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3ETH
Asym. Unit
Info
Asym.Unit (134 KB)
Biol.Unit 1 (129 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF E. COLI PURK IN COMPLEX WITH MGATP
Authors
:
H. M. Holden, J. B. Thoden
Date
:
08 Oct 08 (Deposition) - 21 Oct 08 (Release) - 09 Jun 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.60
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Atp-Grasp, Purine Biosynthesis, Antimicrobial, Atp-Binding, Decarboxylase, Lyase, Nucleotide-Binding
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. B. Thoden, H. M. Holden, S. M. Firestine
Structural Analysis Of The Active Site Geometry Of N(5)-Carboxyaminoimidazole Ribonucleotide Synthetase From Escherichia Coli.
Biochemistry V. 47 13346 2008
(for further references see the
PDB file header
)
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Hetero Components
(2, 6)
Info
All Hetero Components
1a: ADENOSINE-5'-TRIPHOSPHATE (ATPa)
1b: ADENOSINE-5'-TRIPHOSPHATE (ATPb)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
2c: MAGNESIUM ION (MGc)
2d: MAGNESIUM ION (MGd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ATP
2
Ligand/Ion
ADENOSINE-5'-TRIPHOSPHATE
2
MG
4
Ligand/Ion
MAGNESIUM ION
[
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Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
View:
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ARG A:80 , ILE A:118 , LYS A:120 , GLY A:125 , TYR A:126 , ASP A:127 , GLY A:128 , GLN A:131 , GLU A:153 , GLN A:154 , ILE A:156 , PHE A:158 , GLU A:161 , HIS A:184 , GLU A:226 , PHE A:228 , ASN A:237 , GLU A:238 , MG A:401 , MG A:402 , HOH A:664 , HOH A:733 , HOH A:734 , HOH A:735 , HOH A:736 , HOH A:737 , HOH A:738 , HOH A:739 , HOH A:740
BINDING SITE FOR RESIDUE ATP A 400
2
AC2
SOFTWARE
GLU A:226 , GLU A:238 , ATP A:400 , MG A:402 , HOH A:738
BINDING SITE FOR RESIDUE MG A 401
3
AC3
SOFTWARE
GLU A:238 , ATP A:400 , MG A:401 , HOH A:734 , HOH A:736
BINDING SITE FOR RESIDUE MG A 402
4
AC4
SOFTWARE
ARG B:80 , ILE B:118 , LYS B:120 , GLY B:125 , TYR B:126 , ASP B:127 , GLY B:128 , GLN B:131 , GLU B:153 , GLN B:154 , GLY B:155 , ILE B:156 , PHE B:158 , GLU B:161 , HIS B:184 , GLU B:226 , PHE B:228 , ASN B:237 , GLU B:238 , MG B:401 , MG B:402 , HOH B:524 , HOH B:525 , HOH B:528 , HOH B:649 , HOH B:651 , HOH B:652 , HOH B:653 , HOH B:658 , HOH B:685
BINDING SITE FOR RESIDUE ATP B 400
5
AC5
SOFTWARE
GLU B:226 , GLU B:238 , ATP B:400 , HOH B:651
BINDING SITE FOR RESIDUE MG B 401
6
AC6
SOFTWARE
GLU B:238 , ATP B:400 , HOH B:652 , HOH B:653
BINDING SITE FOR RESIDUE MG B 402
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
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;
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Exons
(0, 0)
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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
(3, 6)
Info
All SCOP Domains
1a: SCOP_d3etha1 (A:277-355)
1b: SCOP_d3ethb1 (B:277-355)
2a: SCOP_d3etha3 (A:79-276)
2b: SCOP_d3ethb3 (B:79-276)
3a: SCOP_d3etha2 (A:1-78)
3b: SCOP_d3ethb2 (B:1-78)
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Classes
(
)
(
)
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(
)
(
)
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(
)
(
)
Families
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Barrel-sandwich hybrid
(185)
Superfamily
:
Rudiment single hybrid motif
(69)
Family
:
BC C-terminal domain-like
(40)
Protein domain
:
N5-carboxyaminoimidazole ribonucleotide synthetase PurK (AIRC), C-domain
(4)
Escherichia coli [TaxId: 562]
(4)
1a
d3etha1
A:277-355
1b
d3ethb1
B:277-355
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
ATP-grasp
(191)
Superfamily
:
Glutathione synthetase ATP-binding domain-like
(158)
Family
:
BC ATP-binding domain-like
(53)
Protein domain
:
N5-carboxyaminoimidazole ribonucleotide synthetase PurK (AIRC), domain 2
(4)
Escherichia coli [TaxId: 562]
(4)
2a
d3etha3
A:79-276
2b
d3ethb3
B:79-276
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
PreATP-grasp domain
(131)
Superfamily
:
PreATP-grasp domain
(131)
Family
:
BC N-terminal domain-like
(50)
Protein domain
:
N5-carboxyaminoimidazole ribonucleotide synthetase PurK (AIRC), N-domain
(4)
Escherichia coli [TaxId: 562]
(4)
3a
d3etha2
A:1-78
3b
d3ethb2
B:1-78
[
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CATH Domains
(3, 6)
Info
all CATH domains
1a: CATH_3ethA02 (A:71-93,A:156-355)
1b: CATH_3ethB02 (B:71-93,B:156-355)
2a: CATH_3ethA03 (A:94-155)
2b: CATH_3ethB03 (B:94-155)
3a: CATH_3ethA01 (A:1-70)
3b: CATH_3ethB01 (B:1-70)
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)
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)
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)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
D-amino Acid Aminotransferase; Chain A, domain 1
(175)
Homologous Superfamily
:
ATP-grasp fold, B domain
(118)
Escherichia coli. Organism_taxid: 83333. Strain: k12.
(2)
1a
3ethA02
A:71-93,A:156-355
1b
3ethB02
B:71-93,B:156-355
Topology
:
Dna Ligase; domain 1
(375)
Homologous Superfamily
:
ATP-grasp fold, A domain
(109)
Escherichia coli. Organism_taxid: 83333. Strain: k12.
(2)
2a
3ethA03
A:94-155
2b
3ethB03
B:94-155
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.20, no name defined]
(85)
Escherichia coli. Organism_taxid: 83333. Strain: k12.
(2)
3a
3ethA01
A:1-70
3b
3ethB01
B:1-70
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Pfam Domains
(0, 0)
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Asymmetric Unit 1
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Asym.Unit (134 KB)
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