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3O05
Biol. Unit 1
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Asym.Unit (132 KB)
Biol.Unit 1 (251 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF YEAST PYRIDOXAL 5-PHOSPHATE SYNTHASE SNZ1 COMPLXED WITH SUBSTRATE PLP
Authors
:
Y. B. Teng, X. Zhang, Y. X. He, H. X. Hu, C. Z. Zhou
Date
:
19 Jul 10 (Deposition) - 24 Nov 10 (Release) - 26 Mar 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (2x)
Keywords
:
Beta Slash Alpha Barrel, (Beat/Alpha)8-Barrel, Pyridoxal 5-Phosphate Synthase, Plp G3P Rbp Sno1, Biosynthetic Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
X. Zhang, Y. B. Teng, J. P. Liu, Y. X. He, K. Zhou, Y. Chen, C. Z. Zhou
Structural Insights Into The Catalytic Mechanism Of The Yeast Pyridoxal 5-Phosphate Synthase Snz1
Biochem. J. V. 432 445 2010
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Hetero Components
(1, 6)
Info
All Hetero Components
1a: PYRIDOXAL-5'-PHOSPHATE (PLPa)
1b: PYRIDOXAL-5'-PHOSPHATE (PLPb)
1c: PYRIDOXAL-5'-PHOSPHATE (PLPc)
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No.
Name
Count
Type
Full Name
1
PLP
6
Ligand/Ion
PYRIDOXAL-5'-PHOSPHATE
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Sites
(3, 3)
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All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLU A:104 , TRP A:111 , HIS A:114 , ARG A:136 , ARG A:137 , LYS A:148 , ARG A:190 , HOH A:335 , HOH A:384 , HOH A:404
BINDING SITE FOR RESIDUE PLP A 1
2
AC2
SOFTWARE
ILE B:83 , GLU B:104 , TRP B:111 , HIS B:114 , LYS B:129 , GLU B:133 , ARG B:136 , ARG B:137 , LYS B:148 , HOH B:309 , HOH B:354 , HOH B:371 , HOH B:373 , HOH B:379
BINDING SITE FOR RESIDUE PLP B 1
3
AC3
SOFTWARE
GLU C:104 , TRP C:111 , HIS C:114 , LYS C:129 , GLU C:133 , ARG C:136 , ARG C:137 , LYS C:148 , HOH C:351 , HOH C:353 , HOH C:361 , HOH C:391
BINDING SITE FOR RESIDUE PLP C 1
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SAPs(SNPs)/Variants
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PROSITE Patterns/Profiles
(1, 6)
Info
All PROSITE Patterns/Profiles
1: PDXS_SNZ_1 (A:205-223,B:205-223,C:205-223)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PDXS_SNZ_1
PS01235
PdxS/SNZ family signature.
SNZ1_YEAST
205-223
6
A:205-223
B:205-223
C:205-223
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Exons
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
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SCOP Domains
(1, 3)
Info
All SCOP Domains
1a: SCOP_d3o05a_ (A:)
1b: SCOP_d3o05b_ (B:)
1c: SCOP_d3o05c_ (C:)
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Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Ribulose-phoshate binding barrel
(356)
Family
:
automated matches
(38)
Protein domain
:
automated matches
(38)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(4)
1a
d3o05a_
A:
1b
d3o05b_
B:
1c
d3o05c_
C:
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CATH Domains
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Pfam Domains
(1, 3)
Info
all PFAM domains
1a: PFAM_SOR_SNZ_3o05C01 (C:15-212)
1b: PFAM_SOR_SNZ_3o05C02 (C:15-212)
1c: PFAM_SOR_SNZ_3o05C03 (C:15-212)
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Clan
:
TIM_barrel
(694)
Family
:
SOR_SNZ
(6)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(3)
1a
SOR_SNZ-3o05C01
C:15-212
1b
SOR_SNZ-3o05C02
C:15-212
1c
SOR_SNZ-3o05C03
C:15-212
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Asym.Unit (132 KB)
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