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1CW3
Biol. Unit 1
Info
Asym.Unit (651 KB)
Biol.Unit 1 (326 KB)
Biol.Unit 2 (327 KB)
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(1)
Title
:
HUMAN MITOCHONDRIAL ALDEHYDE DEHYDROGENASE COMPLEXED WITH NAD+ AND MN2+
Authors
:
L. Ni, J. Zhou, T. D. Hurley, H. Weiner
Date
:
25 Aug 99 (Deposition) - 31 Aug 99 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.58
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E,F,G,H (1x)
Keywords
:
Dinucleotide Fold, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
L. Ni, J. Zhou, T. D. Hurley, H. Weiner
Human Liver Mitochondrial Aldehyde Dehydrogenase: Three-Dimensional Structure And The Restoration Of Solubility And Activity Of Chimeric Forms.
Protein Sci. V. 8 2784 1999
(for further references see the
PDB file header
)
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Hetero Components
(1, 4)
Info
All Hetero Components
1a: MAGNESIUM ION (MGa)
1b: MAGNESIUM ION (MGb)
1c: MAGNESIUM ION (MGc)
1d: MAGNESIUM ION (MGd)
1e: MAGNESIUM ION (MGe)
1f: MAGNESIUM ION (MGf)
1g: MAGNESIUM ION (MGg)
1h: MAGNESIUM ION (MGh)
2a: MANGANESE (II) ION (MNa)
2b: MANGANESE (II) ION (MNb)
2c: MANGANESE (II) ION (MNc)
2d: MANGANESE (II) ION (MNd)
2e: MANGANESE (II) ION (MNe)
2f: MANGANESE (II) ION (MNf)
2g: MANGANESE (II) ION (MNg)
2h: MANGANESE (II) ION (MNh)
3a: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADa)
3b: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADb)
3c: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADc)
3d: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADd)
3e: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADe)
3f: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADf)
3g: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADg)
3h: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MG
-1
Ligand/Ion
MAGNESIUM ION
2
MN
-1
Ligand/Ion
MANGANESE (II) ION
3
NAD
4
Ligand/Ion
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
[
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Sites
(12, 12)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC9 (SOFTWARE)
06: BC1 (SOFTWARE)
07: BC2 (SOFTWARE)
08: BC3 (SOFTWARE)
09: BC8 (SOFTWARE)
10: BC9 (SOFTWARE)
11: CC1 (SOFTWARE)
12: CC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
NAD A:1502 , HOH A:1523 , HOH A:1567
BINDING SITE FOR RESIDUE MN A 1503
02
AC2
SOFTWARE
NAD B:2502 , HOH B:2522 , HOH B:2523 , HOH B:2524
BINDING SITE FOR RESIDUE MN B 2503
03
AC3
SOFTWARE
NAD C:3502 , HOH C:3523 , HOH C:3524 , HOH C:3558
BINDING SITE FOR RESIDUE MN C 3503
04
AC4
SOFTWARE
NAD D:4502 , HOH D:4532 , HOH D:4578 , HOH D:4603
BINDING SITE FOR RESIDUE MN D 4503
05
AC9
SOFTWARE
THR A:39 , VAL A:40 , ASP A:109 , GLN A:196 , HOH A:1508
BINDING SITE FOR RESIDUE MG A 1501
06
BC1
SOFTWARE
THR B:39 , VAL B:40 , ASP B:109 , GLN B:196 , HOH B:2508
BINDING SITE FOR RESIDUE MG B 2501
07
BC2
SOFTWARE
THR C:39 , VAL C:40 , ASP C:109 , GLN C:196 , HOH C:3511
BINDING SITE FOR RESIDUE MG C 3501
08
BC3
SOFTWARE
VAL D:40 , ASP D:109 , GLN D:196 , HOH D:4568
BINDING SITE FOR RESIDUE MG D 4501
09
BC8
SOFTWARE
ILE A:165 , ILE A:166 , PRO A:167 , TRP A:168 , LYS A:192 , GLU A:195 , GLY A:225 , GLY A:229 , ALA A:230 , PHE A:243 , THR A:244 , GLY A:245 , SER A:246 , ILE A:249 , ILE A:253 , LEU A:269 , GLY A:270 , CYS A:302 , GLN A:349 , LYS A:352 , GLU A:399 , PHE A:401 , MN A:1503 , HOH A:1522 , HOH A:1523 , HOH A:1529 , HOH A:1569 , HOH A:1580 , HOH A:1621
BINDING SITE FOR RESIDUE NAD A 1502
10
BC9
SOFTWARE
ILE B:165 , ILE B:166 , PRO B:167 , TRP B:168 , ASN B:169 , LYS B:192 , ALA B:194 , GLU B:195 , GLY B:225 , GLY B:229 , ALA B:230 , PHE B:243 , THR B:244 , GLY B:245 , SER B:246 , ILE B:249 , ILE B:253 , GLU B:268 , LEU B:269 , GLY B:270 , CYS B:302 , GLU B:399 , PHE B:401 , LEU B:427 , PHE B:465 , MN B:2503 , HOH B:2523 , HOH B:2524 , HOH B:2561 , HOH B:2580 , HOH B:2582
BINDING SITE FOR RESIDUE NAD B 2502
11
CC1
SOFTWARE
ILE C:165 , ILE C:166 , PRO C:167 , TRP C:168 , ASN C:169 , LYS C:192 , GLU C:195 , GLY C:225 , PRO C:226 , GLY C:229 , ALA C:230 , PHE C:243 , THR C:244 , GLY C:245 , SER C:246 , ILE C:249 , ILE C:253 , GLU C:268 , LEU C:269 , GLY C:270 , CYS C:302 , GLU C:399 , PHE C:401 , PHE C:465 , MN C:3503 , HOH C:3524 , HOH C:3528 , HOH C:3531 , HOH C:3557 , HOH C:3558 , HOH C:3611
BINDING SITE FOR RESIDUE NAD C 3502
12
CC2
SOFTWARE
ILE D:165 , ILE D:166 , PRO D:167 , TRP D:168 , ASN D:169 , LYS D:192 , GLU D:195 , GLY D:225 , GLY D:229 , ALA D:230 , PHE D:243 , GLY D:245 , SER D:246 , ILE D:249 , ILE D:253 , LEU D:269 , GLY D:270 , CYS D:302 , GLN D:349 , LYS D:352 , GLU D:399 , PHE D:401 , MN D:4503 , HOH D:4537 , HOH D:4578 , HOH D:4603
BINDING SITE FOR RESIDUE NAD D 4502
[
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SAPs(SNPs)/Variants
(3, 12)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_011869 (E320V, chain A/B/C/D, )
2: VAR_011302 (E479K, chain A/B/C/D, )
3: VAR_002248 (E487K, chain A/B/C/D, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_011869
E
337
V
ALDH2_HUMAN
Polymorphism
1062136
A/B/C/D
E
320
V
2
UniProt
VAR_011302
E
496
K
ALDH2_HUMAN
Polymorphism
---
A/B/C/D
E
479
K
3
UniProt
VAR_002248
E
504
K
ALDH2_HUMAN
Polymorphism
671
A/B/C/D
E
487
K
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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PROSITE Patterns/Profiles
(2, 8)
Info
All PROSITE Patterns/Profiles
1: ALDEHYDE_DEHYDR_GLU (A:267-274,B:267-274,C:267-274,D:26...)
2: ALDEHYDE_DEHYDR_CYS (A:295-306,B:295-306,C:295-306,D:29...)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ALDEHYDE_DEHYDR_GLU
PS00687
Aldehyde dehydrogenases glutamic acid active site.
ALDH2_HUMAN
284-291
4
A:267-274
B:267-274
C:267-274
D:267-274
-
-
-
-
2
ALDEHYDE_DEHYDR_CYS
PS00070
Aldehyde dehydrogenases cysteine active site.
ALDH2_HUMAN
312-323
4
A:295-306
B:295-306
C:295-306
D:295-306
-
-
-
-
[
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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
(1, 8)
Info
All SCOP Domains
1a: SCOP_d1cw3a_ (A:)
1b: SCOP_d1cw3b_ (B:)
1c: SCOP_d1cw3c_ (C:)
1d: SCOP_d1cw3d_ (D:)
1e: SCOP_d1cw3e_ (E:)
1f: SCOP_d1cw3f_ (F:)
1g: SCOP_d1cw3g_ (G:)
1h: SCOP_d1cw3h_ (H:)
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(
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(
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
ALDH-like
(168)
Superfamily
:
ALDH-like
(168)
Family
:
ALDH-like
(76)
Protein domain
:
Aldehyde reductase (dehydrogenase), ALDH
(39)
Human (Homo sapiens), mitochondrial [TaxId: 9606]
(25)
1a
d1cw3a_
A:
1b
d1cw3b_
B:
1c
d1cw3c_
C:
1d
d1cw3d_
D:
1e
d1cw3e_
E:
1f
d1cw3f_
F:
1g
d1cw3g_
G:
1h
d1cw3h_
H:
[
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]
CATH Domains
(2, 16)
Info
all CATH domains
1a: CATH_1cw3A01 (A:8-270,A:461-500)
1b: CATH_1cw3B01 (B:8-270,B:461-500)
1c: CATH_1cw3C01 (C:8-270,C:461-500)
1d: CATH_1cw3D01 (D:8-270,D:461-500)
1e: CATH_1cw3E01 (E:8-270,E:461-500)
1f: CATH_1cw3F01 (F:8-270,F:461-500)
1g: CATH_1cw3G01 (G:8-270,G:461-500)
1h: CATH_1cw3H01 (H:8-270,H:461-500)
2a: CATH_1cw3A02 (A:271-460)
2b: CATH_1cw3B02 (B:271-460)
2c: CATH_1cw3C02 (C:271-460)
2d: CATH_1cw3D02 (D:271-460)
2e: CATH_1cw3E02 (E:271-460)
2f: CATH_1cw3F02 (F:271-460)
2g: CATH_1cw3G02 (G:271-460)
2h: CATH_1cw3H02 (H:271-460)
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(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Aldehyde Dehydrogenase; Chain A, domain 1
(86)
Homologous Superfamily
:
Aldehyde Dehydrogenase; Chain A, domain 1
(86)
Human (Homo sapiens)
(22)
1a
1cw3A01
A:8-270,A:461-500
1b
1cw3B01
B:8-270,B:461-500
1c
1cw3C01
C:8-270,C:461-500
1d
1cw3D01
D:8-270,D:461-500
1e
1cw3E01
E:8-270,E:461-500
1f
1cw3F01
F:8-270,F:461-500
1g
1cw3G01
G:8-270,G:461-500
1h
1cw3H01
H:8-270,H:461-500
Topology
:
Aldehyde Dehydrogenase; Chain A, domain 2
(89)
Homologous Superfamily
:
Aldehyde Dehydrogenase; Chain A, domain 2
(89)
Human (Homo sapiens)
(22)
2a
1cw3A02
A:271-460
2b
1cw3B02
B:271-460
2c
1cw3C02
C:271-460
2d
1cw3D02
D:271-460
2e
1cw3E02
E:271-460
2f
1cw3F02
F:271-460
2g
1cw3G02
G:271-460
2h
1cw3H02
H:271-460
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Asymmetric Unit 1
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Asym.Unit (651 KB)
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