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2EZ4
Asym. Unit
Info
Asym.Unit (212 KB)
Biol.Unit 1 (405 KB)
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(1)
Title
:
PYRUVATE OXIDASE VARIANT F479W
Authors
:
G. Wille, D. Meyer, A. Steinmetz, E. Hinze, R. Golbik, K. Tittmann
Date
:
10 Nov 05 (Deposition) - 25 Apr 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.03
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (2x)
Keywords
:
Tpp Enzyme, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
G. Wille, D. Meyer, A. Steinmetz, E. Hinze, R. Golbik, K. Tittmann
The Catalytic Cycle Of A Thiamin Diphosphate Enzyme Examine By Cryocrystallography.
Nat. Chem. Biol. V. 2 324 2006
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Hetero Components
(5, 10)
Info
All Hetero Components
1a: FLAVIN-ADENINE DINUCLEOTIDE (FADa)
1b: FLAVIN-ADENINE DINUCLEOTIDE (FADb)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
3a: SODIUM ION (NAa)
3b: SODIUM ION (NAb)
4a: PHOSPHATE ION (PO4a)
4b: PHOSPHATE ION (PO4b)
5a: THIAMINE DIPHOSPHATE (TPPa)
5b: THIAMINE DIPHOSPHATE (TPPb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
FAD
2
Ligand/Ion
FLAVIN-ADENINE DINUCLEOTIDE
2
MG
2
Ligand/Ion
MAGNESIUM ION
3
NA
2
Ligand/Ion
SODIUM ION
4
PO4
2
Ligand/Ion
PHOSPHATE ION
5
TPP
2
Ligand/Ion
THIAMINE DIPHOSPHATE
[
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Sites
(10, 10)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:447 , ASN A:474 , GLN A:476 , TPP A:1616 , HOH A:2098
BINDING SITE FOR RESIDUE MG A 1610
02
AC2
SOFTWARE
MET B:452 , GLN B:455 , HOH B:1688
BINDING SITE FOR RESIDUE NA B 1611
03
AC3
SOFTWARE
GLY A:34 , GLY A:35 , PHE A:121 , GLN A:122 , TRP A:479 , ILE A:480 , GLU A:483 , HOH A:1682 , HOH A:1920 , HOH A:2099
BINDING SITE FOR RESIDUE PO4 A 1612
04
AC4
SOFTWARE
ASP B:447 , ASN B:474 , GLN B:476 , TPP B:1618 , HOH B:2091
BINDING SITE FOR RESIDUE MG B 1613
05
AC5
SOFTWARE
MET A:452 , GLN A:455 , HOH A:1692
BINDING SITE FOR RESIDUE NA A 1614
06
AC6
SOFTWARE
GLY B:34 , GLY B:35 , GLN B:122 , TRP B:479 , ILE B:480 , GLU B:483 , HOH B:1671 , HOH B:2088
BINDING SITE FOR RESIDUE PO4 B 1615
07
AC7
SOFTWARE
PRO A:33 , GLU A:59 , SER A:82 , PRO A:85 , HIS A:89 , GLN A:122 , VAL A:394 , ASP A:396 , ALA A:420 , MET A:422 , GLY A:446 , ASP A:447 , GLY A:448 , GLY A:449 , ASN A:474 , GLN A:476 , TYR A:477 , GLY A:478 , TRP A:479 , ILE A:480 , MG A:1610 , HOH A:1619 , HOH A:1650 , HOH A:1653 , HOH A:1682 , HOH A:2098
BINDING SITE FOR RESIDUE TPP A 1616
08
AC8
SOFTWARE
HIS A:101 , PHE A:121 , GLY A:220 , ILE A:221 , GLY A:222 , THR A:244 , TYR A:245 , PRO A:246 , ALA A:262 , ASN A:263 , ARG A:264 , VAL A:265 , GLY A:284 , ASN A:285 , ASN A:286 , TYR A:287 , PRO A:288 , PHE A:289 , ASP A:306 , ILE A:307 , ASP A:308 , LYS A:311 , ASP A:325 , ALA A:326 , ASN A:398 , SER A:416 , ASN A:417 , HOH A:1634 , HOH A:1649 , HOH A:1664 , HOH A:1685 , HOH A:1917
BINDING SITE FOR RESIDUE FAD A 1617
09
AC9
SOFTWARE
PRO B:33 , GLU B:59 , SER B:82 , PRO B:85 , HIS B:89 , GLN B:122 , VAL B:394 , ASP B:396 , ALA B:420 , MET B:422 , GLY B:446 , ASP B:447 , GLY B:448 , GLY B:449 , ASN B:474 , GLN B:476 , TYR B:477 , GLY B:478 , TRP B:479 , ILE B:480 , MG B:1613 , HOH B:1623 , HOH B:1649 , HOH B:1657 , HOH B:1671 , HOH B:2091
BINDING SITE FOR RESIDUE TPP B 1618
10
BC1
SOFTWARE
HIS B:101 , PHE B:121 , GLY B:220 , ILE B:221 , GLY B:222 , THR B:244 , TYR B:245 , PRO B:246 , ALA B:262 , ASN B:263 , ARG B:264 , VAL B:265 , GLY B:284 , ASN B:285 , ASN B:286 , TYR B:287 , PRO B:288 , PHE B:289 , ASP B:306 , ILE B:307 , ASP B:308 , LYS B:311 , ALA B:324 , ASP B:325 , ALA B:326 , ASN B:398 , SER B:416 , ASN B:417 , HOH B:1637 , HOH B:1638 , HOH B:1669 , HOH B:1679 , HOH B:1975 , HOH B:2065
BINDING SITE FOR RESIDUE FAD B 1619
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: TPP_ENZYMES (A:430-449,B:430-449)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TPP_ENZYMES
PS00187
Thiamine pyrophosphate enzymes signature.
POXB_LACPL
430-449
2
A:430-449
B:430-449
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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.
SCOP Domains
(2, 6)
Info
All SCOP Domains
1a: SCOP_d2ez4a1 (A:183-365)
1b: SCOP_d2ez4b1 (B:183-365)
2a: SCOP_d2ez4a2 (A:9-182)
2b: SCOP_d2ez4b2 (B:9-182)
2c: SCOP_d2ez4b3 (B:366-593)
2d: SCOP_d2ez4a3 (A:366-593)
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
DHS-like NAD/FAD-binding domain
(176)
Superfamily
:
DHS-like NAD/FAD-binding domain
(176)
Family
:
Pyruvate oxidase and decarboxylase, middle domain
(74)
Protein domain
:
Pyruvate oxidase
(10)
Lactobacillus plantarum [TaxId: 1590]
(8)
1a
d2ez4a1
A:183-365
1b
d2ez4b1
B:183-365
Fold
:
Thiamin diphosphate-binding fold (THDP-binding)
(289)
Superfamily
:
Thiamin diphosphate-binding fold (THDP-binding)
(289)
Family
:
automated matches
(65)
Protein domain
:
automated matches
(65)
Lactobacillus plantarum [TaxId: 1590]
(6)
2a
d2ez4a2
A:9-182
2b
d2ez4b2
B:9-182
2c
d2ez4b3
B:366-593
2d
d2ez4a3
A:366-593
[
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CATH Domains
(2, 6)
Info
all CATH domains
1a: CATH_2ez4A03 (A:360-549)
1b: CATH_2ez4A01 (A:9-192)
1c: CATH_2ez4B01 (B:9-192)
1d: CATH_2ez4B03 (B:360-549)
2a: CATH_2ez4A02 (A:193-359)
2b: CATH_2ez4B02 (B:193-359)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.970, no name defined]
(144)
Lactobacillus plantarum. Organism_taxid: 1590.
(6)
1a
2ez4A03
A:360-549
1b
2ez4A01
A:9-192
1c
2ez4B01
B:9-192
1d
2ez4B03
B:360-549
Homologous Superfamily
:
TPP-binding domain
(120)
Lactobacillus plantarum. Organism_taxid: 1590.
(6)
2a
2ez4A02
A:193-359
2b
2ez4B02
B:193-359
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Asymmetric Unit 1
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