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3HY8
Biol. Unit 1
Info
Asym.Unit (44 KB)
Biol.Unit 1 (76 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN PYRIDOXINE 5'-PHOSPHATE OXIDASE R229W MUTANT
Authors
:
M. K. Safo, F. N. Musayev, M. L. Di Salvo, M. K. Saavedra, V. Schirch
Date
:
22 Jun 09 (Deposition) - 28 Jul 09 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A
Biol. Unit 1: A (2x)
Keywords
:
Fmn Binding Protein, Oxidase, Disease Mutation, Epilepsy, Flavoprotein, Fmn, Oxidoreductase, Phosphoprotein, Pyridoxal Phosphate, Pyridoxine Biosynthesis
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
F. N. Musayev, M. L. Di Salvo, M. A. Saavedra, R. Contestabile, M. S. Ghatge, A. Haynes, V. Schirch, M. K. Safo
Molecular Basis Of Reduced Pyridoxine 5'-Phosphate Oxidase Catalytic Activity In Neonatal Epileptic Encephalopathy Disorder
J. Biol. Chem. V. 284 30949 2009
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Hetero Components
(3, 10)
Info
All Hetero Components
1a: FLAVIN MONONUCLEOTIDE (FMNa)
2a: PYRIDOXAL-5'-PHOSPHATE (PLPa)
3a: PHOSPHATE ION (PO4a)
3b: PHOSPHATE ION (PO4b)
3c: PHOSPHATE ION (PO4c)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
FMN
2
Ligand/Ion
FLAVIN MONONUCLEOTIDE
2
PLP
2
Ligand/Ion
PYRIDOXAL-5'-PHOSPHATE
3
PO4
6
Ligand/Ion
PHOSPHATE ION
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Sites
(5, 5)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ARG A:95 , MET A:96 , LEU A:97 , LEU A:98 , PHE A:110 , THR A:111 , SER A:115 , ARG A:116 , LYS A:117 , TYR A:132 , GLN A:139 , ARG A:141 , GLN A:174 , TRP A:219 , TRP A:229 , HOH A:308 , PLP A:350 , PO4 A:370
BINDING SITE FOR RESIDUE FMN A 390
2
AC2
SOFTWARE
GLU A:77 , LEU A:98 , LYS A:100 , ARG A:161 , PRO A:162 , SER A:165 , TRP A:219 , ARG A:225 , HIS A:227 , FMN A:390
BINDING SITE FOR RESIDUE PLP A 350
3
AC3
SOFTWARE
LYS A:100 , GLY A:101 , ARG A:108 , PHE A:110 , GLU A:153 , TYR A:157
BINDING SITE FOR RESIDUE PO4 A 360
4
AC4
SOFTWARE
ARG A:116 , ARG A:141 , GLU A:143 , GLU A:217 , TRP A:229 , FMN A:390
BINDING SITE FOR RESIDUE PO4 A 370
5
AC5
SOFTWARE
SER A:55 , LYS A:60 , GLU A:251 , HOH A:297 , HOH A:320
BINDING SITE FOR RESIDUE PO4 A 380
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SAPs(SNPs)/Variants
(3, 6)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_029358 (E50K, chain A, )
2: VAR_029359 (R116Q, chain A, )
3: VAR_029360 (W229W, chain A, )
View:
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Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_029358
E
50
K
PNPO_HUMAN
Polymorphism
---
A
E
50
K
2
UniProt
VAR_029359
R
116
Q
PNPO_HUMAN
Polymorphism
17679445
A
R
116
Q
3
UniProt
VAR_029360
R
229
W
PNPO_HUMAN
Disease (PNPO deficiency)
104894629
A
W
229
W
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: PYRIDOX_OXIDASE (A:216-228)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PYRIDOX_OXIDASE
PS01064
Pyridoxamine 5'-phosphate oxidase signature.
PNPO_HUMAN
216-229
2
A:216-228
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d3hy8a_ (A:)
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(
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Folds
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Protein Domains
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)
(
)
Organisms
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)
(
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Class
:
All beta proteins
(24004)
Fold
:
Split barrel-like
(99)
Superfamily
:
FMN-binding split barrel
(90)
Family
:
PNP-oxidase like
(53)
Protein domain
:
automated matches
(7)
Human (Homo sapiens) [TaxId: 9606]
(2)
1a
d3hy8a_
A:
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_3hy8A00 (A:48-261)
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Homologous Superfamilies
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)
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)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Roll
(1513)
Topology
:
Pnp Oxidase; Chain A
(68)
Homologous Superfamily
:
Electron Transport, Fmn-binding Protein; Chain A
(67)
Human (Homo sapiens)
(2)
1a
3hy8A00
A:48-261
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Chain A
Asymmetric Unit 1
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Asym.Unit (44 KB)
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