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Biol. Unit 1
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Asym.Unit (98 KB)
Biol.Unit 1 (91 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE THYMIDYLATE SYNTHASE K48Q COMPLEXED WITH 5NO2DUMP AND BW1843U89
Authors
:
R. R. Sotelo-Mundo, R. Arreola, F. Maley, W. R. Montfort
Date
:
27 Oct 07 (Deposition) - 04 Dec 07 (Release) - 12 Jul 17 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.00
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Nucleotide Biosynthesis, Substrate Anologue, Antifolate Binding, Rna- Binding, Transferase, Methyltransferase, Repressor, Bw1843U89, Cytoplasm, 5-No2-Dump, Thymidylate Synthase, Translation Regulation
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
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)
Reference
:
A. A. Arvizu-Flores, R. Sugich-Miranda, R. Arreola, K. D. Garcia-Orozco, E. F. Velazquez-Contreras, W. R. Montfort, F. Maley, R. R. Sotelo-Mundo
Role Of An Invariant Lysine Residue In Folate Binding On Escherichia Coli Thymidylate Synthase: Calorimetric And Crystallographic Analysis Of The K48Q Mutant.
Int. J. Biochem. Cell Biol. V. 40 2206 2008
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Hetero Components
(4, 7)
Info
All Hetero Components
1a: N-CARBOXYMETHIONINE (CXMa)
1b: N-CARBOXYMETHIONINE (CXMb)
2a: S)-2-(5(((1,2-DIHYDRO-3-METHYL-1-O... (F89a)
2b: S)-2-(5(((1,2-DIHYDRO-3-METHYL-1-O... (F89b)
3a: 2'-DEOXY-5-NITROURIDINE 5'-MONOPHO... (NDUa)
3b: 2'-DEOXY-5-NITROURIDINE 5'-MONOPHO... (NDUb)
4a: SULFATE ION (SO4a)
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No.
Name
Count
Type
Full Name
1
CXM
2
Mod. Amino Acid
N-CARBOXYMETHIONINE
2
F89
2
Ligand/Ion
S)-2-(5(((1,2-DIHYDRO-3-METHYL-1-OXOBENZO(F)QUINAZOLIN-9-YL)METHYL)AMINO)1-OXO-2-ISOINDOLINYL)GLUTARIC ACID
3
NDU
2
Ligand/Ion
2'-DEOXY-5-NITROURIDINE 5'-MONOPHOSPHATE
4
SO4
1
Ligand/Ion
SULFATE 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)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ARG A:21 , TRP A:80 , TYR A:94 , CYS A:146 , HIS A:147 , GLN A:165 , ARG A:166 , SER A:167 , CYS A:168 , ASP A:169 , ASN A:177 , HIS A:207 , TYR A:209 , F89 A:1266 , HOH A:2013 , ARG B:126 , ARG B:127
BINDING SITE FOR RESIDUE NDU A1265
2
AC2
SOFTWARE
SER A:54 , GLU A:58 , THR A:78 , ILE A:79 , TRP A:80 , TRP A:83 , ASP A:169 , LEU A:172 , GLY A:173 , PHE A:176 , TYR A:209 , ALA A:263 , NDU A:1265 , HOH A:2004
BINDING SITE FOR RESIDUE F89 A1266
3
AC3
SOFTWARE
ARG A:126 , ARG A:127 , ARG B:21 , TRP B:80 , TYR B:94 , CYS B:146 , HIS B:147 , GLN B:165 , ARG B:166 , SER B:167 , CYS B:168 , ASP B:169 , ASN B:177 , HIS B:207 , TYR B:209 , F89 B:1266
BINDING SITE FOR RESIDUE NDU B1265
4
AC4
SOFTWARE
CYS B:50 , HIS B:51 , SER B:54 , GLU B:58 , TRP B:80 , TRP B:83 , ASP B:169 , LEU B:172 , GLY B:173 , PHE B:176 , TYR B:209 , ALA B:263 , NDU B:1265
BINDING SITE FOR RESIDUE F89 B1266
5
AC5
SOFTWARE
ARG A:234 , ARG A:243 , ARG B:107 , HIS B:108
BINDING SITE FOR RESIDUE SO4 B1268
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: THYMIDYLATE_SYNTHASE (A:126-154,B:126-154)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
THYMIDYLATE_SYNTHASE
PS00091
Thymidylate synthase active site.
TYSY_ECOLI
126-154
2
A:126-154
B:126-154
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Exons
(0, 0)
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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, 2)
Info
All SCOP Domains
1a: SCOP_d2vf0a_ (A:)
1b: SCOP_d2vf0b_ (B:)
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Protein Domains
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(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Thymidylate synthase/dCMP hydroxymethylase
(193)
Superfamily
:
Thymidylate synthase/dCMP hydroxymethylase
(193)
Family
:
Thymidylate synthase/dCMP hydroxymethylase
(183)
Protein domain
:
Thymidylate synthase
(137)
Escherichia coli [TaxId: 562]
(64)
1a
d2vf0a_
A:
1b
d2vf0b_
B:
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_2vf0A00 (A:2-264)
1b: CATH_2vf0B00 (B:2-264)
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Organisms
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Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Thymidylate Synthase; Chain A
(160)
Homologous Superfamily
:
Thymidylate Synthase, chain A
(160)
Escherichia coli. Organism_taxid: 511693. Strain: bl21.
(2)
1a
2vf0A00
A:2-264
1b
2vf0B00
B:2-264
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Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Thymidylat_synt_2vf0B01 (B:1-264)
1b: PFAM_Thymidylat_synt_2vf0B02 (B:1-264)
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Clan
:
no clan defined [family: Thymidylat_synt]
(68)
Family
:
Thymidylat_synt
(68)
Escherichia coli (strain K12)
(17)
1a
Thymidylat_synt-2vf0B01
B:1-264
1b
Thymidylat_synt-2vf0B02
B:1-264
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Asymmetric Unit 1
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