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1NZW
Asym. Unit
Info
Asym.Unit (639 KB)
Biol.Unit 1 (320 KB)
Biol.Unit 2 (319 KB)
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(1)
Title
:
CYS302SER MUTANT OF HUMAN MITOCHONDRIAL ALDEHYDE DEHYDROGENASE COMPLEXED WITH NADH AND MG2+
Authors
:
S. J. Perez-Miller, T. D. Hurley
Date
:
20 Feb 03 (Deposition) - 24 Jun 03 (Release) - 30 Oct 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.65
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
:
Aldh, Nad, Nadh, Isomerization, , Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. J. Perez-Miller, T. D. Hurley
Coenzyme Isomerization Is Integral To Catalysis In Aldehyde Dehydrogenase
Biochemistry V. 42 7100 2003
[
close entry info
]
Hetero Components
(3, 24)
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)
3a: 1,4-DIHYDRONICOTINAMIDE ADENINE DI... (NAIa)
3b: 1,4-DIHYDRONICOTINAMIDE ADENINE DI... (NAIb)
3c: 1,4-DIHYDRONICOTINAMIDE ADENINE DI... (NAIc)
3d: 1,4-DIHYDRONICOTINAMIDE ADENINE DI... (NAId)
3e: 1,4-DIHYDRONICOTINAMIDE ADENINE DI... (NAIe)
3f: 1,4-DIHYDRONICOTINAMIDE ADENINE DI... (NAIf)
3g: 1,4-DIHYDRONICOTINAMIDE ADENINE DI... (NAIg)
3h: 1,4-DIHYDRONICOTINAMIDE ADENINE DI... (NAIh)
2a: SODIUM ION (NAa)
2b: SODIUM ION (NAb)
2c: SODIUM ION (NAc)
2d: SODIUM ION (NAd)
2e: SODIUM ION (NAe)
2f: SODIUM ION (NAf)
2g: SODIUM ION (NAg)
2h: SODIUM ION (NAh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MG
8
Ligand/Ion
MAGNESIUM ION
2
NA
8
Ligand/Ion
SODIUM ION
3
NAI
8
Ligand/Ion
1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE
[
close Hetero Component info
]
Sites
(24, 24)
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)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
THR A:39 , VAL A:40 , ASP A:109 , GLN A:196
BINDING SITE FOR RESIDUE NA A 1601
02
AC2
SOFTWARE
THR B:39 , VAL B:40 , ASP B:109 , GLN B:196 , HOH B:2571 , HOH B:2582
BINDING SITE FOR RESIDUE NA B 1602
03
AC3
SOFTWARE
THR C:39 , VAL C:40 , ASP C:109 , GLN C:196 , HOH C:3549
BINDING SITE FOR RESIDUE NA C 1603
04
AC4
SOFTWARE
THR D:39 , VAL D:40 , ASP D:109 , GLN D:196
BINDING SITE FOR RESIDUE NA D 1604
05
AC5
SOFTWARE
NAI A:1502 , HOH A:1756
BINDING SITE FOR RESIDUE MG A 1701
06
AC6
SOFTWARE
NAI B:2502 , HOH B:2563
BINDING SITE FOR RESIDUE MG B 1702
07
AC7
SOFTWARE
NAI C:3502 , HOH C:3611
BINDING SITE FOR RESIDUE MG C 1703
08
AC8
SOFTWARE
NAI D:4502
BINDING SITE FOR RESIDUE MG D 1704
09
AC9
SOFTWARE
THR E:39 , VAL E:40 , ASP E:109 , GLN E:196
BINDING SITE FOR RESIDUE NA E 1605
10
BC1
SOFTWARE
THR F:39 , VAL F:40 , ASP F:109 , GLN F:196
BINDING SITE FOR RESIDUE NA F 1606
11
BC2
SOFTWARE
THR G:39 , VAL G:40 , ASP G:109 , GLN G:196
BINDING SITE FOR RESIDUE NA G 1607
12
BC3
SOFTWARE
THR H:39 , VAL H:40 , ASP H:109 , GLN H:196 , HOH H:8543
BINDING SITE FOR RESIDUE NA H 1608
13
BC4
SOFTWARE
NAI E:5502 , HOH E:5538 , HOH E:5584
BINDING SITE FOR RESIDUE MG E 1705
14
BC5
SOFTWARE
NAI F:6502 , HOH F:6525 , HOH F:6621
BINDING SITE FOR RESIDUE MG F 1706
15
BC6
SOFTWARE
NAI G:7502 , HOH G:7536
BINDING SITE FOR RESIDUE MG G 1707
16
BC7
SOFTWARE
NAI H:8502 , HOH H:8542
BINDING SITE FOR RESIDUE MG H 1708
17
BC8
SOFTWARE
ILE A:165 , ILE A:166 , PRO A:167 , TRP A:168 , ASN A:169 , LYS A:192 , GLU A:195 , GLY A:225 , GLY A:229 , ALA A:230 , PHE A:243 , GLY A:245 , SER A:246 , ILE A:249 , GLU A:268 , GLY A:270 , SER A:302 , GLN A:349 , GLU A:399 , PHE A:401 , MG A:1701 , HOH A:1754 , HOH A:1756
BINDING SITE FOR RESIDUE NAI A 1502
18
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 , GLY B:245 , SER B:246 , ILE B:249 , ILE B:253 , GLU B:268 , GLY B:270 , SER B:302 , GLN B:349 , GLU B:399 , PHE B:401 , MG B:1702 , HOH B:2514 , HOH B:2529 , HOH B:2559 , HOH B:2563 , HOH B:2564
BINDING SITE FOR RESIDUE NAI B 2502
19
CC1
SOFTWARE
ILE C:165 , ILE C:166 , PRO C:167 , TRP C:168 , ASN C:169 , LYS C:192 , ALA C:194 , GLU C:195 , GLY C:225 , PRO C:226 , GLY C:229 , ALA C:230 , PHE C:243 , GLY C:245 , SER C:246 , ILE C:249 , ILE C:253 , GLU C:268 , GLY C:270 , SER C:302 , GLN C:349 , GLU C:399 , PHE C:401 , MG C:1703 , HOH C:3505
BINDING SITE FOR RESIDUE NAI C 3502
20
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 , THR D:244 , GLY D:245 , SER D:246 , ILE D:249 , GLU D:268 , GLY D:270 , SER D:302 , GLN D:349 , GLU D:399 , PHE D:401 , MG D:1704 , HOH D:4575
BINDING SITE FOR RESIDUE NAI D 4502
21
CC3
SOFTWARE
ILE E:165 , ILE E:166 , PRO E:167 , TRP E:168 , ASN E:169 , LYS E:192 , GLU E:195 , GLY E:225 , GLY E:229 , ALA E:230 , PHE E:243 , GLY E:245 , SER E:246 , ILE E:249 , ILE E:253 , GLU E:268 , GLY E:270 , SER E:302 , GLN E:349 , LYS E:352 , GLU E:399 , PHE E:401 , MG E:1705 , HOH E:5567 , HOH E:5584
BINDING SITE FOR RESIDUE NAI E 5502
22
CC4
SOFTWARE
ILE F:165 , ILE F:166 , PRO F:167 , TRP F:168 , ASN F:169 , LYS F:192 , GLU F:195 , GLY F:225 , GLY F:229 , ALA F:230 , PHE F:243 , GLY F:245 , SER F:246 , ILE F:249 , ILE F:253 , GLU F:268 , GLY F:270 , SER F:302 , GLN F:349 , LYS F:352 , GLU F:399 , PHE F:401 , MG F:1706 , HOH F:6525 , HOH F:6530 , HOH F:6562 , HOH F:6575 , HOH F:6621
BINDING SITE FOR RESIDUE NAI F 6502
23
CC5
SOFTWARE
ILE G:165 , ILE G:166 , PRO G:167 , TRP G:168 , ASN G:169 , LYS G:192 , ALA G:194 , GLU G:195 , GLN G:196 , GLY G:225 , GLY G:229 , ALA G:230 , PHE G:243 , THR G:244 , GLY G:245 , SER G:246 , ILE G:249 , ILE G:253 , GLU G:268 , GLY G:270 , SER G:302 , GLN G:349 , GLU G:399 , PHE G:401 , MG G:1707 , HOH G:7535 , HOH G:7536 , HOH G:7569
BINDING SITE FOR RESIDUE NAI G 7502
24
CC6
SOFTWARE
ILE H:165 , ILE H:166 , PRO H:167 , TRP H:168 , ASN H:169 , LYS H:192 , GLU H:195 , GLN H:196 , GLY H:225 , PRO H:226 , GLY H:229 , ALA H:230 , PHE H:243 , THR H:244 , GLY H:245 , SER H:246 , ILE H:249 , ILE H:253 , GLU H:268 , GLY H:270 , SER H:302 , GLN H:349 , GLU H:399 , PHE H:401 , MG H:1708 , HOH H:8538 , HOH H:8541
BINDING SITE FOR RESIDUE NAI H 8502
[
close Site info
]
SAPs(SNPs)/Variants
(3, 24)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_011869 (E320V, chain A/B/C/D/E/F/G/H, )
2: VAR_011302 (E479K, chain A/B/C/D/E/F/G/H, )
3: VAR_002248 (E487K, chain A/B/C/D/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
A/B/C/D/E/F/G/H
E
320
V
2
UniProt
VAR_011302
E
496
K
ALDH2_HUMAN
Polymorphism
---
A/B/C/D/E/F/G/H
E
479
K
3
UniProt
VAR_002248
E
504
K
ALDH2_HUMAN
Polymorphism
671
A/B/C/D/E/F/G/H
E
487
K
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 16)
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:
Select:
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
8
A:267-274
B:267-274
C:267-274
D:267-274
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
8
A:295-306
B:295-306
C:295-306
D:295-306
E:295-306
F:295-306
G:295-306
H:295-306
[
close PROSITE info
]
Exons
(13, 104)
Info
All Exons
Exon 1.1 (A:7-21 | B:7-21 | C:7-21 | D:7-21 ...)
Exon 1.2 (A:22-56 | B:22-56 | C:22-56 | D:22...)
Exon 1.3 (A:57-103 | B:57-103 | C:57-103 | D...)
Exon 1.4 (A:104-130 | B:104-130 | C:104-130 ...)
Exon 1.5 (A:130-167 | B:130-167 | C:130-167 ...)
Exon 1.6 (A:168-210 | B:168-210 | C:168-210 ...)
Exon 1.7 (A:211-248 | B:211-248 | C:211-248 ...)
Exon 1.8 (A:249-283 | B:249-283 | C:249-283 ...)
Exon 1.9 (A:283-344 | B:283-344 | C:283-344 ...)
Exon 1.10 (A:345-399 | B:345-399 | C:345-399 ...)
Exon 1.11 (A:400-452 | B:400-452 | C:400-452 ...)
Exon 1.12 (A:452-490 | B:452-490 | C:452-490 ...)
Exon 1.13 (A:491-500 | B:491-500 | C:491-500 ...)
View:
Select:
Label:
All Exon Boundaries
01: Boundary -/1.1
02: Boundary 1.1/1.2
03: Boundary 1.2/1.3
04: Boundary 1.3/1.4
05: Boundary 1.4/1.5
06: Boundary 1.5/1.6
07: Boundary 1.6/1.7
08: Boundary 1.7/1.8
09: Boundary 1.8/1.9
10: Boundary 1.9/1.10
11: Boundary 1.10/1.11
12: Boundary 1.11/1.12
13: Boundary 1.12/1.13
14: Boundary 1.13/-
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1
ENST00000261733
1
ENSE00001297894
chr12:
112204346-112204900
555
ALDH2_HUMAN
1-38
38
8
A:7-21
B:7-21
C:7-21
D:7-21
E:7-21
F:7-21
G:7-21
H:7-21
15
15
15
15
15
15
15
15
1.2
ENST00000261733
2
ENSE00001302483
chr12:
112219722-112219826
105
ALDH2_HUMAN
39-73
35
8
A:22-56
B:22-56
C:22-56
D:22-56
E:22-56
F:22-56
G:22-56
H:22-56
35
35
35
35
35
35
35
35
1.3
ENST00000261733
3
ENSE00000755216
chr12:
112220962-112221102
141
ALDH2_HUMAN
74-120
47
8
A:57-103
B:57-103
C:57-103
D:57-103
E:57-103
F:57-103
G:57-103
H:57-103
47
47
47
47
47
47
47
47
1.4
ENST00000261733
4
ENSE00000755217
chr12:
112223071-112223150
80
ALDH2_HUMAN
121-147
27
8
A:104-130
B:104-130
C:104-130
D:104-130
E:104-130
F:104-130
G:104-130
H:104-130
27
27
27
27
27
27
27
27
1.5
ENST00000261733
5
ENSE00000755218
chr12:
112227627-112227738
112
ALDH2_HUMAN
147-184
38
8
A:130-167
B:130-167
C:130-167
D:130-167
E:130-167
F:130-167
G:130-167
H:130-167
38
38
38
38
38
38
38
38
1.6
ENST00000261733
6
ENSE00001316176
chr12:
112228238-112228366
129
ALDH2_HUMAN
185-227
43
8
A:168-210
B:168-210
C:168-210
D:168-210
E:168-210
F:168-210
G:168-210
H:168-210
43
43
43
43
43
43
43
43
1.7
ENST00000261733
7
ENSE00000755220
chr12:
112229110-112229223
114
ALDH2_HUMAN
228-265
38
8
A:211-248
B:211-248
C:211-248
D:211-248
E:211-248
F:211-248
G:211-248
H:211-248
38
38
38
38
38
38
38
38
1.8
ENST00000261733
8
ENSE00000755221
chr12:
112229865-112229967
103
ALDH2_HUMAN
266-300
35
8
A:249-283
B:249-283
C:249-283
D:249-283
E:249-283
F:249-283
G:249-283
H:249-283
35
35
35
35
35
35
35
35
1.9
ENST00000261733
9
ENSE00000755222
chr12:
112230402-112230586
185
ALDH2_HUMAN
300-361
62
8
A:283-344
B:283-344
C:283-344
D:283-344
E:283-344
F:283-344
G:283-344
H:283-344
62
62
62
62
62
62
62
62
1.10
ENST00000261733
10
ENSE00000755223
chr12:
112235882-112236046
165
ALDH2_HUMAN
362-416
55
8
A:345-399
B:345-399
C:345-399
D:345-399
E:345-399
F:345-399
G:345-399
H:345-399
55
55
55
55
55
55
55
55
1.11
ENST00000261733
11
ENSE00000755233
chr12:
112237710-112237867
158
ALDH2_HUMAN
417-469
53
8
A:400-452
B:400-452
C:400-452
D:400-452
E:400-452
F:400-452
G:400-452
H:400-452
53
53
53
53
53
53
53
53
1.12
ENST00000261733
12
ENSE00001304774
chr12:
112241663-112241777
115
ALDH2_HUMAN
469-507
39
8
A:452-490
B:452-490
C:452-490
D:452-490
E:452-490
F:452-490
G:452-490
H:452-490
39
39
39
39
39
39
39
39
1.13
ENST00000261733
13
ENSE00001129780
chr12:
112247347-112247782
436
ALDH2_HUMAN
508-517
10
8
A:491-500
B:491-500
C:491-500
D:491-500
E:491-500
F:491-500
G:491-500
H:491-500
10
10
10
10
10
10
10
10
[
close EXON info
]
SCOP Domains
(1, 8)
Info
All SCOP Domains
1a: SCOP_d1nzwa_ (A:)
1b: SCOP_d1nzwb_ (B:)
1c: SCOP_d1nzwc_ (C:)
1d: SCOP_d1nzwd_ (D:)
1e: SCOP_d1nzwe_ (E:)
1f: SCOP_d1nzwf_ (F:)
1g: SCOP_d1nzwg_ (G:)
1h: SCOP_d1nzwh_ (H:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
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
d1nzwa_
A:
1b
d1nzwb_
B:
1c
d1nzwc_
C:
1d
d1nzwd_
D:
1e
d1nzwe_
E:
1f
d1nzwf_
F:
1g
d1nzwg_
G:
1h
d1nzwh_
H:
[
close SCOP info
]
CATH Domains
(2, 16)
Info
all CATH domains
1a: CATH_1nzwA01 (A:8-270,A:461-500)
1b: CATH_1nzwB01 (B:8-270,B:461-500)
1c: CATH_1nzwC01 (C:8-270,C:461-500)
1d: CATH_1nzwD01 (D:8-270,D:461-500)
1e: CATH_1nzwE01 (E:8-270,E:461-500)
1f: CATH_1nzwF01 (F:8-270,F:461-500)
1g: CATH_1nzwG01 (G:8-270,G:461-500)
1h: CATH_1nzwH01 (H:8-270,H:461-500)
2a: CATH_1nzwA02 (A:271-460)
2b: CATH_1nzwB02 (B:271-460)
2c: CATH_1nzwC02 (C:271-460)
2d: CATH_1nzwD02 (D:271-460)
2e: CATH_1nzwE02 (E:271-460)
2f: CATH_1nzwF02 (F:271-460)
2g: CATH_1nzwG02 (G:271-460)
2h: CATH_1nzwH02 (H:271-460)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
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
1nzwA01
A:8-270,A:461-500
1b
1nzwB01
B:8-270,B:461-500
1c
1nzwC01
C:8-270,C:461-500
1d
1nzwD01
D:8-270,D:461-500
1e
1nzwE01
E:8-270,E:461-500
1f
1nzwF01
F:8-270,F:461-500
1g
1nzwG01
G:8-270,G:461-500
1h
1nzwH01
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
1nzwA02
A:271-460
2b
1nzwB02
B:271-460
2c
1nzwC02
C:271-460
2d
1nzwD02
D:271-460
2e
1nzwE02
E:271-460
2f
1nzwF02
F:271-460
2g
1nzwG02
G:271-460
2h
1nzwH02
H:271-460
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Pfam Domains
(1, 8)
Info
all PFAM domains
1a: PFAM_Aldedh_1nzwH01 (H:28-491)
1b: PFAM_Aldedh_1nzwH02 (H:28-491)
1c: PFAM_Aldedh_1nzwH03 (H:28-491)
1d: PFAM_Aldedh_1nzwH04 (H:28-491)
1e: PFAM_Aldedh_1nzwH05 (H:28-491)
1f: PFAM_Aldedh_1nzwH06 (H:28-491)
1g: PFAM_Aldedh_1nzwH07 (H:28-491)
1h: PFAM_Aldedh_1nzwH08 (H:28-491)
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Clan
:
ALDH-like
(49)
Family
:
Aldedh
(45)
Homo sapiens (Human)
(21)
1a
Aldedh-1nzwH01
H:28-491
1b
Aldedh-1nzwH02
H:28-491
1c
Aldedh-1nzwH03
H:28-491
1d
Aldedh-1nzwH04
H:28-491
1e
Aldedh-1nzwH05
H:28-491
1f
Aldedh-1nzwH06
H:28-491
1g
Aldedh-1nzwH07
H:28-491
1h
Aldedh-1nzwH08
H:28-491
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