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1GXD
Biol. Unit 1
Info
Asym.Unit (265 KB)
Biol.Unit 1 (130 KB)
Biol.Unit 2 (131 KB)
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(1)
Title
:
PROMMP-2/TIMP-2 COMPLEX
Authors
:
E. Morgunova, A. Tuuttila, U. Bergmann, K. Tryggvason
Date
:
02 Apr 02 (Deposition) - 09 Jul 02 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.10
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,C (1x)
Biol. Unit 2: B,D (1x)
Keywords
:
Hydrolase, Metalloprotease, Zymogen, Collagen Degradation, Extracellular Matrix, Gelatinase A, Matrix Metalloproteinase 2, Proteinase Inhibitor
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
E. Morgunova, A. Tuuttila, U. Bergmann, K. Tryggvason
Structural Insight Into The Complex Formation Of Latent Matrix Metalloproteinase 2 With Tissue Inhibitor Of Metalloproteinase 2
Proc. Natl. Acad. Sci. Usa V. 99 7414 2002
[
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Hetero Components
(1, 1)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
2a: SULFATE ION (SO4a)
2b: SULFATE ION (SO4b)
3a: ZINC ION (ZNa)
3b: ZINC ION (ZNb)
3c: ZINC ION (ZNc)
3d: ZINC ION (ZNd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
-1
Ligand/Ion
CALCIUM ION
2
SO4
1
Ligand/Ion
SULFATE ION
3
ZN
-1
Ligand/Ion
ZINC ION
[
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Sites
(5, 5)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLN A:269 , GLY A:270 , THR A:271 , THR B:278
BINDING SITE FOR RESIDUE SO4 A1632
2
AC2
SOFTWARE
HIS A:149 , ASP A:151 , HIS A:164 , HIS A:177
BINDING SITE FOR RESIDUE ZN A1633
3
AC3
SOFTWARE
CYS A:73 , ASN A:75 , HIS A:374 , HIS A:378 , HIS A:384
BINDING SITE FOR RESIDUE ZN A1634
4
AC4
SOFTWARE
ASP A:156 , GLY A:157 , ASP A:159 , LEU A:161 , ASP A:179 , GLU A:182
BINDING SITE FOR RESIDUE CA A1635
5
AC5
SOFTWARE
THR A:278 , GLN B:269 , GLY B:270 , THR B:271
BINDING SITE FOR RESIDUE SO4 B1632
[
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]
SAPs(SNPs)/Variants
(11, 11)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
01: VAR_032423 (R72H, chain A, )
02: VAR_032424 (D181Y, chain A, )
03: VAR_036136 (A199T, chain A, )
04: VAR_MMP2_HUMAN_CCDS10752_1_01 (A199T, chain A, )
05: VAR_032425 (A375K, chain A, )
06: VAR_020616 (A418V, chain A, )
07: VAR_036137 (T469M, chain A, )
08: VAR_MMP2_HUMAN_CCDS10752_1_02 (T469M, chain A, )
09: VAR_020617 (V592L, chain A, )
10: VAR_036138 (S615I, chain A, )
11: VAR_MMP2_HUMAN_CCDS10752_1_03 (S615I, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_032423
R
101
H
MMP2_HUMAN
Disease (MONA)
---
A
R
72
H
02
UniProt
VAR_032424
D
210
Y
MMP2_HUMAN
Polymorphism
---
A
D
181
Y
03
UniProt
VAR_036136
A
228
T
MMP2_HUMAN
Unclassified
---
A
A
199
T
04
CancerSNP
VAR_MMP2_HUMAN_CCDS10752_1_01
*
A
228
T
MMP2_HUMAN
Disease (Colorectal cancer)
---
A
A
199
T
05
UniProt
VAR_032425
E
404
K
MMP2_HUMAN
Disease (MONA)
---
A
A
375
K
06
UniProt
VAR_020616
A
447
V
MMP2_HUMAN
Polymorphism
17859943
A
A
418
V
07
UniProt
VAR_036137
T
498
M
MMP2_HUMAN
Unclassified
---
A
T
469
M
08
CancerSNP
VAR_MMP2_HUMAN_CCDS10752_1_02
*
T
498
M
MMP2_HUMAN
Disease (Colorectal cancer)
---
A
T
469
M
09
UniProt
VAR_020617
V
621
L
MMP2_HUMAN
Polymorphism
16955280
A
V
592
L
10
UniProt
VAR_036138
S
644
I
MMP2_HUMAN
Unclassified
---
A
S
615
I
11
CancerSNP
VAR_MMP2_HUMAN_CCDS10752_1_03
*
S
644
I
MMP2_HUMAN
Disease (Colorectal cancer)
---
A
S
615
I
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(8, 15)
Info
All PROSITE Patterns/Profiles
1: NTR (C:1-126)
2: TIMP (C:1-13)
3: CYSTEINE_SWITCH (A:71-78)
4: FN2_2 (A:199-247,A:257-305,A:315-363)
5: FN2_1 (A:204-245,A:262-303,A:320-361)
6: ZINC_PROTEASE (A:371-380)
7: HEMOPEXIN_2 (A:443-487,A:488-534,A:536-584,A:58...)
8: HEMOPEXIN (A:577-592)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
NTR
PS50189
NTR domain profile.
TIMP2_HUMAN
27-152
1
C:1-126
-
2
TIMP
PS00288
Tissue inhibitors of metalloproteinases signature.
TIMP2_HUMAN
27-39
1
C:1-13
-
3
CYSTEINE_SWITCH
PS00546
Matrixins cysteine switch.
MMP2_HUMAN
100-107
1
A:71-78
-
4
FN2_2
PS51092
Fibronectin type-II collagen-binding domain profile.
MMP2_HUMAN
228-276
286-334
344-392
3
A:199-247
-
A:257-305
-
A:315-363
-
5
FN2_1
PS00023
Fibronectin type-II collagen-binding domain signature.
MMP2_HUMAN
233-274
291-332
349-390
3
A:204-245
-
A:262-303
-
A:320-361
-
6
ZINC_PROTEASE
PS00142
Neutral zinc metallopeptidases, zinc-binding region signature.
MMP2_HUMAN
400-409
1
A:371-380
-
7
HEMOPEXIN_2
PS51642
Hemopexin repeat profile.
MMP2_HUMAN
472-516
517-563
565-613
614-660
4
A:443-487
-
A:488-534
-
A:536-584
-
A:585-631
-
8
HEMOPEXIN
PS00024
Hemopexin domain signature.
MMP2_HUMAN
606-621
1
A:577-592
-
[
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]
Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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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
(5, 14)
Info
All SCOP Domains
1a: SCOP_d1gxda1 (A:1-78)
1b: SCOP_d1gxdb1 (B:2-78)
2a: SCOP_d1gxda2 (A:429-631)
2b: SCOP_d1gxdb2 (B:429-631)
3a: SCOP_d1gxdc_ (C:)
3b: SCOP_d1gxdd_ (D:)
4a: SCOP_d1gxda3 (A:79-187,A:365-421)
4b: SCOP_d1gxdb3 (B:79-187,B:365-421)
5a: SCOP_d1gxda4 (A:188-248)
5b: SCOP_d1gxda5 (A:249-308)
5c: SCOP_d1gxda6 (A:309-364)
5d: SCOP_d1gxdb4 (B:188-248)
5e: SCOP_d1gxdb5 (B:249-308)
5f: SCOP_d1gxdb6 (B:309-364)
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
d1gxda1
A:1-78
1b
d1gxdb1
B:2-78
Class
:
All beta proteins
(24004)
Fold
:
4-bladed beta-propeller
(15)
Superfamily
:
Hemopexin-like domain
(15)
Family
:
Hemopexin-like domain
(12)
Protein domain
:
Gelatinase A (MMP-2), C-terminal domain
(4)
Human (Homo sapiens) [TaxId: 9606]
(4)
2a
d1gxda2
A:429-631
2b
d1gxdb2
B:429-631
Fold
:
OB-fold
(1179)
Superfamily
:
TIMP-like
(22)
Family
:
Tissue inhibitor of metalloproteinases, TIMP
(13)
Protein domain
:
TIMP-2
(7)
Human (Homo sapiens) [TaxId: 9606]
(4)
3a
d1gxdc_
C:
3b
d1gxdd_
D:
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)
4a
d1gxda3
A:79-187,A:365-421
4b
d1gxdb3
B:79-187,B:365-421
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)
5a
d1gxda4
A:188-248
5b
d1gxda5
A:249-308
5c
d1gxda6
A:309-364
5d
d1gxdb4
B:188-248
5e
d1gxdb5
B:249-308
5f
d1gxdb6
B:309-364
[
close SCOP info
]
CATH Domains
(5, 14)
Info
all CATH domains
1a: CATH_1gxdA01 (A:17-193,A:363-420)
1b: CATH_1gxdB01 (B:17-193,B:363-420)
2a: CATH_1gxdC01 (C:1-14,C:111-182)
2b: CATH_1gxdD01 (D:1-14,D:111-182)
3a: CATH_1gxdA05 (A:436-631)
3b: CATH_1gxdB05 (B:436-631)
4a: CATH_1gxdC02 (C:15-110)
4b: CATH_1gxdD02 (D:15-110)
5a: CATH_1gxdA04 (A:315-361)
5b: CATH_1gxdB03 (B:257-303)
5c: CATH_1gxdA02 (A:199-251)
5d: CATH_1gxdB02 (B:199-251)
5e: CATH_1gxdB04 (B:315-361)
5f: CATH_1gxdA03 (A:257-303)
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
1gxdA01
A:17-193,A:363-420
1b
1gxdB01
B:17-193,B:363-420
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Tissue inhibitor of metalloproteinase-1. Chain B, domain 1
(6)
Homologous Superfamily
:
Tissue inhibitor of metalloproteinase-1. Chain B, domain 1
(6)
Human (Homo sapiens)
(6)
2a
1gxdC01
C:1-14,C:111-182
2b
1gxdD01
D:1-14,D:111-182
Class
:
Mainly Beta
(13760)
Architecture
:
4 Propellor
(14)
Topology
:
Hemopexin
(14)
Homologous Superfamily
:
Hemopexin
(14)
Human (Homo sapiens)
(10)
3a
1gxdA05
A:436-631
3b
1gxdB05
B:436-631
Architecture
:
Beta Barrel
(4804)
Topology
:
OB fold (Dihydrolipoamide Acetyltransferase, E2P)
(1040)
Homologous Superfamily
:
[code=2.40.50.120, no name defined]
(16)
Human (Homo sapiens)
(12)
4a
1gxdC02
C:15-110
4b
1gxdD02
D:15-110
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)
5a
1gxdA04
A:315-361
5b
1gxdB03
B:257-303
5c
1gxdA02
A:199-251
5d
1gxdB02
B:199-251
5e
1gxdB04
B:315-361
5f
1gxdA03
A:257-303
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Asymmetric Unit 1
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Asym.Unit (265 KB)
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