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2VWT
Asym. Unit
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Asym.Unit (137 KB)
Biol.Unit 1 (257 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF YFAU, A METAL ION DEPENDENT CLASS II ALDOLASE FROM ESCHERICHIA COLI K12 - MG-PYRUVATE PRODUCT COMPLEX
Authors
:
D. Rea, J. F. Rakus, J. A. Gerlt, V. Fulop, T. D. H. Bugg, D. I. Roper
Date
:
26 Jun 08 (Deposition) - 09 Sep 08 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.93
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (2x)
Keywords
:
Lyase, (Beta/Alpha)8 Barrel, 2-Keto-3-Deoxy Sugar Aldolase, Escherichia Coli K-12 Protein Yfau, Degradation Of Homoprotocatechuate, Pyruvate, Class Ii Aldolase
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Reference
:
D. Rea, R. Hovington, J. F. Rakus, J. A. Gerlt, V. Fulop, T. D. H. Bugg, D. I. Roper
Crystal Structure And Functional Assignment Of Yfau, A Metal Ion Dependent Class Ii Aldolase From Escherichia Coli K12.
Biochemistry V. 47 9955 2008
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Hetero Components
(4, 10)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
2c: MAGNESIUM ION (MGc)
3a: PHOSPHATE ION (PO4a)
3b: PHOSPHATE ION (PO4b)
3c: PHOSPHATE ION (PO4c)
4a: PYRUVIC ACID (PYRa)
4b: PYRUVIC ACID (PYRb)
4c: PYRUVIC ACID (PYRc)
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Label:
No.
Name
Count
Type
Full Name
1
GOL
1
Ligand/Ion
GLYCEROL
2
MG
3
Ligand/Ion
MAGNESIUM ION
3
PO4
3
Ligand/Ion
PHOSPHATE ION
4
PYR
3
Ligand/Ion
PYRUVIC ACID
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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)
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLN A:151 , GLU A:153 , ASP A:179 , PYR A:302 , HOH A:2040 , HOH A:2154
BINDING SITE FOR RESIDUE MG A 301
02
AC2
SOFTWARE
ARG A:74 , GLN A:151 , GLU A:153 , PHE A:174 , GLY A:176 , PRO A:177 , ALA A:178 , ASP A:179 , LEU A:216 , MG A:301
BINDING SITE FOR RESIDUE PYR A 302
03
AC3
SOFTWARE
GLN B:151 , GLU B:153 , ASP B:179 , PYR B:302 , HOH B:2035 , HOH C:2094
BINDING SITE FOR RESIDUE MG B 301
04
AC4
SOFTWARE
ARG B:74 , GLN B:151 , GLU B:153 , PHE B:174 , GLY B:176 , PRO B:177 , ALA B:178 , ASP B:179 , MG B:301 , HOH C:2094
BINDING SITE FOR RESIDUE PYR B 302
05
AC5
SOFTWARE
HOH A:2112 , GLN C:151 , GLU C:153 , ASP C:179 , PYR C:302 , HOH C:2112
BINDING SITE FOR RESIDUE MG C 301
06
AC6
SOFTWARE
ARG C:74 , GLN C:151 , GLU C:153 , GLY C:176 , PRO C:177 , ALA C:178 , ASP C:179 , LEU C:216 , MG C:301
BINDING SITE FOR RESIDUE PYR C 302
07
AC7
SOFTWARE
THR A:27 , ALA A:29 , ASP A:56 , HIS A:59 , HOH A:2201 , HOH A:2202 , HOH A:2203
BINDING SITE FOR RESIDUE PO4 A1257
08
AC8
SOFTWARE
THR B:27 , ALA B:29 , ASP B:56 , HIS B:59 , HOH B:2178 , HOH B:2179
BINDING SITE FOR RESIDUE PO4 B1257
09
AC9
SOFTWARE
THR C:27 , THR C:28 , ALA C:29 , ASP C:56 , HIS C:59 , HOH C:2157 , HOH C:2158
BINDING SITE FOR RESIDUE PO4 C1257
10
BC1
SOFTWARE
GLY C:78 , PRO C:97 , MET C:98 , GLN C:104
BINDING SITE FOR RESIDUE GOL C1258
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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PROSITE Patterns/Profiles
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Exons
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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, 3)
Info
All SCOP Domains
1a: SCOP_d2vwta_ (A:)
1b: SCOP_d2vwtb_ (B:)
1c: SCOP_d2vwtc_ (C:)
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Protein Domains
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Organisms
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Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Phosphoenolpyruvate/pyruvate domain
(92)
Family
:
automated matches
(16)
Protein domain
:
automated matches
(16)
Escherichia coli K-12 [TaxId: 83333]
(2)
1a
d2vwta_
A:
1b
d2vwtb_
B:
1c
d2vwtc_
C:
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CATH Domains
(0, 0)
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Pfam Domains
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Asymmetric Unit 1
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Asym.Unit (137 KB)
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