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1ZUM
Biol. Unit 2
Info
Asym.Unit (931 KB)
Biol.Unit 1 (317 KB)
Biol.Unit 2 (323 KB)
Biol.Unit 3 (305 KB)
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(1)
Title
:
HUMAN MITOCHONDRIAL ALDEHYDE DEHYDROGENASE ASIAN VARIANT, ALDH2*2, APO FORM
Authors
:
H. N. Larson, H. Weiner, T. D. Hurley
Date
:
31 May 05 (Deposition) - 28 Jun 05 (Release) - 12 Nov 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E,F,G,H (1x)
Biol. Unit 3: I,J,K,L (1x)
Keywords
:
Rossmann Fold, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. N. Larson, H. Weiner, T. D. Hurley
Disruption Of The Coenzyme Binding Site And Dimer Interface Revealed In The Crystal Structure Of Mitochondrial Aldehyde Dehydrogenase "Asian" Variant
J. Biol. Chem. V. 280 30550 2005
[
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Hetero Components
(2, 12)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1b: 1,2-ETHANEDIOL (EDOb)
1c: 1,2-ETHANEDIOL (EDOc)
1d: 1,2-ETHANEDIOL (EDOd)
1e: 1,2-ETHANEDIOL (EDOe)
1f: 1,2-ETHANEDIOL (EDOf)
1g: 1,2-ETHANEDIOL (EDOg)
1h: 1,2-ETHANEDIOL (EDOh)
1i: 1,2-ETHANEDIOL (EDOi)
1j: 1,2-ETHANEDIOL (EDOj)
1k: 1,2-ETHANEDIOL (EDOk)
1l: 1,2-ETHANEDIOL (EDOl)
1m: 1,2-ETHANEDIOL (EDOm)
1n: 1,2-ETHANEDIOL (EDOn)
1o: 1,2-ETHANEDIOL (EDOo)
1p: 1,2-ETHANEDIOL (EDOp)
1q: 1,2-ETHANEDIOL (EDOq)
1r: 1,2-ETHANEDIOL (EDOr)
1s: 1,2-ETHANEDIOL (EDOs)
1t: 1,2-ETHANEDIOL (EDOt)
1u: 1,2-ETHANEDIOL (EDOu)
2a: GUANIDINE (GAIa)
2b: GUANIDINE (GAIb)
2c: GUANIDINE (GAIc)
2d: GUANIDINE (GAId)
2e: GUANIDINE (GAIe)
2f: GUANIDINE (GAIf)
2g: GUANIDINE (GAIg)
2h: GUANIDINE (GAIh)
3a: SODIUM ION (NAa)
3b: SODIUM ION (NAb)
3c: SODIUM ION (NAc)
3d: SODIUM ION (NAd)
3e: SODIUM ION (NAe)
3f: SODIUM ION (NAf)
3g: SODIUM ION (NAg)
3h: SODIUM ION (NAh)
3i: SODIUM ION (NAi)
3j: SODIUM ION (NAj)
3k: SODIUM ION (NAk)
3l: SODIUM ION (NAl)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDO
7
Ligand/Ion
1,2-ETHANEDIOL
2
GAI
5
Ligand/Ion
GUANIDINE
3
NA
-1
Ligand/Ion
SODIUM ION
[
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Sites
(18, 18)
Info
All Sites
01: AC5 (SOFTWARE)
02: AC6 (SOFTWARE)
03: AC7 (SOFTWARE)
04: AC8 (SOFTWARE)
05: BC5 (SOFTWARE)
06: BC6 (SOFTWARE)
07: BC7 (SOFTWARE)
08: BC8 (SOFTWARE)
09: BC9 (SOFTWARE)
10: DC3 (SOFTWARE)
11: DC4 (SOFTWARE)
12: DC5 (SOFTWARE)
13: DC6 (SOFTWARE)
14: DC7 (SOFTWARE)
15: DC8 (SOFTWARE)
16: DC9 (SOFTWARE)
17: EC1 (SOFTWARE)
18: EC2 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC5
SOFTWARE
THR E:39 , VAL E:40 , ASP E:109 , GLN E:196 , HOH E:3904
BINDING SITE FOR RESIDUE NA E 3705
02
AC6
SOFTWARE
THR F:39 , VAL F:40 , ASP F:109 , GLN F:196 , HOH F:3794 , HOH F:3883
BINDING SITE FOR RESIDUE NA F 3706
03
AC7
SOFTWARE
THR G:39 , VAL G:40 , ASP G:109 , GLN G:196 , HOH G:3949
BINDING SITE FOR RESIDUE NA G 3707
04
AC8
SOFTWARE
THR H:39 , VAL H:40 , ASP H:109 , GLN H:196 , HOH H:3910
BINDING SITE FOR RESIDUE NA H 3708
05
BC5
SOFTWARE
ASP E:147 , PHE E:150 , HOH E:3954 , PHE F:459 , HOH F:4012
BINDING SITE FOR RESIDUE GAI E 3102
06
BC6
SOFTWARE
PHE F:70 , GLU F:157 , PRO F:158 , VAL F:159 , LYS F:487
BINDING SITE FOR RESIDUE GAI F 3103
07
BC7
SOFTWARE
PHE E:459 , ASP F:147 , PHE F:150
BINDING SITE FOR RESIDUE GAI F 3104
08
BC8
SOFTWARE
ILE G:146 , ASP G:147 , PHE G:150 , HOH G:3861 , PHE H:459
BINDING SITE FOR RESIDUE GAI G 3105
09
BC9
SOFTWARE
PHE G:459 , HOH G:3848 , ILE H:146 , ASP H:147 , PHE H:150
BINDING SITE FOR RESIDUE GAI H 3106
10
DC3
SOFTWARE
ASN E:41 , THR E:44 , GLU E:46 , VAL E:47 , LEU E:108
BINDING SITE FOR RESIDUE EDO E 3118
11
DC4
SOFTWARE
PHE E:18 , TYR E:101 , TYR E:203 , GLN I:14 , HOH I:3802
BINDING SITE FOR RESIDUE EDO I 3119
12
DC5
SOFTWARE
SER E:443 , TYR F:153 , ARG F:155 , PHE G:151
BINDING SITE FOR RESIDUE EDO F 3120
13
DC6
SOFTWARE
GLN F:14 , ASN F:41 , THR F:44 , GLU F:46 , VAL F:47
BINDING SITE FOR RESIDUE EDO F 3121
14
DC7
SOFTWARE
PHE F:18 , TYR F:101 , TYR F:203 , HOH F:3798
BINDING SITE FOR RESIDUE EDO F 3122
15
DC8
SOFTWARE
PHE F:151 , TYR G:153 , ARG G:155 , SER H:443
BINDING SITE FOR RESIDUE EDO G 3123
16
DC9
SOFTWARE
GLN G:14 , ASN G:41 , THR G:44 , GLU G:46 , VAL G:47 , LEU G:108
BINDING SITE FOR RESIDUE EDO G 3124
17
EC1
SOFTWARE
TYR G:101 , TYR G:203 , HOH G:3810
BINDING SITE FOR RESIDUE EDO G 3125
18
EC2
SOFTWARE
LYS D:361 , LEU D:367 , HOH D:3734 , HOH D:3759 , PHE H:18 , TYR H:101 , TYR H:203
BINDING SITE FOR RESIDUE EDO D 3126
[
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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 E/F/G/H, )
2: VAR_011302 (E479K, chain E/F/G/H, )
3: VAR_002248 (K487K, chain E/F/G/H, )
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
E/F/G/H
E
320
V
2
UniProt
VAR_011302
E
496
K
ALDH2_HUMAN
Polymorphism
---
E/F/G/H
E
479
K
3
UniProt
VAR_002248
E
504
K
ALDH2_HUMAN
Polymorphism
671
E/F/G/H
K
487
K
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 8)
Info
All PROSITE Patterns/Profiles
1: ALDEHYDE_DEHYDR_GLU (E:267-274,F:267-274,G:267-274,H:26...)
2: ALDEHYDE_DEHYDR_CYS (E:295-306,F:295-306,G:295-306,H:29...)
;
View:
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Label:
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
-
-
-
-
E:267-274
F:267-274
G:267-274
H:267-274
-
-
-
-
2
ALDEHYDE_DEHYDR_CYS
PS00070
Aldehyde dehydrogenases cysteine active site.
ALDH2_HUMAN
312-323
4
-
-
-
-
E:295-306
F:295-306
G:295-306
H:295-306
-
-
-
-
[
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]
Exons
(0, 0)
Info
All Exons
View:
Select:
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 12)
Info
All SCOP Domains
1a: SCOP_d1zuma_ (A:)
1b: SCOP_d1zumb_ (B:)
1c: SCOP_d1zumc_ (C:)
1d: SCOP_d1zumd_ (D:)
1e: SCOP_d1zume_ (E:)
1f: SCOP_d1zumf_ (F:)
1g: SCOP_d1zumg_ (G:)
1h: SCOP_d1zumh_ (H:)
1i: SCOP_d1zumi_ (I:)
1j: SCOP_d1zumj_ (J:)
1k: SCOP_d1zumk_ (K:)
1l: SCOP_d1zuml_ (L:)
View:
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Classes
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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
d1zuma_
A:
1b
d1zumb_
B:
1c
d1zumc_
C:
1d
d1zumd_
D:
1e
d1zume_
E:
1f
d1zumf_
F:
1g
d1zumg_
G:
1h
d1zumh_
H:
1i
d1zumi_
I:
1j
d1zumj_
J:
1k
d1zumk_
K:
1l
d1zuml_
L:
[
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CATH Domains
(2, 24)
Info
all CATH domains
1a: CATH_1zumA01 (A:7-270,A:479-500)
1b: CATH_1zumD01 (D:7-270,D:467-500)
1c: CATH_1zumE01 (E:7-270,E:468-500)
1d: CATH_1zumG01 (G:7-270,G:468-500)
1e: CATH_1zumH01 (H:7-270,H:468-500)
1f: CATH_1zumC01 (C:7-270,C:475-500)
1g: CATH_1zumF01 (F:7-270,F:475-500)
1h: CATH_1zumI01 (I:7-270,I:468-500)
1i: CATH_1zumJ01 (J:7-270,J:468-500)
1j: CATH_1zumB01 (B:7-270,B:474-500)
1k: CATH_1zumL01 (L:7-270,L:477-500)
1l: CATH_1zumK01 (K:7-245,K:476-500)
2a: CATH_1zumA02 (A:271-462)
2b: CATH_1zumK02 (K:272-465)
2c: CATH_1zumL02 (L:271-465)
2d: CATH_1zumD02 (D:271-466)
2e: CATH_1zumB02 (B:271-467)
2f: CATH_1zumC02 (C:271-467)
2g: CATH_1zumE02 (E:271-467)
2h: CATH_1zumF02 (F:271-467)
2i: CATH_1zumG02 (G:271-467)
2j: CATH_1zumH02 (H:271-467)
2k: CATH_1zumI02 (I:271-467)
2l: CATH_1zumJ02 (J:271-467)
View:
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)
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)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
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
1zumA01
A:7-270,A:479-500
1b
1zumD01
D:7-270,D:467-500
1c
1zumE01
E:7-270,E:468-500
1d
1zumG01
G:7-270,G:468-500
1e
1zumH01
H:7-270,H:468-500
1f
1zumC01
C:7-270,C:475-500
1g
1zumF01
F:7-270,F:475-500
1h
1zumI01
I:7-270,I:468-500
1i
1zumJ01
J:7-270,J:468-500
1j
1zumB01
B:7-270,B:474-500
1k
1zumL01
L:7-270,L:477-500
1l
1zumK01
K:7-245,K:476-500
Topology
:
Aldehyde Dehydrogenase; Chain A, domain 2
(89)
Homologous Superfamily
:
Aldehyde Dehydrogenase; Chain A, domain 2
(89)
Human (Homo sapiens)
(22)
2a
1zumA02
A:271-462
2b
1zumK02
K:272-465
2c
1zumL02
L:271-465
2d
1zumD02
D:271-466
2e
1zumB02
B:271-467
2f
1zumC02
C:271-467
2g
1zumE02
E:271-467
2h
1zumF02
F:271-467
2i
1zumG02
G:271-467
2j
1zumH02
H:271-467
2k
1zumI02
I:271-467
2l
1zumJ02
J:271-467
[
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Pfam Domains
(1, 12)
Info
all PFAM domains
1a: PFAM_Aldedh_1zumL01 (L:28-491)
1b: PFAM_Aldedh_1zumL02 (L:28-491)
1c: PFAM_Aldedh_1zumL03 (L:28-491)
1d: PFAM_Aldedh_1zumL04 (L:28-491)
1e: PFAM_Aldedh_1zumL05 (L:28-491)
1f: PFAM_Aldedh_1zumL06 (L:28-491)
1g: PFAM_Aldedh_1zumL07 (L:28-491)
1h: PFAM_Aldedh_1zumL08 (L:28-491)
1i: PFAM_Aldedh_1zumL09 (L:28-491)
1j: PFAM_Aldedh_1zumL10 (L:28-491)
1k: PFAM_Aldedh_1zumL11 (L:28-491)
1l: PFAM_Aldedh_1zumL12 (L:28-491)
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Clans
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Organisms
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)
(
)
Clan
:
ALDH-like
(49)
Family
:
Aldedh
(45)
Homo sapiens (Human)
(21)
1a
Aldedh-1zumL01
L:28-491
1b
Aldedh-1zumL02
L:28-491
1c
Aldedh-1zumL03
L:28-491
1d
Aldedh-1zumL04
L:28-491
1e
Aldedh-1zumL05
L:28-491
1f
Aldedh-1zumL06
L:28-491
1g
Aldedh-1zumL07
L:28-491
1h
Aldedh-1zumL08
L:28-491
1i
Aldedh-1zumL09
L:28-491
1j
Aldedh-1zumL10
L:28-491
1k
Aldedh-1zumL11
L:28-491
1l
Aldedh-1zumL12
L:28-491
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Asym.Unit (931 KB)
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