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3BT1
Biol. Unit 1
Info
Asym.Unit (78 KB)
Biol.Unit 1 (71 KB)
Biol.Unit 2 (65 KB)
Biol.Unit 3 (9 KB)
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(1)
Title
:
STRUCTURE OF UROKINASE RECEPTOR, UROKINASE AND VITRONECTIN COMPLEX
Authors
:
M. Huang
Date
:
27 Dec 07 (Deposition) - 25 Mar 08 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B,U
Biol. Unit 1: A,B,U (1x)
Biol. Unit 2: A,U (1x)
Biol. Unit 3: B (1x)
Keywords
:
Protein-Protein Complex, Glycoprotein, Gpi-Anchor, Lipoprotein, Membrane, Receptor, Secreted, Blood Coagulation, Egf-Like Domain, Fibrinolysis, Hydrolase, Kringle, Phosphoprotein, Plasminogen Activation, Protease, Serine Protease, Zymogen, Cell Adhesion, Heparin-Binding, Sulfation, Immunoglobulin Domain, Immune System
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Q. Huai, A. Zhou, L. Lin, A. P. Mazar, G. C. Parry, J. Callahan, D. E. Shaw B. Furie, B. C. Furie, M. Huang
Crystal Structures Of Two Human Vitronectin, Urokinase And Urokinase Receptor Complexes
Nat. Struct. Mol. Biol. V. 15 422 2008
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Hetero Components
(2, 5)
Info
All Hetero Components
1a: ALPHA-D-MANNOSE (MANa)
2a: N-ACETYL-D-GLUCOSAMINE (NAGa)
2b: N-ACETYL-D-GLUCOSAMINE (NAGb)
2c: N-ACETYL-D-GLUCOSAMINE (NAGc)
2d: N-ACETYL-D-GLUCOSAMINE (NAGd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MAN
1
Ligand/Ion
ALPHA-D-MANNOSE
2
NAG
4
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
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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
ASN U:52
BINDING SITE FOR RESIDUE NAG U 1052
2
AC2
SOFTWARE
MET A:67 , MET A:127 , ASN U:172
BINDING SITE FOR RESIDUE NAG U 1172
3
AC3
SOFTWARE
ASN U:200 , THR U:202 , HIS U:203
BINDING SITE FOR RESIDUE NAG U 1200
4
AC4
SOFTWARE
HIS U:203
BINDING SITE FOR RESIDUE NAG U 1201
5
AC5
SOFTWARE
GLU B:23
BINDING SITE FOR RESIDUE MAN U 1202
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SAPs(SNPs)/Variants
(6, 6)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_016322 (E33G, chain U, )
2: VAR_016323 (T64A, chain U, )
3: VAR_006722 (P121L, chain A, )
4: VAR_016325 (K198R, chain U, )
5: VAR_016326 (N259K, chain U, )
6: VAR_052698 (D275A, chain U, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_016322
E
55
G
UPAR_HUMAN
Polymorphism
4251813
U
E
33
G
2
UniProt
VAR_016323
T
86
A
UPAR_HUMAN
Polymorphism
399145
U
T
64
A
3
UniProt
VAR_006722
P
141
L
UROK_HUMAN
Polymorphism
2227564
A
P
121
L
4
UniProt
VAR_016325
K
220
R
UPAR_HUMAN
Polymorphism
2302524
U
K
198
R
5
UniProt
VAR_016326
N
281
K
UPAR_HUMAN
Polymorphism
4251921
U
N
259
K
6
UniProt
VAR_052698
D
297
A
UPAR_HUMAN
Polymorphism
16976608
U
D
275
A
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(5, 7)
Info
All PROSITE Patterns/Profiles
1: LY6_UPAR ()
2: SMB_1 (B:19-39)
3: EGF_1 (A:31-42)
4: KRINGLE_2 (A:49-131)
5: KRINGLE_1 (A:101-113)
;
View:
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Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
LY6_UPAR
PS00983
Ly-6 / u-PAR domain signature.
UPAR_HUMAN
24-67
116-169
215-269
3
U:2-45
U:94-147
U:193-247
2
SMB_1
PS00524
Somatomedin B domain (SMB) signature.
VTNC_HUMAN
38-58
1
B:19-39
3
EGF_1
PS00022
EGF-like domain signature 1.
UROK_HUMAN
51-62
1
A:31-42
4
KRINGLE_2
PS50070
Kringle domain profile.
UROK_HUMAN
69-151
1
A:49-131
5
KRINGLE_1
PS00021
Kringle domain signature.
UROK_HUMAN
121-133
1
A:101-113
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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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
(4, 6)
Info
All SCOP Domains
1a: SCOP_d3bt1a1 (A:8-49)
2a: SCOP_d3bt1a2 (A:50-132)
3a: SCOP_d3bt1u1 (U:1-86)
3b: SCOP_d3bt1u2 (U:188-275)
3c: SCOP_d3bt1u3 (U:87-187)
4a: SCOP_d3bt1b_ (B:)
View:
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Classes
(
)
(
)
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(
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(
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)
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)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Small proteins
(3458)
Fold
:
Knottins (small inhibitors, toxins, lectins)
(761)
Superfamily
:
EGF/Laminin
(347)
Family
:
EGF-type module
(304)
Protein domain
:
Plasminogen activator (urokinase-type)
(6)
Human (Homo sapiens) [TaxId: 9606]
(6)
1a
d3bt1a1
A:8-49
Fold
:
Kringle-like
(68)
Superfamily
:
Kringle-like
(68)
Family
:
Kringle modules
(54)
Protein domain
:
Urokinase-type plasminogen activator
(7)
Human (Homo sapiens) [TaxId: 9606]
(7)
2a
d3bt1a2
A:50-132
Fold
:
Snake toxin-like
(152)
Superfamily
:
Snake toxin-like
(152)
Family
:
Extracellular domain of cell surface receptors
(39)
Protein domain
:
Urokinase plasminogen activator surface receptor uPAR
(5)
Human (Homo sapiens) [TaxId: 9606]
(5)
3a
d3bt1u1
U:1-86
3b
d3bt1u2
U:188-275
3c
d3bt1u3
U:87-187
Fold
:
Somatomedin B domain
(6)
Superfamily
:
Somatomedin B domain
(6)
Family
:
Somatomedin B domain
(6)
Protein domain
:
Vitronectin
(6)
Human (Homo sapiens) [TaxId: 9606]
(6)
4a
d3bt1b_
B:
[
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CATH Domains
(2, 2)
Info
all CATH domains
1a: CATH_3bt1A02 (A:50-132)
2a: CATH_3bt1A01 (A:8-49)
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(
)
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)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
Plasminogen Kringle 4
(42)
Homologous Superfamily
:
Plasminogen Kringle 4
(42)
Human (Homo sapiens)
(37)
1a
3bt1A02
A:50-132
Architecture
:
Ribbon
(789)
Topology
:
Laminin
(270)
Homologous Superfamily
:
Laminin
(263)
Human (Homo sapiens)
(195)
2a
3bt1A01
A:8-49
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Label:
Sorry, no Info available
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Chain U
Asymmetric Unit 1
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Asym.Unit (78 KB)
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