 C 856
08
BC5
SOFTWARE
HIS C:178 , ASP C:180 , HIS C:193 , HIS C:206
BINDING SITE FOR RESIDUE ZN C 996
09
BC6
SOFTWARE
CYS C:102 , HIS C:403 , HIS C:407 , HIS C:413
BINDING SITE FOR RESIDUE ZN C 997
10
BC7
SOFTWARE
ASP C:185 , GLY C:186 , ASP C:188 , LEU C:190 , ASP C:208 , GLU C:211
BINDING SITE FOR RESIDUE CA C 998
11
BC8
SOFTWARE
ASP C:168 , GLY C:198 , GLY C:200 , GLY C:202
BINDING SITE FOR RESIDUE CA C 999
12
CC5
SOFTWARE
GLY A:130 , TYR A:131 , PRO A:133 , ASP A:209 , HIS A:276 , GLU A:277 , ALA A:278 , PHE A:293 , ASP A:303 , SER A:304 , ARG C:296 , GLY C:299 , SER C:301 , SO4 C:850
BINDING SITE FOR CHAIN P OF INHIBITOR PEPTIDE
[
close Site info
]
SAPs(SNPs)/Variants
(6, 12)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_032423 (R101H, chain A/C, )
2: VAR_032424 (D210Y, chain A/C, )
3: VAR_036136 (A228T, chain A/C, )
4: VAR_MMP2_HUMAN_CCDS10752_1_01 (A228T, chain A/C, )
5: VAR_032425 (Q404K, chain A/C, )
6: VAR_020616 (A447V, chain A/C, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_032423
R
101
H
MMP2_HUMAN
Disease (MONA)
---
A/C
R
101
H
2
UniProt
VAR_032424
D
210
Y
MMP2_HUMAN
Polymorphism
---
A/C
D
210
Y
3
UniProt
VAR_036136
A
228
T
MMP2_HUMAN
Unclassified
---
A/C
A
228
T
4
CancerSNP
VAR_MMP2_HUMAN_CCDS10752_1_01
*
A
228
T
MMP2_HUMAN
Disease (Colorectal cancer)
---
A/C
A
228
T
5
UniProt
VAR_032425
E
404
K
MMP2_HUMAN
Disease (MONA)
---
A/C
Q
404
K
6
UniProt
VAR_020616
A
447
V
MMP2_HUMAN
Polymorphism
17859943
A/C
A
447
V
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(4, 16)
Info
All PROSITE Patterns/Profiles
1: CYSTEINE_SWITCH (A:100-107,C:100-107)
2: FN2_2 (A:228-276,C:228-276,A:286-334,C:28...)
3: FN2_1 (A:233-274,C:233-274,A:291-332,C:29...)
4: ZINC_PROTEASE (A:400-409,C:400-409)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CYSTEINE_SWITCH
PS00546
Matrixins cysteine switch.
MMP2_HUMAN
100-107
2
A:100-107
-
C:100-107
-
2
FN2_2
PS51092
Fibronectin type-II collagen-binding domain profile.
MMP2_HUMAN
228-276
286-334
344-392
6
A:228-276
-
C:228-276
-
A:286-334
-
C:286-334
-
A:344-392
-
C:344-392
-
3
FN2_1
PS00023
Fibronectin type-II collagen-binding domain signature.
MMP2_HUMAN
233-274
291-332
349-390
6
A:233-274
-
C:233-274
-
A:291-332
-
C:291-332
-
A:349-390
-
C:349-390
-
4
ZINC_PROTEASE
PS00142
Neutral zinc metallopeptidases, zinc-binding region signature.
MMP2_HUMAN
400-409
2
A:400-409
-
C:400-409
-
[
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]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
All Exon Boundaries
View:
Label:
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
(3, 20)
Info
All SCOP Domains
1a: SCOP_d1eaka1 (A:32-107)
1b: SCOP_d1eakb1 (B:32-107)
1c: SCOP_d1eakc1 (C:32-107)
1d: SCOP_d1eakd1 (D:32-107)
2a: SCOP_d1eaka2 (A:108-216,A:394-452)
2b: SCOP_d1eakb2 (B:108-216,B:394-450)
2c: SCOP_d1eakc2 (C:108-216,C:394-449)
2d: SCOP_d1eakd2 (D:108-216,D:394-450)
3a: SCOP_d1eaka3 (A:217-277)
3b: SCOP_d1eaka4 (A:278-335)
3c: SCOP_d1eakd4 (D:278-335)
3d: SCOP_d1eakd5 (D:336-393)
3e: SCOP_d1eaka5 (A:336-393)
3f: SCOP_d1eakb3 (B:217-277)
3g: SCOP_d1eakb4 (B:278-335)
3h: SCOP_d1eakb5 (B:336-393)
3i: SCOP_d1eakc3 (C:217-277)
3j: SCOP_d1eakc4 (C:278-335)
3k: SCOP_d1eakc5 (C:336-393)
3l: SCOP_d1eakd3 (D:217-277)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
PGBD-like
(9)
Superfamily
:
PGBD-like
(9)
Family
:
MMP N-terminal domain
(6)
Protein domain
:
Gelatinase A (MMP-2)
(3)
Human (Homo sapiens) [TaxId: 9606]
(3)
1a
d1eaka1
A:32-107
1b
d1eakb1
B:32-107
1c
d1eakc1
C:32-107
1d
d1eakd1
D:32-107
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 A
(4)
Human (Homo sapiens) [TaxId: 9606]
(4)
2a
d1eaka2
A:108-216,A:394-452
2b
d1eakb2
B:108-216,B:394-450
2c
d1eakc2
C:108-216,C:394-449
2d
d1eakd2
D:108-216,D:394-450
Class
:
Small proteins
(3458)
Fold
:
Kringle-like
(68)
Superfamily
:
Kringle-like
(68)
Family
:
Fibronectin type II module
(13)
Protein domain
:
Gelatinase A (MMP-2) type II modules
(6)
Human (Homo sapiens) [TaxId: 9606]
(6)
3a
d1eaka3
A:217-277
3b
d1eaka4
A:278-335
3c
d1eakd4
D:278-335
3d
d1eakd5
D:336-393
3e
d1eaka5
A:336-393
3f
d1eakb3
B:217-277
3g
d1eakb4
B:278-335
3h
d1eakb5
B:336-393
3i
d1eakc3
C:217-277
3j
d1eakc4
C:278-335
3k
d1eakc5
C:336-393
3l
d1eakd3
D:217-277
[
close SCOP info
]
CATH Domains
(3, 20)
Info
all CATH domains
1a: CATH_1eakA02 (A:108-218,A:392-452)
1b: CATH_1eakB02 (B:108-218,B:392-450)
1c: CATH_1eakD02 (D:108-218,D:392-450)
1d: CATH_1eakC02 (C:108-218,C:392-449)
2a: CATH_1eakA01 (A:45-107)
2b: CATH_1eakB01 (B:45-107)
2c: CATH_1eakC01 (C:45-107)
2d: CATH_1eakD01 (D:45-107)
3a: CATH_1eakA05 (A:336-391)
3b: CATH_1eakA03 (A:220-276)
3c: CATH_1eakB03 (B:220-276)
3d: CATH_1eakC03 (C:220-276)
3e: CATH_1eakB05 (B:336-391)
3f: CATH_1eakD03 (D:220-276)
3g: CATH_1eakA04 (A:277-335)
3h: CATH_1eakB04 (B:277-335)
3i: CATH_1eakC04 (C:277-335)
3j: CATH_1eakD04 (D:277-335)
3k: CATH_1eakC05 (C:336-391)
3l: CATH_1eakD05 (D:336-391)
View:
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Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
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
1eakA02
A:108-218,A:392-452
1b
1eakB02
B:108-218,B:392-450
1c
1eakD02
D:108-218,D:392-450
1d
1eakC02
C:108-218,C:392-449
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Muramoyl-pentapeptide Carboxypeptidase; domain 1
(3)
Homologous Superfamily
:
Muramoyl-pentapeptide Carboxypeptidase, domain 1
(3)
Human (Homo sapiens)
(2)
2a
1eakA01
A:45-107
2b
1eakB01
B:45-107
2c
1eakC01
C:45-107
2d
1eakD01
D:45-107
Class
:
Mainly Beta
(13760)
Architecture
:
Ribbon
(789)
Topology
:
Seminal Fluid Protein PDC-109 (Domain B)
(33)
Homologous Superfamily
:
[code=2.10.10.10, no name defined]
(13)
Human (Homo sapiens)
(11)
3a
1eakA05
A:336-391
3b
1eakA03
A:220-276
3c
1eakB03
B:220-276
3d
1eakC03
C:220-276
3e
1eakB05
B:336-391
3f
1eakD03
D:220-276
3g
1eakA04
A:277-335
3h
1eakB04
B:277-335
3i
1eakC04
C:277-335
3j
1eakD04
D:277-335
3k
1eakC05
C:336-391
3l
1eakD05
D:336-391
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
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Label:
Sorry, no Info available
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Asym.Unit (283 KB)
Header - Asym.Unit
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Header - Biol.Unit 1
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