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2D4E
Asym. Unit
Info
Asym.Unit (362 KB)
Biol.Unit 1 (356 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE HPCC FROM THERMUS THERMOPHILUS HB8
Authors
:
H. Mizutani, N. Kunishima, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date
:
18 Oct 05 (Deposition) - 18 Apr 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Hpcc, 5-Carboxymethyl-2-Hydroxymuconate Semialdehyde Dehydrogenase, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi, Oxidoreductase
(Keyword Search:
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Reference
:
H. Mizutani, N. Kunishima
Crystal Structure Of The Hpcc From Thermus Thermophilus Hb8
To Be Published
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Hetero Components
(3, 11)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
1c: GLYCEROL (GOLc)
3a: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADa)
3b: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADb)
2a: SODIUM ION (NAa)
2b: SODIUM ION (NAb)
2c: SODIUM ION (NAc)
2d: SODIUM ION (NAd)
3e: SODIUM ION (NAe)
3f: SODIUM ION (NAf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GOL
3
Ligand/Ion
GLYCEROL
2
NA
6
Ligand/Ion
SODIUM ION
3
NAD
2
Ligand/Ion
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
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Sites
(11, 11)
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)
View:
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
SER A:46 , LEU A:47 , ASP A:113 , TRP A:200 , HOH A:1932
BINDING SITE FOR RESIDUE NA A 1901
02
AC2
SOFTWARE
SER B:46 , LEU B:47 , ASP B:113 , TRP B:200 , HOH B:1907
BINDING SITE FOR RESIDUE NA B 1902
03
AC3
SOFTWARE
SER C:46 , LEU C:47 , ASP C:113 , TRP C:200 , HOH C:1912
BINDING SITE FOR RESIDUE NA C 1903
04
AC4
SOFTWARE
SER D:46 , LEU D:47 , ASP D:113 , TRP D:200 , HOH D:1976
BINDING SITE FOR RESIDUE NA D 1904
05
AC5
SOFTWARE
GLU C:250 , NAD C:1701
BINDING SITE FOR RESIDUE NA C 1905
06
AC6
SOFTWARE
GLU D:250 , NAD D:1702
BINDING SITE FOR RESIDUE NA D 1906
07
AC7
SOFTWARE
ILE C:169 , THR C:170 , PRO C:171 , TRP C:172 , LEU C:178 , LYS C:196 , PRO C:197 , ALA C:198 , GLU C:199 , GLY C:229 , GLY C:233 , ALA C:234 , THR C:248 , GLY C:249 , GLU C:250 , THR C:253 , ILE C:256 , GLU C:271 , LEU C:272 , GLY C:273 , CYS C:305 , GLU C:409 , PHE C:411 , PHE C:475 , NA C:1905 , HOH C:1929 , HOH C:2011 , HOH C:2016 , HOH C:2110 , HOH C:2120 , HOH C:2151 , HOH C:2173
BINDING SITE FOR RESIDUE NAD C 1701
08
AC8
SOFTWARE
ILE D:169 , THR D:170 , PRO D:171 , TRP D:172 , LEU D:178 , LYS D:196 , PRO D:197 , ALA D:198 , GLU D:199 , GLY D:229 , GLY D:233 , ALA D:234 , THR D:248 , GLY D:249 , GLU D:250 , THR D:253 , ILE D:256 , GLU D:271 , LEU D:272 , GLY D:273 , CYS D:305 , GLU D:409 , PHE D:411 , PHE D:475 , NA D:1906 , HOH D:1924 , HOH D:1961 , HOH D:2123 , HOH D:2131 , HOH D:2138 , HOH D:2167
BINDING SITE FOR RESIDUE NAD D 1702
09
AC9
SOFTWARE
ILE A:169 , GLY A:229 , GLY A:233 , THR A:253 , HOH A:1907 , HOH A:2017
BINDING SITE FOR RESIDUE GOL A 1801
10
BC1
SOFTWARE
GLY B:229 , GLY B:233 , THR B:253 , HOH B:1910 , HOH B:1943
BINDING SITE FOR RESIDUE GOL B 1802
11
BC2
SOFTWARE
ARG C:25 , PRO C:26 , LEU C:28 , PHE C:35 , THR C:206 , GLU C:210
BINDING SITE FOR RESIDUE GOL C 1803
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
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Exons
(0, 0)
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d2d4ea_ (A:)
1b: SCOP_d2d4eb_ (B:)
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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
:
automated matches
(88)
Protein domain
:
automated matches
(88)
Thermus thermophilus HB8 [TaxId: 300852]
(1)
1a
d2d4ea_
A:
1b
d2d4eb_
B:
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CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_2d4eA01 (A:10-273,A:471-515)
1b: CATH_2d4eB01 (B:10-273,B:471-515)
1c: CATH_2d4eC01 (C:10-273,C:471-515)
1d: CATH_2d4eD01 (D:10-273,D:471-515)
2a: CATH_2d4eA02 (A:274-470)
2b: CATH_2d4eB02 (B:274-470)
2c: CATH_2d4eC02 (C:274-470)
2d: CATH_2d4eD02 (D:274-470)
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Homologous Superfamilies
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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)
Thermus thermophilus hb8. Organism_taxid: 300852. Strain: hb8.
(9)
1a
2d4eA01
A:10-273,A:471-515
1b
2d4eB01
B:10-273,B:471-515
1c
2d4eC01
C:10-273,C:471-515
1d
2d4eD01
D:10-273,D:471-515
Topology
:
Aldehyde Dehydrogenase; Chain A, domain 2
(89)
Homologous Superfamily
:
Aldehyde Dehydrogenase; Chain A, domain 2
(89)
Thermus thermophilus hb8. Organism_taxid: 300852. Strain: hb8.
(9)
2a
2d4eA02
A:274-470
2b
2d4eB02
B:274-470
2c
2d4eC02
C:274-470
2d
2d4eD02
D:274-470
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Pfam Domains
(0, 0)
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Chain D
Asymmetric Unit 1
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select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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set fontsize 20
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Asym.Unit (362 KB)
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