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1QIB
Asym. Unit
Info
Asym.Unit (31 KB)
Biol.Unit 1 (27 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF GELATINASE A CATALYTIC DOMAIN
Authors
:
V. Dhanaraj, M. G. Williams, Q. -Z. Ye, F. Molina, L. L. Johnson, D. F. Ort A. Pavlovsky, J. R. Rubin, R. W. Skeean, A. D. White, C. Humblet, D. J. Hu T. L. Blundell
Date
:
11 Jun 99 (Deposition) - 19 Nov 99 (Release) - 31 May 17 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Inhibitor, Matrixin, Matrix Metalloproteinase-2 (Mmp-2), Gelatinase A, Metzincin, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
V. Dhanaraj, M. G. Williams, Q. -Z. Ye, F. Molina, L. L. Johnson, D. F. Ortwine, A. Pavlovsky, J. R. Rubin, R. W. Skeean, A. D. White, C. Humblet, D. J. Hupe, T. L. Blundell
X-Ray Structure Of Gelatinase A Catalytic Domain Complexed With A Hydroxamate Inhibitor
Croatica Chemica Acta V. 72 575 1999
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Hetero Components
(2, 5)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
2a: ZINC ION (ZNa)
2b: ZINC ION (ZNb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
3
Ligand/Ion
CALCIUM ION
2
ZN
2
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
HIS A:201 , HIS A:205 , HIS A:211
BINDING SITE FOR RESIDUE ZN A 501
2
AC2
SOFTWARE
HIS A:151 , ASP A:153 , HIS A:166 , HIS A:179
BINDING SITE FOR RESIDUE ZN A 502
3
AC3
SOFTWARE
ASP A:158 , GLY A:159 , ASP A:161 , LEU A:163 , ASP A:181 , GLU A:184
BINDING SITE FOR RESIDUE CA A 503
4
AC4
SOFTWARE
ASP A:141 , GLY A:173 , GLY A:175 , ASP A:177 , HOH A:303 , HOH A:304
BINDING SITE FOR RESIDUE CA A 504
5
AC5
SOFTWARE
ASP A:107 , ASP A:182 , GLU A:184 , HOH A:301 , HOH A:302
BINDING SITE FOR RESIDUE CA A 505
[
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SAPs(SNPs)/Variants
(3, 3)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_032424 (D183Y, chain A, )
2: VAR_032425 (E202K, chain A, )
3: VAR_020616 (A248V, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_032424
D
210
Y
MMP2_HUMAN
Polymorphism
---
A
D
183
Y
2
UniProt
VAR_032425
E
404
K
MMP2_HUMAN
Disease (MONA)
---
A
E
202
K
3
UniProt
VAR_020616
A
447
V
MMP2_HUMAN
Polymorphism
17859943
A
A
248
V
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: ZINC_PROTEASE (A:198-207)
;
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.
MMP2_HUMAN
400-409
1
A:198-207
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Exons
(6, 6)
Info
All Exons
Exon 1.3 (A:88-100)
Exon 1.4 (A:100-150)
Exon 1.5 (A:150-190A)
Exon 1.8 (A:191-192)
Exon 1.9 (A:193-247 (gaps))
Exon 1.10 (A:247-250)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.1/1.3
2: Boundary 1.3/1.4
3: Boundary 1.4/1.5
4: Boundary 1.5/1.6
5: Boundary 1.7/1.8
6: Boundary 1.8/1.9
7: Boundary 1.9/1.10
8: Boundary 1.10/1.11
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1
ENST00000219070
1
ENSE00001045278
chr16:
55512883-55513544
662
MMP2_HUMAN
1-51
51
0
-
-
1.3
ENST00000219070
3
ENSE00000684353
chr16:
55516821-55517047
227
MMP2_HUMAN
52-127
76
1
A:88-100
13
1.4
ENST00000219070
4
ENSE00000684376
chr16:
55517928-55518076
149
MMP2_HUMAN
127-177
51
1
A:100-150
51
1.5
ENST00000219070
5
ENSE00000684379
chr16:
55519211-55519339
129
MMP2_HUMAN
177-220
44
1
A:150-190A
42
1.6
ENST00000219070
6
ENSE00000684383
chr16:
55519516-55519689
174
MMP2_HUMAN
220-278
59
0
-
-
1.7
ENST00000219070
7
ENSE00000396666
chr16:
55522455-55522628
174
MMP2_HUMAN
278-336
59
0
-
-
1.8
ENST00000219070
8
ENSE00000684389
chr16:
55523563-55523736
174
MMP2_HUMAN
336-394
59
1
A:191-192
2
1.9
ENST00000219070
9
ENSE00001170187
chr16:
55525713-55525868
156
MMP2_HUMAN
394-446
53
1
A:193-247 (gaps)
55
1.10
ENST00000219070
10
ENSE00000684415
chr16:
55527070-55527205
136
MMP2_HUMAN
446-491
46
1
A:247-250
4
1.11
ENST00000219070
11
ENSE00000684425
chr16:
55530838-55530974
137
MMP2_HUMAN
491-537
47
0
-
-
1.12
ENST00000219070
12
ENSE00000684426
chr16:
55532201-55532360
160
MMP2_HUMAN
537-590
54
0
-
-
1.13
ENST00000219070
13
ENSE00000684427
chr16:
55536691-55536800
110
MMP2_HUMAN
590-627
38
0
-
-
1.14b
ENST00000219070
14b
ENSE00001931477
chr16:
55539251-55540603
1353
MMP2_HUMAN
627-660
34
0
-
-
[
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SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1qiba_ (A:)
View:
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Classes
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Folds
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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 A
(4)
Human (Homo sapiens) [TaxId: 9606]
(4)
1a
d1qiba_
A:
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_1qibA00 (A:88-250)
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Classes
(
)
(
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Architectures
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)
(
)
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
1qibA00
A:88-250
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Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_Peptidase_M10_1qibA01 (A:91-247)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Peptidase_MA
(251)
Family
:
Peptidase_M10
(85)
Homo sapiens (Human)
(82)
1a
Peptidase_M10-1qibA01
A:91-247
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Chain A
Asymmetric Unit 1
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