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1EUB
Asym. Unit
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Asym.Unit (930 KB)
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Models
(20 )
Title
:
SOLUTION STRUCTURE OF THE CATALYTIC DOMAIN OF HUMAN COLLAGENASE-3 (MMP-13) COMPLEXED TO A POTENT NON-PEPTIDIC SULFONAMIDE INHIBITOR
Authors
:
X. Zhang, N. C. Gonnella, J. Koehn, N. Pathak, V. Ganu, R. Melton, D. Parker, S. I. Hu, K. Y. Nam
Date
:
14 Apr 00 (Deposition) - 14 Apr 01 (Release) - 24 Feb 09 (Revision)
Method
:
SOLUTION NMR
Resolution
:
NOT APPLICABLE
Chains
:
Asym. Unit : A (20 x)
Keywords
:
Alpha Helix, Beta Sheet, Protein-Inhibitor Complex, Hydrolase/Hydrolase Inhibitor Complex
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
X. Zhang, N. C. Gonnella, J. Koehn, N. Pathak, V. Ganu, R. Melton, D. Parker, S. I. Hu, K. Y. Nam
Solution Structure Of The Catalytic Domain Of Human Collagenase-3 (Mmp-13) Complexed To A Potent Non-Peptidic Sulfonamide Inhibitor: Binding Comparison With Stromelysin-1 And Collagenase-1.
J. Mol. Biol. V. 301 513 2000
(for further references see the
PDB file header
)
[
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Hetero Components
(5, 7)
Info
All Hetero Components
1a: 3-METHYLPYRIDINE (3MPa)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
3a: HYDROXYAMINOVALINE (HAVa)
4a: 1-METHYLOXY-4-SULFONE-BENZENE (MSBa)
5a: ZINC ION (ZNa)
5b: ZINC ION (ZNb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
3MP
1
Ligand/Ion
3-METHYLPYRIDINE
2
CA
2
Ligand/Ion
CALCIUM ION
3
HAV
1
Ligand/Ion
HYDROXYAMINOVALINE
4
MSB
1
Ligand/Ion
1-METHYLOXY-4-SULFONE-BENZENE
5
ZN
2
Ligand/Ion
ZINC ION
[
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Sites
(7, 7)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS A:172 , HIS A:187 , HIS A:200
BINDING SITE FOR RESIDUE ZN A 275
2
AC2
SOFTWARE
HAV A:1 , HIS A:222 , HIS A:226 , HIS A:232 , MET A:240
BINDING SITE FOR RESIDUE ZN A 276
3
AC3
SOFTWARE
ASP A:162 , ASN A:194 , TYR A:195 , GLY A:196 , ASP A:198
BINDING SITE FOR RESIDUE CA A 277
4
AC4
SOFTWARE
ASP A:179 , GLY A:180 , PRO A:181 , SER A:182 , LEU A:184 , ASP A:202 , GLU A:205
BINDING SITE FOR RESIDUE CA A 278
5
AC5
SOFTWARE
3MP A:2 , MSB A:3 , LEU A:184 , ALA A:186 , HIS A:222 , GLU A:223 , HIS A:226 , HIS A:232 , ZN A:276
BINDING SITE FOR RESIDUE HAV A 1
6
AC6
SOFTWARE
HAV A:1 , MSB A:3 , GLY A:183 , PRO A:242
BINDING SITE FOR RESIDUE 3MP A 2
7
AC7
SOFTWARE
HAV A:1 , 3MP A:2 , LEU A:185 , ALA A:186 , LEU A:218 , HIS A:222 , PHE A:241 , PRO A:242 , ILE A:243 , TYR A:244
BINDING SITE FOR RESIDUE MSB A 3
[
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SAPs(SNPs)/Variants
(2, 2)
Info
(mutated residues are not available in "Model" view)
All SNPs/Variants
1: VAR_073418 (W207G, chain A, )
2: VAR_063434 (H232N, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_073418
W
207
G
MMP13_HUMAN
Disease (MDST)
---
A
W
207
G
2
UniProt
VAR_063434
H
232
N
MMP13_HUMAN
Disease (MANDP1)
---
A
H
232
N
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:219-228)
;
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.
MMP13_HUMAN
219-228
1
A:219-228
[
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Exons
(5, 5)
Info
All Exons
Exon 1.2 (A:104-121)
Exon 1.3 (A:121-171)
Exon 1.4 (A:171-213)
Exon 1.5 (A:213-267)
Exon 1.6 (A:267-274)
View:
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All Exon Boundaries
1: Boundary 1.1a/1.2
2: Boundary 1.2/1.3
3: Boundary 1.3/1.4
4: Boundary 1.4/1.5
5: Boundary 1.5/1.6
6: Boundary 1.6/1.7
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
1.1a
ENST00000260302
1a
ENSE00001105391
chr11:
102826463-102826315
149
MMP13_HUMAN
1-40
40
0
-
-
1.2
ENST00000260302
2
ENSE00001105386
chr11:
102826222-102825981
242
MMP13_HUMAN
41-121
81
1
A:104-121
18
1.3
ENST00000260302
3
ENSE00001105401
chr11:
102825335-102825187
149
MMP13_HUMAN
121-171
51
1
A:121-171
51
1.4
ENST00000260302
4
ENSE00001105398
chr11:
102825010-102824885
126
MMP13_HUMAN
171-213
43
1
A:171-213
43
1.5
ENST00000260302
5
ENSE00001139473
chr11:
102822902-102822741
162
MMP13_HUMAN
213-267
55
1
A:213-267
55
1.6
ENST00000260302
6
ENSE00000930343
chr11:
102820956-102820839
118
MMP13_HUMAN
267-306
40
1
A:267-274
8
1.7
ENST00000260302
7
ENSE00000930342
chr11:
102819887-102819754
134
MMP13_HUMAN
306-351
46
0
-
-
1.8
ENST00000260302
8
ENSE00000930341
chr11:
102818779-102818620
160
MMP13_HUMAN
351-404
54
0
-
-
1.9
ENST00000260302
9
ENSE00000930340
chr11:
102816478-102816375
104
MMP13_HUMAN
404-439
36
0
-
-
1.11b
ENST00000260302
11b
ENSE00002188786
chr11:
102815095-102813724
1372
MMP13_HUMAN
439-471
33
0
-
-
[
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SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1euba_ (A:)
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)
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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
:
Collagenase-3 (MMP-13)
(31)
Human (Homo sapiens) [TaxId: 9606]
(30)
1a
d1euba_
A:
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_1eubA00 (A:104-274)
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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
1eubA00
A:104-274
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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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Protein & NOT PROSITE
Chain A
Asymmetric Unit 1
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