PLEASE WAIT...
Getting 'Biological Unit' information from database.
PLEASE WAIT...
Getting 'Hetero Component' information from database.
PLEASE WAIT...
Getting 'Site' information from database.
PLEASE WAIT...
Getting 'PROSITE' information from database.
3N82
Biol. Unit 1
Info
Asym.Unit (681 KB)
Biol.Unit 1 (342 KB)
Biol.Unit 2 (340 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
T244A MUTANT OF HUMAN MITOCHONDRIAL ALDEHYDE DEHYDROGENASE, NADH COMPLEX
Authors
:
L. Gonzalez-Segura, T. D. Hurley
Date
:
27 May 10 (Deposition) - 13 Apr 11 (Release) - 13 Apr 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.25
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
:
Oxidoreductase, Aldh, Rossmann Fold
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. -K. Ho, L. Gonzalez-Segura, S. Perez-Miller, H. Weiner, T. D. Hurle
Conformational Selection During Catalysis: The Role Of Threonine 244 In Aldh2
To Be Published
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(3, 21)
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)
1v: 1,2-ETHANEDIOL (EDOv)
1w: 1,2-ETHANEDIOL (EDOw)
1x: 1,2-ETHANEDIOL (EDOx)
2a: GUANIDINE (GAIa)
2b: GUANIDINE (GAIb)
2c: GUANIDINE (GAIc)
2d: GUANIDINE (GAId)
2e: GUANIDINE (GAIe)
2f: GUANIDINE (GAIf)
2g: GUANIDINE (GAIg)
2h: GUANIDINE (GAIh)
2i: GUANIDINE (GAIi)
2j: GUANIDINE (GAIj)
2k: GUANIDINE (GAIk)
2l: GUANIDINE (GAIl)
2m: GUANIDINE (GAIm)
3a: MAGNESIUM ION (MGa)
3b: MAGNESIUM ION (MGb)
3c: MAGNESIUM ION (MGc)
3d: MAGNESIUM ION (MGd)
3e: MAGNESIUM ION (MGe)
3f: MAGNESIUM ION (MGf)
3g: MAGNESIUM ION (MGg)
3h: MAGNESIUM ION (MGh)
5a: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADa)
5b: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADb)
5c: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADc)
5d: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADd)
5e: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADe)
5f: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADf)
5g: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADg)
5h: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADh)
4a: SODIUM ION (NAa)
4b: SODIUM ION (NAb)
4c: SODIUM ION (NAc)
4d: SODIUM ION (NAd)
5e: SODIUM ION (NAe)
5f: SODIUM ION (NAf)
5g: SODIUM ION (NAg)
5h: SODIUM ION (NAh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDO
11
Ligand/Ion
1,2-ETHANEDIOL
2
GAI
6
Ligand/Ion
GUANIDINE
3
MG
-1
Ligand/Ion
MAGNESIUM ION
4
NA
-1
Ligand/Ion
SODIUM ION
5
NAD
4
Ligand/Ion
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
[
close Hetero Component info
]
Sites
(30, 30)
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)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: FC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
NAD A:501
BINDING SITE FOR RESIDUE MG A 601
02
AC2
SOFTWARE
THR A:39 , VAL A:40 , ASP A:109 , GLN A:196
BINDING SITE FOR RESIDUE NA A 701
03
AC3
SOFTWARE
GLU A:157 , PRO A:158 , VAL A:159 , HOH A:808 , TYR B:468
BINDING SITE FOR RESIDUE GAI A 801
04
AC4
SOFTWARE
TYR A:153 , ARG A:155 , SER B:443 , PHE D:151
BINDING SITE FOR RESIDUE EDO A 901
05
AC5
SOFTWARE
GLN A:14 , ASN A:41 , THR A:44 , GLU A:46 , ILE A:48
BINDING SITE FOR RESIDUE EDO A 911
06
AC6
SOFTWARE
PHE A:18 , ASP A:98 , TYR A:101 , TYR A:203 , HOH A:971
BINDING SITE FOR RESIDUE EDO A 921
07
AC7
SOFTWARE
ILE A:165 , ILE A:166 , PRO A:167 , TRP A:168 , ASN A:169 , LYS A:192 , ALA A:194 , GLU A:195 , GLY A:225 , GLY A:229 , ALA A:230 , PHE A:243 , GLY A:245 , SER A:246 , ILE A:249 , ILE A:253 , GLU A:268 , LEU A:269 , CYS A:302 , GLN A:349 , GLU A:399 , PHE A:401 , HOH A:539 , HOH A:549 , MG A:601 , HOH A:2201 , HOH A:2394
BINDING SITE FOR RESIDUE NAD A 501
08
AC8
SOFTWARE
NAD B:502
BINDING SITE FOR RESIDUE MG B 602
09
AC9
SOFTWARE
THR B:39 , VAL B:40 , ASP B:109 , GLN B:196 , HOH B:1956
BINDING SITE FOR RESIDUE NA B 702
10
BC1
SOFTWARE
GLU B:157 , PRO B:158 , VAL B:159 , HOH B:525
BINDING SITE FOR RESIDUE GAI B 802
11
BC2
SOFTWARE
PHE A:459 , HOH A:608 , ASP B:147
BINDING SITE FOR RESIDUE GAI B 812
12
BC3
SOFTWARE
SER A:443 , TYR B:153 , ARG B:155 , PHE C:151
BINDING SITE FOR RESIDUE EDO B 902
13
BC4
SOFTWARE
GLN B:14 , ASN B:41 , THR B:44 , VAL B:47
BINDING SITE FOR RESIDUE EDO B 912
14
BC5
SOFTWARE
ILE B:165 , ILE B:166 , PRO B:167 , TRP B:168 , LYS B:192 , ALA B:194 , GLU B:195 , GLN B:196 , 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 , LEU B:269 , CYS B:302 , GLN B:349 , GLU B:399 , PHE B:401 , MG B:602 , HOH B:910 , HOH B:1922
BINDING SITE FOR RESIDUE NAD B 502
15
BC6
SOFTWARE
NAD C:503 , HOH C:1222 , HOH C:1286
BINDING SITE FOR RESIDUE MG C 603
16
BC7
SOFTWARE
THR C:39 , VAL C:40 , ASP C:109 , GLN C:196 , HOH C:1718
BINDING SITE FOR RESIDUE NA C 703
17
BC8
SOFTWARE
GLU C:157 , PRO C:158 , VAL C:159 , HOH C:678 , HOH C:846 , TYR D:468
BINDING SITE FOR RESIDUE GAI C 803
18
BC9
SOFTWARE
PHE B:151 , TYR C:153 , ARG C:155 , SER D:443
BINDING SITE FOR RESIDUE EDO C 903
19
CC1
SOFTWARE
ASN C:41 , THR C:44 , GLU C:46 , LEU C:108 , HOH C:2127
BINDING SITE FOR RESIDUE EDO C 913
20
CC2
SOFTWARE
PHE C:18 , TYR C:101 , TYR C:203 , HOH C:1464
BINDING SITE FOR RESIDUE EDO C 923
21
CC3
SOFTWARE
GLU C:347 , PHE C:350 , GLY F:45
BINDING SITE FOR RESIDUE EDO C 963
22
CC4
SOFTWARE
ILE C:165 , ILE C:166 , PRO C:167 , TRP C:168 , LYS C:192 , ALA C:194 , GLU C:195 , GLN C:196 , GLY C:225 , GLY C:229 , ALA C:230 , PHE C:243 , GLY C:245 , SER C:246 , ILE C:249 , ILE C:253 , GLU C:268 , LEU C:269 , CYS C:302 , GLN C:349 , LYS C:352 , GLU C:399 , PHE C:401 , MG C:603 , HOH C:1222 , HOH C:1279 , HOH C:1286 , HOH C:1452 , HOH C:1602 , HOH C:2005
BINDING SITE FOR RESIDUE NAD C 503
23
CC5
SOFTWARE
NAD D:504
BINDING SITE FOR RESIDUE MG D 604
24
CC6
SOFTWARE
THR D:39 , VAL D:40 , ASP D:109 , GLN D:196 , HOH D:2424
BINDING SITE FOR RESIDUE NA D 704
25
CC7
SOFTWARE
TYR C:468 , GLU D:157 , PRO D:158 , VAL D:159
BINDING SITE FOR RESIDUE GAI D 804
26
CC8
SOFTWARE
VAL C:458 , PHE C:459 , ASP D:147 , PHE D:150
BINDING SITE FOR RESIDUE GAI D 814
27
CC9
SOFTWARE
PHE A:151 , SER C:443 , TYR D:153 , ARG D:155 , HOH D:2650
BINDING SITE FOR RESIDUE EDO D 904
28
DC1
SOFTWARE
GLU D:414 , VAL D:417 , TYR D:441 , LYS G:361 , HOH G:2498
BINDING SITE FOR RESIDUE EDO D 944
29
DC2
SOFTWARE
ILE D:165 , ILE D:166 , PRO D:167 , TRP D:168 , ASN D:169 , LYS D:192 , ALA D:194 , GLU D:195 , GLN D:196 , GLY D:225 , GLY D:229 , ALA D:230 , PHE D:243 , GLY D:245 , SER D:246 , ILE D:249 , ILE D:253 , GLU D:268 , LEU D:269 , CYS D:302 , GLN D:349 , LYS D:352 , GLU D:399 , PHE D:401 , HOH D:540 , MG D:604 , HOH D:767 , HOH D:1568 , HOH D:1917 , HOH D:2380
BINDING SITE FOR RESIDUE NAD D 504
30
FC1
SOFTWARE
GLY C:45 , GLU F:347 , PHE F:350 , GAI F:826
BINDING SITE FOR RESIDUE EDO F 966
[
close Site info
]
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)
[
close SNP/Variant info
]
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:
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
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
-
-
-
-
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
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, 8)
Info
All SCOP Domains
1a: SCOP_d3n82a_ (A:)
1b: SCOP_d3n82b_ (B:)
1c: SCOP_d3n82c_ (C:)
1d: SCOP_d3n82d_ (D:)
1e: SCOP_d3n82e_ (E:)
1f: SCOP_d3n82f_ (F:)
1g: SCOP_d3n82g_ (G:)
1h: SCOP_d3n82h_ (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
d3n82a_
A:
1b
d3n82b_
B:
1c
d3n82c_
C:
1d
d3n82d_
D:
1e
d3n82e_
E:
1f
d3n82f_
F:
1g
d3n82g_
G:
1h
d3n82h_
H:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(1, 8)
Info
all PFAM domains
1a: PFAM_Aldedh_3n82H01 (H:28-491)
1b: PFAM_Aldedh_3n82H02 (H:28-491)
1c: PFAM_Aldedh_3n82H03 (H:28-491)
1d: PFAM_Aldedh_3n82H04 (H:28-491)
1e: PFAM_Aldedh_3n82H05 (H:28-491)
1f: PFAM_Aldedh_3n82H06 (H:28-491)
1g: PFAM_Aldedh_3n82H07 (H:28-491)
1h: PFAM_Aldedh_3n82H08 (H:28-491)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
ALDH-like
(49)
Family
:
Aldedh
(45)
Homo sapiens (Human)
(21)
1a
Aldedh-3n82H01
H:28-491
1b
Aldedh-3n82H02
H:28-491
1c
Aldedh-3n82H03
H:28-491
1d
Aldedh-3n82H04
H:28-491
1e
Aldedh-3n82H05
H:28-491
1f
Aldedh-3n82H06
H:28-491
1g
Aldedh-3n82H07
H:28-491
1h
Aldedh-3n82H08
H:28-491
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Chain B
Chain C
Chain D
Asymmetric Unit 1
Rendering
(selected part)
Molecule Coloring
(selected part)
by Chain (Asym. Unit)
by Chain (Biol. Unit)
by Secondary Structure
by Atom (CPK)
by SCOP Domain
by CATH Domain
by Pfam Domain
by Asymmetric Unit
by Exon
by Amino Acid
by Nucleotide
by Temperature
by Charge
by Rainbow (Group)
by Custom Color
Background Coloring
Choose
molecule
background
color...
[
close
]
RGB value
(e.g.: "#3cb371" or "60,179,113")
Stereo
Graphics Window
x
pixel
Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
[
close Script example commands
]
Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
QuickSearch:
by PDB,NDB,UniProt,PROSITE Code or
Search Term(s)
Show PDB file:
Asym.Unit (681 KB)
Header - Asym.Unit
Biol.Unit 1 (342 KB)
Header - Biol.Unit 1
Biol.Unit 2 (340 KB)
Header - Biol.Unit 2
Plain Text
HTML (compressed size)
use JSmol [Javascript]
use Jmol [Java applet]
Upload:
Select a local file
OR
Enter a remote file address
You can upload any molecular structure file format that is recognized by Jmol,
e.g.: PDB, mmCif, CIF, CML, MOL, XYZ
(also compressed with 'gzip', see the
Jmol documentation
for a complete list)
JenaLib Atlas Page
|
Sequence/Alignment View
3N82
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help