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2FK3
Biol. Unit 11
Info
Asym.Unit (89 KB)
Biol.Unit 1 (13 KB)
Biol.Unit 10 (82 KB)
Biol.Unit 11 (83 KB)
Biol.Unit 12 (42 KB)
Biol.Unit 13 (43 KB)
Biol.Unit 14 (63 KB)
Biol.Unit 15 (23 KB)
Biol.Unit 16 (43 KB)
Biol.Unit 17 (23 KB)
Biol.Unit 18 (43 KB)
Biol.Unit 19 (23 KB)
Biol.Unit 2 (13 KB)
Biol.Unit 20 (23 KB)
Biol.Unit 21 (23 KB)
Biol.Unit 22 (53 KB)
Biol.Unit 23 (33 KB)
Biol.Unit 3 (13 KB)
Biol.Unit 4 (13 KB)
Biol.Unit 5 (13 KB)
Biol.Unit 6 (13 KB)
Biol.Unit 7 (13 KB)
Biol.Unit 8 (13 KB)
Biol.Unit 9 (82 KB)
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(1)
Title
:
STRUCTURE OF THE ALZHEIMER'S AMYLOID PRECURSOR PROTEIN (APP) COPPER BINDING DOMAIN IN 'LARGE UNIT CELL' FORM
Authors
:
G. K. -W. Kong, M. W. Parker
Date
:
04 Jan 06 (Deposition) - 16 Jan 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.40
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Biol. Unit 5: E (1x)
Biol. Unit 6: F (1x)
Biol. Unit 7: G (1x)
Biol. Unit 8: H (1x)
Biol. Unit 9: A,B,C,D,E,F,G,H (1x)
Biol. Unit 10: A,B,C,D,E,F,G,H (1x)
Biol. Unit 11: A,B,C,D,E,F,G,H (1x)
Biol. Unit 12: B,D,E,F (1x)
Biol. Unit 13: A,C,G,H (1x)
Biol. Unit 14: A,B,C,D,F,G (1x)
Biol. Unit 15: E,H (1x)
Biol. Unit 16: B,C,D,G (1x)
Biol. Unit 17: A,F (1x)
Biol. Unit 18: A,C,F,G (1x)
Biol. Unit 19: B,D (1x)
Biol. Unit 20: B,C (1x)
Biol. Unit 21: D,G (1x)
Biol. Unit 22: B,C,D,F,G (1x)
Biol. Unit 23: C,F,G (1x)
Keywords
:
Alpha-Beta Two-Layered Sandwich, Non-Crystallographic Symmetry, Metal Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
G. K. Kong, J. J. Adams, H. H. Harris, J. F. Boas, C. C. Curtain, D. Galatis, C. L. Masters, K. J. Barnham, W. J. Mckinstry, R. Cappai, M. W. Parker
Structural Studies Of The Alzheimer'S Amyloid Precursor Protein Copper-Binding Domain Reveal How It Binds Copper Ions
J. Mol. Biol. V. 367 148 2007
(for further references see the
PDB file header
)
[
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]
Hetero Components
(0, 0)
Info
All Hetero Components
1a: COPPER (II) ION (CUa)
1b: COPPER (II) ION (CUb)
1c: COPPER (II) ION (CUc)
1d: COPPER (II) ION (CUd)
1e: COPPER (II) ION (CUe)
1f: COPPER (II) ION (CUf)
1g: COPPER (II) ION (CUg)
1h: COPPER (II) ION (CUh)
1i: COPPER (II) ION (CUi)
1j: COPPER (II) ION (CUj)
1k: COPPER (II) ION (CUk)
1l: COPPER (II) ION (CUl)
1m: COPPER (II) ION (CUm)
1n: COPPER (II) ION (CUn)
1o: COPPER (II) ION (CUo)
1p: COPPER (II) ION (CUp)
1q: COPPER (II) ION (CUq)
1r: COPPER (II) ION (CUr)
1s: COPPER (II) ION (CUs)
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Sites
(18, 18)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS C:137 , HIS G:137 , HOH G:190
BINDING SITE FOR RESIDUE CU C 201
02
AC2
SOFTWARE
GLU C:131 , HIS H:137 , GLU H:139
BINDING SITE FOR RESIDUE CU C 202
03
AC3
SOFTWARE
HIS B:137 , HIS D:137
BINDING SITE FOR RESIDUE CU B 203
04
AC4
SOFTWARE
HIS A:137 , GLU A:139 , HOH A:237 , GLU G:131
BINDING SITE FOR RESIDUE CU A 204
05
AC5
SOFTWARE
GLU D:131 , HIS E:137 , GLU E:139 , HOH E:238
BINDING SITE FOR RESIDUE CU E 205
06
AC6
SOFTWARE
GLU B:131 , HIS F:137 , GLU F:139
BINDING SITE FOR RESIDUE CU F 206
07
AC7
SOFTWARE
HOH E:224 , HOH E:225 , HOH E:226 , HOH H:212 , HOH H:213 , HOH H:214
BINDING SITE FOR RESIDUE CU H 207
08
AC8
SOFTWARE
HOH A:214 , HOH A:217 , HOH A:218 , HOH F:220 , HOH F:221
BINDING SITE FOR RESIDUE CU A 208
09
AC9
SOFTWARE
HOH H:223 , HOH H:224 , HOH H:231 , HOH H:232
BINDING SITE FOR RESIDUE CU H 209
10
BC1
SOFTWARE
HOH C:244
BINDING SITE FOR RESIDUE CU C 210
11
BC2
SOFTWARE
HOH A:235 , HOH A:236 , HOH A:237
BINDING SITE FOR RESIDUE CU A 211
12
BC3
SOFTWARE
LEU E:165 , HIS E:166 , LEU H:165 , HIS H:166 , HOH H:213
BINDING SITE FOR RESIDUE CU E 212
13
BC4
SOFTWARE
LEU A:165 , HIS A:166 , LEU F:165 , HIS F:166
BINDING SITE FOR RESIDUE CU A 213
14
BC5
SOFTWARE
TYR B:168 , TYR C:168
BINDING SITE FOR RESIDUE CU B 214
15
BC6
SOFTWARE
TYR D:168 , HOH D:229 , TYR G:168 , HOH G:209
BINDING SITE FOR RESIDUE CU D 215
16
BC7
SOFTWARE
HOH E:221
BINDING SITE FOR RESIDUE CU D 216
17
BC8
SOFTWARE
SER F:159 , THR F:163 , ASN F:164 , HOH F:222
BINDING SITE FOR RESIDUE CU F 217
18
BC9
SOFTWARE
HOH A:227
BINDING SITE FOR RESIDUE CU F 219
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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PROSITE Patterns/Profiles
(1, 8)
Info
All PROSITE Patterns/Profiles
1: A4_EXTRA (A:181-188,B:181-188,C:181-188,D:18...)
;
View:
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Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
A4_EXTRA
PS00319
Amyloidogenic glycoprotein extracellular domain signature.
A4_HUMAN
181-188
8
A:181-188
B:181-188
C:181-188
D:181-188
E:181-188
F:181-188
G:181-188
H:181-188
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Exons
(0, 0)
Info
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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
(1, 8)
Info
All SCOP Domains
1a: SCOP_d2fk3a_ (A:)
1b: SCOP_d2fk3h_ (H:)
1c: SCOP_d2fk3b_ (B:)
1d: SCOP_d2fk3c_ (C:)
1e: SCOP_d2fk3d_ (D:)
1f: SCOP_d2fk3e_ (E:)
1g: SCOP_d2fk3f_ (F:)
1h: SCOP_d2fk3g_ (G:)
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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Dodecin subunit-like
(56)
Superfamily
:
Amyloid beta a4 protein copper binding domain (domain 2)
(8)
Family
:
Amyloid beta a4 protein copper binding domain (domain 2)
(7)
Protein domain
:
Amyloid beta a4 protein copper binding domain (domain 2)
(6)
Human (Homo sapiens) [TaxId: 9606]
(6)
1a
d2fk3a_
A:
1b
d2fk3h_
H:
1c
d2fk3b_
B:
1d
d2fk3c_
C:
1e
d2fk3d_
D:
1f
d2fk3e_
E:
1g
d2fk3f_
F:
1h
d2fk3g_
G:
[
close SCOP info
]
CATH Domains
(1, 8)
Info
all CATH domains
1a: CATH_2fk3A00 (A:131-189)
1b: CATH_2fk3E00 (E:132-189)
1c: CATH_2fk3H00 (H:132-189)
1d: CATH_2fk3B00 (B:131-189)
1e: CATH_2fk3C00 (C:131-189)
1f: CATH_2fk3D00 (D:131-189)
1g: CATH_2fk3F00 (F:131-189)
1h: CATH_2fk3G00 (G:131-189)
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(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Dna Ligase; domain 1
(375)
Homologous Superfamily
:
Amyloid beta a4 protein copper binding domain
(7)
Human (Homo sapiens)
(7)
1a
2fk3A00
A:131-189
1b
2fk3E00
E:132-189
1c
2fk3H00
H:132-189
1d
2fk3B00
B:131-189
1e
2fk3C00
C:131-189
1f
2fk3D00
D:131-189
1g
2fk3F00
F:131-189
1h
2fk3G00
G:131-189
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Pfam Domains
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Asym.Unit (89 KB)
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Biol.Unit 10 (82 KB)
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Biol.Unit 11 (83 KB)
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Biol.Unit 12 (42 KB)
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Biol.Unit 9 (82 KB)
Header - Biol.Unit 9
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