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1JH1
Asym. Unit
Info
Asym.Unit (32 KB)
Biol.Unit 1 (28 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF MMP-8 COMPLEXED WITH A 6H-1,3,4-THIADIAZINE DERIVED INHIBITOR
Authors
:
J. Schroder, A. Henke, H. Wenzel, H. Brandstetter, H. G. Stammler, A. Stammler, W. D. Pfeiffer, H. Tschesche
Date
:
27 Jun 01 (Deposition) - 27 Dec 01 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.70
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Collagenase, Inhibitor, Thiadiazine, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. Schroder, A. Henke, H. Wenzel, H. Brandstetter, H. G. Stammler, A. Stammler, W. D. Pfeiffer, H. Tschesche
Structure-Based Design And Synthesis Of Potent Matrix Metalloproteinase Inhibitors Derived From A 6H-1, 3, 4-Thiadiazine Scaffold.
J. Med. Chem. V. 44 3231 2001
(for further references see the
PDB file header
)
[
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Hetero Components
(3, 5)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
2a: BUT-3-ENYL-[5-(4-CHLORO-PHENYL)-3,... (JSTa)
3a: ZINC ION (ZNa)
3b: ZINC ION (ZNb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
2
Ligand/Ion
CALCIUM ION
2
JST
1
Ligand/Ion
BUT-3-ENYL-[5-(4-CHLORO-PHENYL)-3,6-DIHYDRO-[1,3,4]THIADIAZIN-2-YLIDENE]-AMINE
3
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
HOH A:22 , ASP A:137 , GLY A:169 , GLY A:171 , ASP A:173
BINDING SITE FOR RESIDUE CA A 996
2
AC2
SOFTWARE
ASP A:154 , GLY A:155 , ASN A:157 , ILE A:159 , ASP A:177 , GLU A:180
BINDING SITE FOR RESIDUE CA A 997
3
AC3
SOFTWARE
HIS A:147 , ASP A:149 , HIS A:162 , HIS A:175
BINDING SITE FOR RESIDUE ZN A 998
4
AC4
SOFTWARE
HIS A:197 , HIS A:201 , HIS A:207 , JST A:1000
BINDING SITE FOR RESIDUE ZN A 999
5
AC5
SOFTWARE
HOH A:1 , ALA A:161 , HIS A:162 , ALA A:163 , HIS A:197 , GLU A:198 , HIS A:201 , ZN A:999
BINDING SITE FOR RESIDUE JST A 1000
[
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SAPs(SNPs)/Variants
(3, 3)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_025038 (G134E, chain A, )
2: VAR_025039 (D173V, chain A, )
3: VAR_025040 (N226Y, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_025038
G
154
E
MMP8_HUMAN
Polymorphism
35056226
A
G
134
E
2
UniProt
VAR_025039
D
193
V
MMP8_HUMAN
Polymorphism
34428739
A
D
173
V
3
UniProt
VAR_025040
N
246
Y
MMP8_HUMAN
Polymorphism
35243553
A
N
226
Y
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:194-203)
;
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.
MMP8_HUMAN
214-223
1
A:194-203
[
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]
Exons
(5, 5)
Info
All Exons
Exon 1.6c (A:85-96)
Exon 1.7 (A:96-146)
Exon 1.8b (A:146-188)
Exon 1.9 (A:188-242)
Exon 1.10 (A:242-242)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.2b/1.6c
2: Boundary 1.6c/1.7
3: Boundary 1.7/1.8b
4: Boundary 1.8b/1.9
5: Boundary 1.9/1.10
6: 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
1.2b
ENST00000236826
2b
ENSE00002164267
chr11:
102595685-102595485
201
MMP8_HUMAN
1-34
34
0
-
-
1.6c
ENST00000236826
6c
ENSE00001770190
chr11:
102593404-102593160
245
MMP8_HUMAN
35-116
82
1
A:85-96
12
1.7
ENST00000236826
7
ENSE00000795297
chr11:
102592493-102592345
149
MMP8_HUMAN
116-166
51
1
A:96-146
51
1.8b
ENST00000236826
8b
ENSE00000795296
chr11:
102592257-102592132
126
MMP8_HUMAN
166-208
43
1
A:146-188
43
1.9
ENST00000236826
9
ENSE00001105479
chr11:
102589306-102589145
162
MMP8_HUMAN
208-262
55
1
A:188-242
55
1.10
ENST00000236826
10
ENSE00001105482
chr11:
102587150-102587033
118
MMP8_HUMAN
262-301
40
1
A:242-242
1
1.11
ENST00000236826
11
ENSE00001105475
chr11:
102586168-102586035
134
MMP8_HUMAN
301-346
46
0
-
-
1.12
ENST00000236826
12
ENSE00001105489
chr11:
102585440-102585287
154
MMP8_HUMAN
346-397
52
0
-
-
1.13
ENST00000236826
13
ENSE00001105495
chr11:
102584588-102584485
104
MMP8_HUMAN
397-432
36
0
-
-
1.14c
ENST00000236826
14c
ENSE00001322445
chr11:
102584188-102582526
1663
MMP8_HUMAN
432-467
36
0
-
-
[
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SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1jh1a_ (A:)
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Classes
(
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(
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Folds
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(
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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
:
Neutrophil collagenase (MMP-8)
(22)
Human (Homo sapiens) [TaxId: 9606]
(22)
1a
d1jh1a_
A:
[
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_1jh1A00 (A:85-242)
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)
Homologous Superfamilies
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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
1jh1A00
A:85-242
[
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Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_Peptidase_M10_1jh1A01 (A:87-242)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Peptidase_MA
(251)
Family
:
Peptidase_M10
(85)
Homo sapiens (Human)
(82)
1a
Peptidase_M10-1jh1A01
A:87-242
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Protein & NOT Site
Protein & NOT PROSITE
Chain A
Asymmetric Unit 1
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