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1HZ8
Asym. Unit
Info
Asym.Unit (597 KB)
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Models
(30 )
Title
:
SOLUTION STRUCTURE AND BACKBONE DYNAMICS OF A CONCATEMER OF EGF-HOMOLOGY MODULES OF THE HUMAN LOW DENSITY LIPOPROTEIN RECEPTOR
Authors
:
N. D. Kurniawan, K. Aliabadizadeh, I. M. Brereton, P. A. Kroon, R. Smith
Date
:
23 Jan 01 (Deposition) - 15 Aug 01 (Release) - 24 Feb 09 (Revision)
Method
:
SOLUTION NMR
Resolution
:
NOT APPLICABLE
Chains
:
Asym. Unit : A (30 x)
Keywords
:
Anti-Parallel Beta Strands, Calcium Binding Sites, Lipid Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
N. D. Kurniawan, K. Aliabadizadeh, I. M. Brereton, P. A. Kroon, R. Smith
Nmr Structure And Backbone Dynamics Of A Concatemer Of Epidermal Growth Factor Homology Modules Of The Human Low-Density Lipoprotein Receptor.
J. Mol. Biol. V. 311 341 2001
(for further references see the
PDB file header
)
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
2
Ligand/Ion
CALCIUM ION
[
close Hetero Component info
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
THR A:2 , ASN A:3 , GLU A:4 , CYS A:5 , ASP A:18
BINDING SITE FOR RESIDUE CA A 83
2
AC2
SOFTWARE
ASP A:41 , ILE A:42 , GLU A:44 , ASN A:57 , LEU A:58
BINDING SITE FOR RESIDUE CA A 84
[
close Site info
]
SAPs(SNPs)/Variants
(30, 30)
Info
(mutated residues are not available in "Model" view)
All SNPs/Variants
01: VAR_072841 (G1R, chain A, )
02: VAR_005360 (C5F, chain A, )
03: VAR_062376 (C5R, chain A, )
04: VAR_005359 (C5Y, chain A, )
05: VAR_072842 (S13C, chain A, )
06: VAR_005361 (H14Y, chain A, )
07: VAR_067196 (C16F, chain A, )
08: VAR_005362 (C16Y, chain A, )
09: VAR_005363 (G22S, chain A, )
10: VAR_005364 (C25S, chain A, )
11: VAR_005365 (D29E, chain A, )
12: VAR_005366 (D29N, chain A, )
13: VAR_005367 (G30S, chain A, )
14: VAR_005368 (R37P, chain A, )
15: VAR_072843 (C39R, chain A, )
16: VAR_005369 (C39Y, chain A, )
17: VAR_005370 (D41G, chain A, )
18: VAR_005371 (D41V, chain A, )
19: VAR_007984 (D43Y, chain A, )
20: VAR_005372 (E44K, chain A, )
21: VAR_062377 (C45Y, chain A, )
22: VAR_005373 (C51R, chain A, )
23: VAR_007985 (Q53R, chain A, )
24: VAR_005374 (C55R, chain A, )
25: VAR_072844 (C55Y, chain A, )
26: VAR_062378 (N57T, chain A, )
27: VAR_072845 (G60D, chain A, )
28: VAR_005375 (C66R, chain A, )
29: VAR_007986 (C66Y, chain A, )
30: VAR_024519 (A78T, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_072841
G
314
R
LDLR_HUMAN
Unclassified
---
A
G
1
R
02
UniProt
VAR_005360
C
318
F
LDLR_HUMAN
Disease (FH)
---
A
C
5
F
03
UniProt
VAR_062376
C
318
R
LDLR_HUMAN
Disease (FH)
---
A
C
5
R
04
UniProt
VAR_005359
C
318
Y
LDLR_HUMAN
Unclassified
---
A
C
5
Y
05
UniProt
VAR_072842
S
326
C
LDLR_HUMAN
Unclassified
---
A
S
13
C
06
UniProt
VAR_005361
H
327
Y
LDLR_HUMAN
Disease (FH)
---
A
H
14
Y
07
UniProt
VAR_067196
C
329
F
LDLR_HUMAN
Disease (FH)
---
A
C
16
F
08
UniProt
VAR_005362
C
329
Y
LDLR_HUMAN
Disease (FH)
---
A
C
16
Y
09
UniProt
VAR_005363
G
335
S
LDLR_HUMAN
Unclassified
---
A
G
22
S
10
UniProt
VAR_005364
C
338
S
LDLR_HUMAN
Disease (FH)
---
A
C
25
S
11
UniProt
VAR_005365
D
342
E
LDLR_HUMAN
Unclassified
---
A
D
29
E
12
UniProt
VAR_005366
D
342
N
LDLR_HUMAN
Unclassified
139361635
A
D
29
N
13
UniProt
VAR_005367
G
343
S
LDLR_HUMAN
Unclassified
---
A
G
30
S
14
UniProt
VAR_005368
R
350
P
LDLR_HUMAN
Disease (FH)
---
A
R
37
P
15
UniProt
VAR_072843
C
352
R
LDLR_HUMAN
Unclassified
---
A
C
39
R
16
UniProt
VAR_005369
C
352
Y
LDLR_HUMAN
Unclassified
---
A
C
39
Y
17
UniProt
VAR_005370
D
354
G
LDLR_HUMAN
Unclassified
---
A
D
41
G
18
UniProt
VAR_005371
D
354
V
LDLR_HUMAN
Unclassified
---
A
D
41
V
19
UniProt
VAR_007984
D
356
Y
LDLR_HUMAN
Disease (FH)
---
A
D
43
Y
20
UniProt
VAR_005372
E
357
K
LDLR_HUMAN
Unclassified
---
A
E
44
K
21
UniProt
VAR_062377
C
358
Y
LDLR_HUMAN
Disease (FH)
---
A
C
45
Y
22
UniProt
VAR_005373
C
364
R
LDLR_HUMAN
Unclassified
---
A
C
51
R
23
UniProt
VAR_007985
Q
366
R
LDLR_HUMAN
Disease (FH)
---
A
Q
53
R
24
UniProt
VAR_005374
C
368
R
LDLR_HUMAN
Disease (FH)
---
A
C
55
R
25
UniProt
VAR_072844
C
368
Y
LDLR_HUMAN
Unclassified
---
A
C
55
Y
26
UniProt
VAR_062378
N
370
T
LDLR_HUMAN
Disease (FH)
---
A
N
57
T
27
UniProt
VAR_072845
G
373
D
LDLR_HUMAN
Unclassified
---
A
G
60
D
28
UniProt
VAR_005375
C
379
R
LDLR_HUMAN
Unclassified
---
A
C
66
R
29
UniProt
VAR_007986
C
379
Y
LDLR_HUMAN
Disease (FH)
---
A
C
66
Y
30
UniProt
VAR_024519
A
391
T
LDLR_HUMAN
Polymorphism
11669576
A
A
78
T
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(4, 7)
Info
All PROSITE Patterns/Profiles
1: EGF_3 (A:1-40|A:41-80)
2: ASX_HYDROXYL (A:16-27|A:55-66)
3: EGF_2 (A:25-39|A:64-79)
4: EGF_CA (A:41-64)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
EGF_3
PS50026
EGF-like domain profile.
LDLR_HUMAN
314-353
354-393
2
A:1-40
A:41-80
2
ASX_HYDROXYL
PS00010
Aspartic acid and asparagine hydroxylation site.
LDLR_HUMAN
329-340
368-379
2
A:16-27
A:55-66
3
EGF_2
PS01186
EGF-like domain signature 2.
LDLR_HUMAN
338-352
377-392
2
A:25-39
A:64-79
4
EGF_CA
PS01187
Calcium-binding EGF-like domain signature.
LDLR_HUMAN
354-377
1
A:41-64
[
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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, 2)
Info
All SCOP Domains
1a: SCOP_d1hz8a1 (A:1-41)
1b: SCOP_d1hz8a2 (A:42-82)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
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(
)
Superfamilies
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)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
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)
(
)
Class
:
Small proteins
(3458)
Fold
:
Knottins (small inhibitors, toxins, lectins)
(761)
Superfamily
:
EGF/Laminin
(347)
Family
:
EGF-type module
(304)
Protein domain
:
Low density lipoprotein (LDL) receptor, different EGF domains
(7)
Human (Homo sapiens) [TaxId: 9606]
(7)
1a
d1hz8a1
A:1-41
1b
d1hz8a2
A:42-82
[
close SCOP info
]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_1hz8A01 (A:42-80)
1b: CATH_1hz8A02 (A:1-41)
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(
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(
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(
)
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(
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(
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Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Ribbon
(789)
Topology
:
Laminin
(270)
Homologous Superfamily
:
Laminin
(263)
Human (Homo sapiens)
(195)
1a
1hz8A01
A:42-80
1b
1hz8A02
A:1-41
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
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Atom Selection
(currently selected atoms:
all
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Protein
Nucleic
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Sidechain
Hetero
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Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Asymmetric Unit 1
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select residue range 5 to 10 in chain 'A'
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select non-helix/non-sheet protein parts
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