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2WVJ
Biol. Unit 1
Info
Asym.Unit (238 KB)
Biol.Unit 1 (116 KB)
Biol.Unit 2 (118 KB)
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(1)
Title
:
MUTATION OF THR163 TO SER IN HUMAN THYMIDINE KINASE SHIFTS THE SPECIFICITY FROM THYMIDINE TOWARDS THE NUCLEOSIDE ANALOGUE AZIDOTHYMIDINE
Authors
:
T. Skovgaard, U. Uhlin, B. Munch-Petersen
Date
:
17 Oct 09 (Deposition) - 27 Oct 09 (Release) - 02 May 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E,F,G,H (1x)
Keywords
:
Zinc-Binding Domain, Deoxyribonucleoside Kinase, Feedback Inhibitor, Nucleotide-Binding, Kinase, Cytoplasm, Transferase, Atp-Binding, Dna Synthesis, Phosphoprotein, Phosphorylation
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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Reference
:
T. Skovgaard, U. Uhlin, B. Munch-Petersen
Comparative Active-Site Mutation Study Of Human And Caenorhabditis Elegans Thymidine Kinase 1.
Febs J. V. 279 1777 2012
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Hetero Components
(1, 4)
Info
All Hetero Components
1a: MAGNESIUM ION (MGa)
1b: MAGNESIUM ION (MGb)
1c: MAGNESIUM ION (MGc)
2a: THYMIDINE-5'-TRIPHOSPHATE (TTPa)
2b: THYMIDINE-5'-TRIPHOSPHATE (TTPb)
2c: THYMIDINE-5'-TRIPHOSPHATE (TTPc)
2d: THYMIDINE-5'-TRIPHOSPHATE (TTPd)
2e: THYMIDINE-5'-TRIPHOSPHATE (TTPe)
2f: THYMIDINE-5'-TRIPHOSPHATE (TTPf)
2g: THYMIDINE-5'-TRIPHOSPHATE (TTPg)
2h: THYMIDINE-5'-TRIPHOSPHATE (TTPh)
3a: ZINC ION (ZNa)
3b: ZINC ION (ZNb)
3c: ZINC ION (ZNc)
3d: ZINC ION (ZNd)
3e: ZINC ION (ZNe)
3f: ZINC ION (ZNf)
3g: ZINC ION (ZNg)
3h: ZINC ION (ZNh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MG
-1
Ligand/Ion
MAGNESIUM ION
2
TTP
4
Ligand/Ion
THYMIDINE-5'-TRIPHOSPHATE
3
ZN
-1
Ligand/Ion
ZINC ION
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Sites
(9, 9)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC9 (SOFTWARE)
6: BC3 (SOFTWARE)
7: BC4 (SOFTWARE)
8: BC5 (SOFTWARE)
9: BC6 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
MET A:28 , SER A:30 , GLY A:31 , LYS A:32 , SER A:33 , ASP A:58 , ARG A:60 , ASP A:97 , GLU A:98 , GLN A:100 , PHE A:101 , LEU A:124 , THR A:127 , PHE A:128 , PHE A:133 , SER A:163 , VAL A:172 , GLU A:173 , VAL A:174 , ILE A:175 , GLY A:176 , TYR A:181 , HOH A:2116 , HOH A:2117 , HOH A:2118 , HOH A:2119
BINDING SITE FOR RESIDUE TTP A1192
2
AC2
SOFTWARE
SER B:30 , GLY B:31 , LYS B:32 , SER B:33 , ASP B:58 , ARG B:60 , ASP B:97 , GLU B:98 , GLN B:100 , PHE B:101 , LEU B:124 , THR B:127 , PHE B:128 , PHE B:133 , SER B:163 , VAL B:172 , GLU B:173 , VAL B:174 , ILE B:175 , GLY B:176 , TYR B:181 , HOH B:2135 , HOH B:2136 , HOH B:2137 , HOH B:2139
BINDING SITE FOR RESIDUE TTP B1193
3
AC3
SOFTWARE
MET C:28 , SER C:30 , GLY C:31 , LYS C:32 , SER C:33 , ASP C:58 , ARG C:60 , ASP C:97 , GLU C:98 , GLN C:100 , PHE C:101 , LEU C:124 , THR C:127 , PHE C:128 , PHE C:133 , SER C:163 , VAL C:172 , GLU C:173 , VAL C:174 , ILE C:175 , GLY C:176 , TYR C:181 , HOH C:2119 , HOH C:2120 , HOH C:2121 , HOH C:2123
BINDING SITE FOR RESIDUE TTP C1192
4
AC4
SOFTWARE
MET D:28 , PHE D:29 , SER D:30 , GLY D:31 , LYS D:32 , SER D:33 , ASP D:58 , ARG D:60 , GLU D:98 , PHE D:101 , LEU D:124 , THR D:127 , PHE D:128 , PHE D:133 , SER D:163 , ARG D:165 , VAL D:172 , GLU D:173 , VAL D:174 , ILE D:175 , GLY D:176 , TYR D:181 , MG D:1193 , HOH D:2056 , HOH D:2135 , HOH D:2136 , HOH D:2137 , HOH D:2138
BINDING SITE FOR RESIDUE TTP D1192
5
AC9
SOFTWARE
SER D:33 , TTP D:1192 , HOH D:2009 , HOH D:2056 , HOH D:2057
BINDING SITE FOR RESIDUE MG D1193
6
BC3
SOFTWARE
CYS A:153 , CYS A:156 , CYS A:185 , CYS A:188
BINDING SITE FOR RESIDUE ZN A1193
7
BC4
SOFTWARE
CYS B:153 , CYS B:156 , CYS B:185 , CYS B:188
BINDING SITE FOR RESIDUE ZN B1194
8
BC5
SOFTWARE
CYS C:153 , CYS C:156 , CYS C:185 , CYS C:188
BINDING SITE FOR RESIDUE ZN C1193
9
BC6
SOFTWARE
CYS D:153 , CYS D:156 , CYS D:185 , CYS D:188
BINDING SITE FOR RESIDUE ZN D1194
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: TK_CELLULAR_TYPE (A:176-189,B:176-189,C:176-189,D:17...)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TK_CELLULAR_TYPE
PS00603
Thymidine kinase cellular-type signature.
KITH_HUMAN
176-189
4
A:176-189
B:176-189
C:176-189
D:176-189
-
-
-
-
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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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
(2, 16)
Info
All SCOP Domains
1a: SCOP_d2wvja1 (A:18-150)
1b: SCOP_d2wvjc1 (C:18-150)
1c: SCOP_d2wvjd1 (D:18-150)
1d: SCOP_d2wvje1 (E:18-150)
1e: SCOP_d2wvjf1 (F:18-150)
1f: SCOP_d2wvjg1 (G:18-150)
1g: SCOP_d2wvjh1 (H:18-150)
1h: SCOP_d2wvjb1 (B:18-150)
2a: SCOP_d2wvja2 (A:151-191)
2b: SCOP_d2wvjc2 (C:151-191)
2c: SCOP_d2wvjd2 (D:151-191)
2d: SCOP_d2wvje2 (E:151-191)
2e: SCOP_d2wvjf2 (F:151-191)
2f: SCOP_d2wvjg2 (G:151-191)
2g: SCOP_d2wvjh2 (H:151-191)
2h: SCOP_d2wvjb2 (B:151-192)
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Protein Domains
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(
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Organisms
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(
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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
:
Type II thymidine kinase
(8)
Protein domain
:
automated matches
(2)
Human (Homo sapiens) [TaxId: 9606]
(2)
1a
d2wvja1
A:18-150
1b
d2wvjc1
C:18-150
1c
d2wvjd1
D:18-150
1d
d2wvje1
E:18-150
1e
d2wvjf1
F:18-150
1f
d2wvjg1
G:18-150
1g
d2wvjh1
H:18-150
1h
d2wvjb1
B:18-150
Class
:
Small proteins
(3458)
Fold
:
Glucocorticoid receptor-like (DNA-binding domain)
(292)
Superfamily
:
Glucocorticoid receptor-like (DNA-binding domain)
(292)
Family
:
automated matches
(14)
Protein domain
:
automated matches
(14)
Human (Homo sapiens) [TaxId: 9606]
(8)
2a
d2wvja2
A:151-191
2b
d2wvjc2
C:151-191
2c
d2wvjd2
D:151-191
2d
d2wvje2
E:151-191
2e
d2wvjf2
F:151-191
2f
d2wvjg2
G:151-191
2g
d2wvjh2
H:151-191
2h
d2wvjb2
B:151-192
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CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
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Pfam Domains
(1, 8)
Info
all PFAM domains
1a: PFAM_TK_2wvjH01 (H:19-189)
1b: PFAM_TK_2wvjH02 (H:19-189)
1c: PFAM_TK_2wvjH03 (H:19-189)
1d: PFAM_TK_2wvjH04 (H:19-189)
1e: PFAM_TK_2wvjH05 (H:19-189)
1f: PFAM_TK_2wvjH06 (H:19-189)
1g: PFAM_TK_2wvjH07 (H:19-189)
1h: PFAM_TK_2wvjH08 (H:19-189)
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Clan
:
P-loop_NTPase
(1112)
Family
:
TK
(9)
Homo sapiens (Human)
(3)
1a
TK-2wvjH01
H:19-189
1b
TK-2wvjH02
H:19-189
1c
TK-2wvjH03
H:19-189
1d
TK-2wvjH04
H:19-189
1e
TK-2wvjH05
H:19-189
1f
TK-2wvjH06
H:19-189
1g
TK-2wvjH07
H:19-189
1h
TK-2wvjH08
H:19-189
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Asymmetric Unit 1
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