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2VP6
Biol. Unit 2
Info
Asym.Unit (270 KB)
Biol.Unit 1 (69 KB)
Biol.Unit 2 (69 KB)
Biol.Unit 3 (68 KB)
Biol.Unit 4 (68 KB)
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(1)
Title
:
STRUCTURAL STUDIES OF NUCLEOSIDE ANALOG AND FEEDBACK INHIBITOR BINDING TO DROSOPHILA MELANOGASTER MULTISUBSTRATE DEOXYRIBONUCLEOSIDE KINASE
Authors
:
N. E. Mikkelsen, B. Munch-Petersen, H. Eklund
Date
:
26 Feb 08 (Deposition) - 29 Apr 08 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.00
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: E,F (1x)
Biol. Unit 4: G,H (1x)
Keywords
:
Atp-Binding, Dna Synthesis, Phosphoprotein, Feedback Inhibition, Deoxyribonucleoside Kinase, Salvage Pathway, Nucleotide-Binding, Dttp, Kinase, Complex, Drosophila, Transferase
(Keyword Search:
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Reference
:
N. E. Mikkelsen, B. Munch-Petersen, H. Eklund
Structural Studies Of Nucleoside Analog And Feedback Inhibitor Binding To Drosophila Melanogaster Multisubstrate Deoxyribonucleoside Kinase.
Febs J. V. 275 2151 2008
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Hetero Components
(2, 4)
Info
All Hetero Components
1a: 5-FLUORO-URIDINE-5'-MONOPHOSPHATE (5FUa)
1b: 5-FLUORO-URIDINE-5'-MONOPHOSPHATE (5FUb)
1c: 5-FLUORO-URIDINE-5'-MONOPHOSPHATE (5FUc)
1d: 5-FLUORO-URIDINE-5'-MONOPHOSPHATE (5FUd)
1e: 5-FLUORO-URIDINE-5'-MONOPHOSPHATE (5FUe)
1f: 5-FLUORO-URIDINE-5'-MONOPHOSPHATE (5FUf)
1g: 5-FLUORO-URIDINE-5'-MONOPHOSPHATE (5FUg)
1h: 5-FLUORO-URIDINE-5'-MONOPHOSPHATE (5FUh)
2a: SULFATE ION (SO4a)
2b: SULFATE ION (SO4b)
2c: SULFATE ION (SO4c)
2d: SULFATE ION (SO4d)
2e: SULFATE ION (SO4e)
2f: SULFATE ION (SO4f)
2g: SULFATE ION (SO4g)
2h: SULFATE ION (SO4h)
2i: SULFATE ION (SO4i)
View:
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Label:
No.
Name
Count
Type
Full Name
1
5FU
2
Ligand/Ion
5-FLUORO-URIDINE-5'-MONOPHOSPHATE
2
SO4
2
Ligand/Ion
SULFATE ION
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Sites
(4, 4)
Info
All Sites
1: AC2 (SOFTWARE)
2: AC6 (SOFTWARE)
3: BC3 (SOFTWARE)
4: BC4 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC2
SOFTWARE
GLY D:30 , SER D:31 , GLY D:32 , LYS D:33 , THR D:34
BINDING SITE FOR RESIDUE SO4 D1209
2
AC6
SOFTWARE
GLY C:30 , SER C:31 , GLY C:32 , LYS C:33 , THR C:34
BINDING SITE FOR RESIDUE SO4 C1209
3
BC3
SOFTWARE
GLU D:52 , TRP D:57 , LEU D:66 , MET D:69 , TYR D:70 , PHE D:80 , GLN D:81 , ARG D:105 , ALA D:110 , PHE D:114 , GLU D:172
BINDING SITE FOR RESIDUE 5FU D1210
4
BC4
SOFTWARE
GLU C:52 , TRP C:57 , LEU C:66 , MET C:69 , TYR C:70 , GLN C:81 , ARG C:105 , PHE C:114 , GLU C:172
BINDING SITE FOR RESIDUE 5FU C1210
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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
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 8)
Info
All SCOP Domains
1a: SCOP_d2vp6a_ (A:)
1b: SCOP_d2vp6d_ (D:)
1c: SCOP_d2vp6e_ (E:)
1d: SCOP_d2vp6f_ (F:)
1e: SCOP_d2vp6g_ (G:)
1f: SCOP_d2vp6h_ (H:)
1g: SCOP_d2vp6b_ (B:)
1h: SCOP_d2vp6c_ (C:)
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Protein Domains
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(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Superfamily
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Family
:
Nucleotide and nucleoside kinases
(231)
Protein domain
:
automated matches
(25)
Fruit fly (Drosophila melanogaster) [TaxId: 7227]
(5)
1a
d2vp6a_
A:
1b
d2vp6d_
D:
1c
d2vp6e_
E:
1d
d2vp6f_
F:
1e
d2vp6g_
G:
1f
d2vp6h_
H:
1g
d2vp6b_
B:
1h
d2vp6c_
C:
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CATH Domains
(1, 8)
Info
all CATH domains
1a: CATH_2vp6A00 (A:12-208)
1b: CATH_2vp6C00 (C:12-208)
1c: CATH_2vp6B00 (B:12-208)
1d: CATH_2vp6E00 (E:12-208)
1e: CATH_2vp6F00 (F:12-208)
1f: CATH_2vp6G00 (G:12-208)
1g: CATH_2vp6H00 (H:12-208)
1h: CATH_2vp6D00 (D:12-208)
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(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
P-loop containing nucleotide triphosphate hydrolases
(1378)
Fruit fly (Drosophila melanogaster)
(15)
1a
2vp6A00
A:12-208
1b
2vp6C00
C:12-208
1c
2vp6B00
B:12-208
1d
2vp6E00
E:12-208
1e
2vp6F00
F:12-208
1f
2vp6G00
G:12-208
1g
2vp6H00
H:12-208
1h
2vp6D00
D:12-208
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Pfam Domains
(1, 8)
Info
all PFAM domains
1a: PFAM_dNK_2vp6H01 (H:80-208)
1b: PFAM_dNK_2vp6H02 (H:80-208)
1c: PFAM_dNK_2vp6H03 (H:80-208)
1d: PFAM_dNK_2vp6H04 (H:80-208)
1e: PFAM_dNK_2vp6H05 (H:80-208)
1f: PFAM_dNK_2vp6H06 (H:80-208)
1g: PFAM_dNK_2vp6H07 (H:80-208)
1h: PFAM_dNK_2vp6H08 (H:80-208)
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Clan
:
P-loop_NTPase
(1112)
Family
:
dNK
(33)
Drosophila melanogaster (Fruit fly)
(13)
1a
dNK-2vp6H01
H:80-208
1b
dNK-2vp6H02
H:80-208
1c
dNK-2vp6H03
H:80-208
1d
dNK-2vp6H04
H:80-208
1e
dNK-2vp6H05
H:80-208
1f
dNK-2vp6H06
H:80-208
1g
dNK-2vp6H07
H:80-208
1h
dNK-2vp6H08
H:80-208
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Asymmetric Unit 1
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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Asym.Unit (270 KB)
Header - Asym.Unit
Biol.Unit 1 (69 KB)
Header - Biol.Unit 1
Biol.Unit 2 (69 KB)
Header - Biol.Unit 2
Biol.Unit 3 (68 KB)
Header - Biol.Unit 3
Biol.Unit 4 (68 KB)
Header - Biol.Unit 4
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