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1W4R
Biol. Unit 2
Info
Asym.Unit (244 KB)
Biol.Unit 1 (122 KB)
Biol.Unit 2 (118 KB)
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(1)
Title
:
STRUCTURE OF A TYPE II THYMIDINE KINASE WITH BOUND DTTP
Authors
:
M. S. Birringer, M. T. Claus, G. Folkers, D. P. Kloer, G. E. Schulz, L. Sc
Date
:
27 Jul 04 (Deposition) - 01 Feb 05 (Release) - 06 Mar 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.83
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
:
Transferase, Type Ii, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
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)
Reference
:
M. S. Birringer, M. T. Claus, G. Folkers, D. P. Kloer, G. E. Schulz, L. Scapozza
Structure Of A Type Ii Thymidine Kinase With Bound Dttp
Febs Lett. V. 579 1376 2005
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Hetero Components
(2, 5)
Info
All Hetero Components
1a: (2R,3S)-1,4-DIMERCAPTOBUTANE-2,3-D... (DTUa)
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
DTU
1
Ligand/Ion
(2R,3S)-1,4-DIMERCAPTOBUTANE-2,3-DIOL
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: AC5 (SOFTWARE)
2: AC6 (SOFTWARE)
3: AC7 (SOFTWARE)
4: AC8 (SOFTWARE)
5: BC4 (SOFTWARE)
6: BC5 (SOFTWARE)
7: BC6 (SOFTWARE)
8: BC7 (SOFTWARE)
9: BC8 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC5
SOFTWARE
CYS E:153 , CYS E:156 , CYS E:185 , CYS E:188
BINDING SITE FOR RESIDUE ZN E 400
2
AC6
SOFTWARE
CYS F:153 , CYS F:156 , CYS F:185 , CYS F:188
BINDING SITE FOR RESIDUE ZN F 400
3
AC7
SOFTWARE
CYS G:153 , CYS G:156 , CYS G:185 , CYS G:188
BINDING SITE FOR RESIDUE ZN G 400
4
AC8
SOFTWARE
CYS H:153 , CYS H:156 , CYS H:185 , CYS H:188
BINDING SITE FOR RESIDUE ZN H 400
5
BC4
SOFTWARE
MET E:28 , GLY E:31 , LYS E:32 , SER E:33 , ASP E:58 , ASP E:97 , GLU E:98 , GLN E:100 , PHE E:101 , LEU E:124 , THR E:127 , PHE E:128 , PHE E:133 , ARG E:165 , VAL E:172 , GLU E:173 , VAL E:174 , ILE E:175 , GLY E:176 , TYR E:181 , HOH E:2075 , HOH E:2076 , HOH E:2077 , HOH E:2078 , HOH E:2079 , HOH E:2080 , HOH E:2081
BINDING SITE FOR RESIDUE TTP E 300
6
BC5
SOFTWARE
ARG B:82 , ASP B:104 , GLU B:107 , ALA B:111 , GLU E:110 , ALA E:111 , ASN E:114 , HOH E:2082 , HOH E:2083
BINDING SITE FOR RESIDUE DTU E1193
7
BC6
SOFTWARE
MET F:28 , SER F:30 , GLY F:31 , LYS F:32 , SER F:33 , ASP F:58 , ARG F:60 , ASP F:97 , GLU F:98 , GLN F:100 , PHE F:101 , LEU F:124 , THR F:127 , PHE F:128 , PHE F:133 , VAL F:172 , GLU F:173 , VAL F:174 , ILE F:175 , GLY F:176 , TYR F:181 , HOH F:2109 , HOH F:2110 , HOH F:2111 , HOH F:2112 , HOH F:2113 , HOH F:2115 , HOH F:2116 , HOH F:2117
BINDING SITE FOR RESIDUE TTP F 300
8
BC7
SOFTWARE
MET G:28 , SER G:30 , GLY G:31 , LYS G:32 , SER G:33 , ASP G:58 , ARG G:60 , ASP G:97 , GLU G:98 , GLN G:100 , PHE G:101 , LEU G:124 , THR G:127 , PHE G:128 , PHE G:133 , VAL G:172 , GLU G:173 , VAL G:174 , ILE G:175 , GLY G:176 , TYR G:181 , HOH G:2100 , HOH G:2101 , HOH G:2102 , HOH G:2103 , HOH G:2106 , HOH G:2107 , HOH G:2108
BINDING SITE FOR RESIDUE TTP G 300
9
BC8
SOFTWARE
MET H:28 , GLY H:31 , LYS H:32 , SER H:33 , ASP H:58 , ARG H:60 , ASP H:97 , GLU H:98 , GLN H:100 , PHE H:101 , LEU H:124 , THR H:127 , PHE H:128 , PHE H:133 , ARG H:165 , VAL H:172 , GLU H:173 , VAL H:174 , ILE H:175 , GLY H:176 , TYR H:181 , HOH H:2081 , HOH H:2082 , HOH H:2083 , HOH H:2084 , HOH H:2085 , HOH H:2086 , HOH H:2087 , HOH H:2088
BINDING SITE FOR RESIDUE TTP H 300
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: TK_CELLULAR_TYPE (E:176-189,F:176-189,G:176-189,H: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
-
-
-
-
E:176-189
F:176-189
G:176-189
H:176-189
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Exons
(0, 0)
Info
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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_d1w4ra1 (A:18-150)
1b: SCOP_d1w4rb1 (B:18-150)
1c: SCOP_d1w4rc1 (C:18-150)
1d: SCOP_d1w4rd1 (D:18-150)
1e: SCOP_d1w4re1 (E:18-150)
1f: SCOP_d1w4rf1 (F:18-150)
1g: SCOP_d1w4rg1 (G:18-150)
1h: SCOP_d1w4rh1 (H:18-150)
2a: SCOP_d1w4ra2 (A:151-191)
2b: SCOP_d1w4rb2 (B:151-191)
2c: SCOP_d1w4rc2 (C:151-191)
2d: SCOP_d1w4rd2 (D:151-191)
2e: SCOP_d1w4re2 (E:151-191)
2f: SCOP_d1w4rf2 (F:151-191)
2g: SCOP_d1w4rg2 (G:151-191)
2h: SCOP_d1w4rh2 (H:151-191)
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Protein Domains
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Organisms
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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
d1w4ra1
A:18-150
1b
d1w4rb1
B:18-150
1c
d1w4rc1
C:18-150
1d
d1w4rd1
D:18-150
1e
d1w4re1
E:18-150
1f
d1w4rf1
F:18-150
1g
d1w4rg1
G:18-150
1h
d1w4rh1
H: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
d1w4ra2
A:151-191
2b
d1w4rb2
B:151-191
2c
d1w4rc2
C:151-191
2d
d1w4rd2
D:151-191
2e
d1w4re2
E:151-191
2f
d1w4rf2
F:151-191
2g
d1w4rg2
G:151-191
2h
d1w4rh2
H:151-191
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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_1w4rH01 (H:19-189)
1b: PFAM_TK_1w4rH02 (H:19-189)
1c: PFAM_TK_1w4rH03 (H:19-189)
1d: PFAM_TK_1w4rH04 (H:19-189)
1e: PFAM_TK_1w4rH05 (H:19-189)
1f: PFAM_TK_1w4rH06 (H:19-189)
1g: PFAM_TK_1w4rH07 (H:19-189)
1h: PFAM_TK_1w4rH08 (H:19-189)
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Clan
:
P-loop_NTPase
(1112)
Family
:
TK
(9)
Homo sapiens (Human)
(3)
1a
TK-1w4rH01
H:19-189
1b
TK-1w4rH02
H:19-189
1c
TK-1w4rH03
H:19-189
1d
TK-1w4rH04
H:19-189
1e
TK-1w4rH05
H:19-189
1f
TK-1w4rH06
H:19-189
1g
TK-1w4rH07
H:19-189
1h
TK-1w4rH08
H:19-189
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