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3QU2
Biol. Unit 3
Info
Asym.Unit (166 KB)
Biol.Unit 1 (82 KB)
Biol.Unit 2 (120 KB)
Biol.Unit 3 (120 KB)
Biol.Unit 4 (120 KB)
Biol.Unit 5 (158 KB)
Biol.Unit 6 (158 KB)
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Title
:
CRYSTAL STRUCTURE OF PYROPHOSPHATASE FROM BACTEROIDES THETAIOTAOMICRON, A CLOSED CAP CONFORMATION
Authors
:
Y. Patskovsky, H. Huang, R. Toro, J. A. Gerlt, S. K. Burley, D. Dunaway-M S. C. Almo, New York Sgx Research Center For Structural Genomi (Nysgxrc), Enzyme Function Initiative (Efi)
Date
:
23 Feb 11 (Deposition) - 27 Apr 11 (Release) - 16 Nov 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.95
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,D (1x)
Biol. Unit 2: A,B,D (1x)
Biol. Unit 3: B,C,D (1x)
Biol. Unit 4: B,C,D (1x)
Biol. Unit 5: A,B,C,D (1x)
Biol. Unit 6: A,B,C,D (1x)
Keywords
:
Hydrolase, Pyrophosphatase, Magnesium Binding Site, New York Sgx Research Center For Structural Genomics, Nysgxrc, Enzyme Function Initiative, Efi, Psi-2, Protein Structure Initiative
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. Huang, Y. Patskovsky, R. Toro, J. D. Farelli, C. Pandya, S. C. Almo, K. N. Allen, D. Dunaway-Mariano
Divergence Of Structure And Function In The Haloacid Dehalogenase Enzyme Superfamily: Bacteroides Thetaiotaomicron Bt2127 Is An Inorganic Pyrophosphatase.
Biochemistry V. 50 8937 2011
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Hetero Components
(1, 7)
Info
All Hetero Components
1a: CITRIC ACID (CITa)
2a: CHLORIDE ION (CLa)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
3d: GLYCEROL (GOLd)
3e: GLYCEROL (GOLe)
3f: GLYCEROL (GOLf)
3g: GLYCEROL (GOLg)
3h: GLYCEROL (GOLh)
4a: MAGNESIUM ION (MGa)
4b: MAGNESIUM ION (MGb)
4c: MAGNESIUM ION (MGc)
4d: MAGNESIUM ION (MGd)
View:
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Label:
No.
Name
Count
Type
Full Name
1
CIT
-1
Ligand/Ion
CITRIC ACID
2
CL
-1
Ligand/Ion
CHLORIDE ION
3
GOL
7
Ligand/Ion
GLYCEROL
4
MG
-1
Ligand/Ion
MAGNESIUM ION
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Sites
(12, 12)
Info
All Sites
01: AC2 (SOFTWARE)
02: AC3 (SOFTWARE)
03: AC4 (SOFTWARE)
04: AC5 (SOFTWARE)
05: AC6 (SOFTWARE)
06: AC7 (SOFTWARE)
07: AC8 (SOFTWARE)
08: AC9 (SOFTWARE)
09: BC1 (SOFTWARE)
10: BC2 (SOFTWARE)
11: BC4 (SOFTWARE)
12: BC5 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
01
AC2
SOFTWARE
ASN A:191 , GLY A:197 , PRO A:210 , HOH A:234 , HOH A:598 , LEU D:208
BINDING SITE FOR RESIDUE GOL A 226
02
AC3
SOFTWARE
ASP B:11 , ASP B:13 , GLU B:47 , ASN B:172 , HOH B:263 , HOH B:276
BINDING SITE FOR RESIDUE MG B 225
03
AC4
SOFTWARE
ASP B:13 , TRP B:27 , GLY B:48 , ARG B:49 , CL B:228 , HOH B:263 , HOH B:284 , HOH B:487
BINDING SITE FOR RESIDUE GOL B 226
04
AC5
SOFTWARE
ASN B:191 , GLY B:197 , LEU B:208 , PRO B:210 , HOH B:255 , HOH B:600 , HOH B:736 , LEU C:208
BINDING SITE FOR RESIDUE GOL B 227
05
AC6
SOFTWARE
ASP C:11 , ASP C:13 , GLU C:47 , ASN C:172 , HOH C:568 , HOH C:569
BINDING SITE FOR RESIDUE MG C 225
06
AC7
SOFTWARE
ASP D:11 , ASP D:13 , GLU D:47 , ASN D:172 , HOH D:272
BINDING SITE FOR RESIDUE MG D 225
07
AC8
SOFTWARE
ASP D:13 , HIS D:23 , TRP D:27 , GLY D:48 , ARG D:49 , HOH D:241 , HOH D:272 , HOH D:410 , HOH D:603
BINDING SITE FOR RESIDUE GOL D 226
08
AC9
SOFTWARE
LEU A:208 , ASN D:191 , GLY D:197 , PRO D:210 , HOH D:257 , HOH D:269
BINDING SITE FOR RESIDUE GOL D 227
09
BC1
SOFTWARE
LEU D:121 , GLU D:125 , PHE D:132 , LYS D:134 , MET D:137 , HOH D:432
BINDING SITE FOR RESIDUE GOL D 228
10
BC2
SOFTWARE
ASP B:11 , GLY B:114 , LYS B:147 , GOL B:226 , HOH B:487
BINDING SITE FOR RESIDUE CL B 228
11
BC4
SOFTWARE
LEU B:208 , ASN C:191 , GLY C:197 , PRO C:210 , HOH C:279 , HOH C:737
BINDING SITE FOR RESIDUE GOL C 226
12
BC5
SOFTWARE
ASP C:13 , HIS C:23 , TRP C:27 , GLY C:48 , ARG C:49 , HOH C:568 , HOH C:734
BINDING SITE FOR RESIDUE GOL C 227
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d3qu2a_ (A:)
1b: SCOP_d3qu2b_ (B:)
1c: SCOP_d3qu2c_ (C:)
1d: SCOP_d3qu2d_ (D:)
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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
HAD-like
(349)
Superfamily
:
HAD-like
(349)
Family
:
automated matches
(99)
Protein domain
:
automated matches
(99)
Bacteroides thetaiotaomicron [TaxId: 818]
(21)
1a
d3qu2a_
A:
1b
d3qu2b_
B:
1c
d3qu2c_
C:
1d
d3qu2d_
D:
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CATH Domains
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_HAD_2_3qu2D01 (D:8-190)
1b: PFAM_HAD_2_3qu2D02 (D:8-190)
1c: PFAM_HAD_2_3qu2D03 (D:8-190)
1d: PFAM_HAD_2_3qu2D04 (D:8-190)
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Clan
:
HAD
(186)
Family
:
HAD_2
(33)
Bacteroides thetaiotaomicron
(14)
1a
HAD_2-3qu2D01
D:8-190
1b
HAD_2-3qu2D02
D:8-190
1c
HAD_2-3qu2D03
D:8-190
1d
HAD_2-3qu2D04
D:8-190
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Asymmetric Unit 1
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Show PDB file:
Asym.Unit (166 KB)
Header - Asym.Unit
Biol.Unit 1 (82 KB)
Header - Biol.Unit 1
Biol.Unit 2 (120 KB)
Header - Biol.Unit 2
Biol.Unit 3 (120 KB)
Header - Biol.Unit 3
Biol.Unit 4 (120 KB)
Header - Biol.Unit 4
Biol.Unit 5 (158 KB)
Header - Biol.Unit 5
Biol.Unit 6 (158 KB)
Header - Biol.Unit 6
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