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3EDH
Asym. Unit
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Asym.Unit (91 KB)
Biol.Unit 1 (86 KB)
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Title
:
CRYSTAL STRUCTURE OF BONE MORPHOGENETIC PROTEIN 1 PROTEASE DOMAIN IN COMPLEX WITH PARTIALLY BOUND DMSO
Authors
:
A. Mac Sweeney
Date
:
03 Sep 08 (Deposition) - 16 Sep 08 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.25
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Vicinal Disulfide, Alternative Splicing, Calcium, Chondrogenesis, Cleavage On Pair Of Basic Residues, Cytokine, Developmental Protein, Differentiation, Egf-Like Domain, Glycoprotein, Growth Factor, Hydrolase, Metal- Binding, Metalloprotease, Osteogenesis, Polymorphism, Protease, Zinc, Zymogen
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. Mac Sweeney, S. G. Parrado, D. Vinzenz, A. Bernardi, A. Hein, U. Bodendorf, P. Erbel, C. Logel, B. Gerhartz
Structural Basis For The Substrate Specificity Of Bone Morphogenetic Protein 1/Tolloid-Like Metalloproteases
To Be Published
(for further references see the
PDB file header
)
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Hetero Components
(3, 8)
Info
All Hetero Components
1a: ACETYL GROUP (ACEa)
2a: DIMETHYL SULFOXIDE (DMSa)
2b: DIMETHYL SULFOXIDE (DMSb)
2c: DIMETHYL SULFOXIDE (DMSc)
2d: DIMETHYL SULFOXIDE (DMSd)
2e: DIMETHYL SULFOXIDE (DMSe)
3a: ZINC ION (ZNa)
3b: ZINC ION (ZNb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACE
1
Mod. Amino Acid
ACETYL GROUP
2
DMS
5
Ligand/Ion
DIMETHYL SULFOXIDE
3
ZN
2
Ligand/Ion
ZINC ION
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Sites
(8, 8)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ALA A:1 , ALA A:2 , GLU A:103 , ARG A:106 , SER A:136 , GLN A:189
BINDING SITE FOR RESIDUE ACE A 201
2
AC2
SOFTWARE
HIS A:92 , HIS A:96 , HIS A:102
BINDING SITE FOR RESIDUE ZN A 210
3
AC3
SOFTWARE
GLU A:103 , GLN A:189 , HOH A:221 , HOH A:224 , HOH A:228
BINDING SITE FOR RESIDUE ZN A 211
4
AC4
SOFTWARE
LYS A:39 , HIS A:40 , ARG A:106 , ASP A:108 , GLU A:139 , HOH A:290 , HOH A:581
BINDING SITE FOR RESIDUE DMS A 212
5
AC5
SOFTWARE
ARG A:35 , LYS A:39 , LYS A:192 , HOH A:462 , HOH A:594
BINDING SITE FOR RESIDUE DMS A 213
6
AC6
SOFTWARE
CYS A:64 , HIS A:92 , GLU A:93 , HIS A:96 , HIS A:102 , HOH A:297 , HOH A:306 , HOH A:314 , HOH A:604 , HOH A:609
BINDING SITE FOR RESIDUE DMS A 214
7
AC7
SOFTWARE
ASP A:50 , ARG A:176 , THR A:180 , HOH A:536
BINDING SITE FOR RESIDUE DMS A 215
8
AC8
SOFTWARE
ARG A:31 , GLU A:38 , PHE A:45 , HOH A:546
BINDING SITE FOR RESIDUE DMS A 216
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SAPs(SNPs)/Variants
(2, 2)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_067224 (F128L, chain A, )
2: VAR_072248 (M147V, chain A, )
View:
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Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_067224
F
249
L
BMP1_HUMAN
Disease (OI13)
---
A
F
128
L
2
UniProt
VAR_072248
M
270
V
BMP1_HUMAN
Disease (OI13)
---
A
M
147
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:89-98)
;
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.
BMP1_HUMAN
210-219
1
A:89-98
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Exons
(0, 0)
Info
All Exons
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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.
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d3edha_ (A:)
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Classes
(
)
(
)
Folds
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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
:
automated matches
(37)
Protein domain
:
automated matches
(37)
Human (Homo sapiens) [TaxId: 9606]
(22)
1a
d3edha_
A:
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_3edhA00 (A:1-200)
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)
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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
3edhA00
A:1-200
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Protein
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Chain A
Asymmetric Unit 1
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