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2IA5
Biol. Unit 1
Info
Asym.Unit (611 KB)
Biol.Unit 1 (211 KB)
Biol.Unit 2 (206 KB)
Biol.Unit 3 (201 KB)
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(1)
Title
:
T4 POLYNUCLEOTIDE KINASE/PHOSPHATASE WITH BOUND SULFATE AND MAGNESIUM.
Authors
:
H. Zhu, P. C. Smith, L. K. Wang, C. D. Lima, S. Shuman
Date
:
07 Sep 06 (Deposition) - 05 Jun 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.90
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E,F,G,H (1x)
Biol. Unit 3: I,J,K,L (1x)
Keywords
:
Polynucleotide Kinase Phosphatase Sulfate-Complex, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. Zhu, P. Smith, L. K. Wang, S. Shuman
Structure-Function Analysis Of The 3' Phosphatase Component Of T4 Polynucleotide Kinase/Phosphatase.
Virology V. 366 126 2007
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(2, 16)
Info
All Hetero Components
1a: ARSENIC (ARSa)
1b: ARSENIC (ARSb)
1c: ARSENIC (ARSc)
1d: ARSENIC (ARSd)
1e: ARSENIC (ARSe)
1f: ARSENIC (ARSf)
1g: ARSENIC (ARSg)
1h: ARSENIC (ARSh)
1i: ARSENIC (ARSi)
1j: ARSENIC (ARSj)
1k: ARSENIC (ARSk)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
2c: MAGNESIUM ION (MGc)
2d: MAGNESIUM ION (MGd)
2e: MAGNESIUM ION (MGe)
2f: MAGNESIUM ION (MGf)
2g: MAGNESIUM ION (MGg)
3a: SULFATE ION (SO4a)
3aa: SULFATE ION (SO4aa)
3ab: SULFATE ION (SO4ab)
3ac: SULFATE ION (SO4ac)
3ad: SULFATE ION (SO4ad)
3ae: SULFATE ION (SO4ae)
3af: SULFATE ION (SO4af)
3ag: SULFATE ION (SO4ag)
3ah: SULFATE ION (SO4ah)
3ai: SULFATE ION (SO4ai)
3aj: SULFATE ION (SO4aj)
3b: SULFATE ION (SO4b)
3c: SULFATE ION (SO4c)
3d: SULFATE ION (SO4d)
3e: SULFATE ION (SO4e)
3f: SULFATE ION (SO4f)
3g: SULFATE ION (SO4g)
3h: SULFATE ION (SO4h)
3i: SULFATE ION (SO4i)
3j: SULFATE ION (SO4j)
3k: SULFATE ION (SO4k)
3l: SULFATE ION (SO4l)
3m: SULFATE ION (SO4m)
3n: SULFATE ION (SO4n)
3o: SULFATE ION (SO4o)
3p: SULFATE ION (SO4p)
3q: SULFATE ION (SO4q)
3r: SULFATE ION (SO4r)
3s: SULFATE ION (SO4s)
3t: SULFATE ION (SO4t)
3u: SULFATE ION (SO4u)
3v: SULFATE ION (SO4v)
3w: SULFATE ION (SO4w)
3x: SULFATE ION (SO4x)
3y: SULFATE ION (SO4y)
3z: SULFATE ION (SO4z)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ARS
4
Ligand/Ion
ARSENIC
2
MG
-1
Ligand/Ion
MAGNESIUM ION
3
SO4
12
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(20, 20)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC8 (SOFTWARE)
06: AC9 (SOFTWARE)
07: BC1 (SOFTWARE)
08: BC2 (SOFTWARE)
09: BC3 (SOFTWARE)
10: BC4 (SOFTWARE)
11: BC5 (SOFTWARE)
12: BC6 (SOFTWARE)
13: BC7 (SOFTWARE)
14: BC8 (SOFTWARE)
15: BC9 (SOFTWARE)
16: CC1 (SOFTWARE)
17: EC8 (SOFTWARE)
18: EC9 (SOFTWARE)
19: FC1 (SOFTWARE)
20: FC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:165 , ASP A:167 , THR A:169 , ASP A:277 , ASP A:278
BINDING SITE FOR RESIDUE MG A 901
02
AC2
SOFTWARE
ASP B:165 , ASP B:167 , ASP B:277 , ASP B:278 , ARG B:279
BINDING SITE FOR RESIDUE MG B 902
03
AC3
SOFTWARE
ASP C:165 , ASP C:167
BINDING SITE FOR RESIDUE MG C 903
04
AC4
SOFTWARE
ASP D:165 , ASP D:167 , GLY D:168 , THR D:169 , ASP D:278
BINDING SITE FOR RESIDUE MG D 904
05
AC8
SOFTWARE
GLY A:12 , SER A:13 , GLY A:14 , LYS A:15 , SER A:16 , ARG A:126 , HOH A:2040
BINDING SITE FOR RESIDUE SO4 A 911
06
AC9
SOFTWARE
ARG A:38 , THR A:86 , MET A:139 , HOH A:2080 , HOH A:2084
BINDING SITE FOR RESIDUE SO4 A 912
07
BC1
SOFTWARE
LYS A:253 , ASP A:254 , ARG A:279 , GLN A:281
BINDING SITE FOR RESIDUE SO4 A 913
08
BC2
SOFTWARE
PRO B:11 , GLY B:12 , SER B:13 , GLY B:14 , LYS B:15 , SER B:16 , ARG B:126
BINDING SITE FOR RESIDUE SO4 B 914
09
BC3
SOFTWARE
ARG B:34 , ARG B:38 , THR B:86 , HOH B:2094 , HOH B:2677
BINDING SITE FOR RESIDUE SO4 B 915
10
BC4
SOFTWARE
ARG B:246 , LYS B:253 , ASP B:254 , ARG B:279 , GLN B:281 , HOH B:2962
BINDING SITE FOR RESIDUE SO4 B 916
11
BC5
SOFTWARE
GLY C:12 , SER C:13 , GLY C:14 , LYS C:15 , SER C:16 , ARG C:126
BINDING SITE FOR RESIDUE SO4 C 917
12
BC6
SOFTWARE
ARG C:34 , ARG C:38 , ASP C:85 , THR C:86 , MET C:139 , HOH C:2011 , HOH C:2017
BINDING SITE FOR RESIDUE SO4 C 918
13
BC7
SOFTWARE
LYS C:253 , ASP C:254 , ARG C:279 , HOH C:2394
BINDING SITE FOR RESIDUE SO4 C 919
14
BC8
SOFTWARE
CYS D:10 , GLY D:12 , SER D:13 , GLY D:14 , LYS D:15 , SER D:16 , ARG D:126
BINDING SITE FOR RESIDUE SO4 D 920
15
BC9
SOFTWARE
ARG D:34 , ARG D:38 , ASP D:85 , THR D:86
BINDING SITE FOR RESIDUE SO4 D 921
16
CC1
SOFTWARE
LYS D:253 , ASP D:254 , ARG D:279 , GLN D:281 , HOH D:2755
BINDING SITE FOR RESIDUE SO4 D 922
17
EC8
SOFTWARE
CYS A:184 , TRP A:231
BINDING SITE FOR RESIDUE ARS A 951
18
EC9
SOFTWARE
TRP B:231
BINDING SITE FOR RESIDUE ARS B 952
19
FC1
SOFTWARE
CYS C:184 , HOH C:2659
BINDING SITE FOR RESIDUE ARS C 953
20
FC2
SOFTWARE
CYS D:184 , HOH D:2585
BINDING SITE FOR RESIDUE ARS D 954
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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]
PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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Label:
End label:
Sorry, no Info available
[
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]
Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
View:
Label:
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, 24)
Info
All SCOP Domains
1a: SCOP_d2ia5a1 (A:153-301)
1b: SCOP_d2ia5h1 (H:153-301)
1c: SCOP_d2ia5i1 (I:153-301)
1d: SCOP_d2ia5j1 (J:153-301)
1e: SCOP_d2ia5k1 (K:153-301)
1f: SCOP_d2ia5l1 (L:153-301)
1g: SCOP_d2ia5b1 (B:153-301)
1h: SCOP_d2ia5c1 (C:153-301)
1i: SCOP_d2ia5d1 (D:153-301)
1j: SCOP_d2ia5e1 (E:153-301)
1k: SCOP_d2ia5f1 (F:153-301)
1l: SCOP_d2ia5g1 (G:153-301)
2a: SCOP_d2ia5a2 (A:1-152)
2b: SCOP_d2ia5g2 (G:3-152)
2c: SCOP_d2ia5h2 (H:1-152)
2d: SCOP_d2ia5i2 (I:1-152)
2e: SCOP_d2ia5j2 (J:1-152)
2f: SCOP_d2ia5k2 (K:1-152)
2g: SCOP_d2ia5l2 (L:1-152)
2h: SCOP_d2ia5b2 (B:1-152)
2i: SCOP_d2ia5c2 (C:1-152)
2j: SCOP_d2ia5d2 (D:1-152)
2k: SCOP_d2ia5e2 (E:1-152)
2l: SCOP_d2ia5f2 (F:1-152)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
HAD-like
(349)
Superfamily
:
HAD-like
(349)
Family
:
phosphatase domain of polynucleotide kinase
(6)
Protein domain
:
Polynucleotide kinase, phosphatase domain
(5)
Bacteriophage T4 [TaxId: 10665]
(5)
1a
d2ia5a1
A:153-301
1b
d2ia5h1
H:153-301
1c
d2ia5i1
I:153-301
1d
d2ia5j1
J:153-301
1e
d2ia5k1
K:153-301
1f
d2ia5l1
L:153-301
1g
d2ia5b1
B:153-301
1h
d2ia5c1
C:153-301
1i
d2ia5d1
D:153-301
1j
d2ia5e1
E:153-301
1k
d2ia5f1
F:153-301
1l
d2ia5g1
G:153-301
Fold
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Superfamily
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Family
:
Nucleotide and nucleoside kinases
(231)
Protein domain
:
Polynucleotide kinase, kinase domain
(6)
Bacteriophage T4 [TaxId: 10665]
(6)
2a
d2ia5a2
A:1-152
2b
d2ia5g2
G:3-152
2c
d2ia5h2
H:1-152
2d
d2ia5i2
I:1-152
2e
d2ia5j2
J:1-152
2f
d2ia5k2
K:1-152
2g
d2ia5l2
L:1-152
2h
d2ia5b2
B:1-152
2i
d2ia5c2
C:1-152
2j
d2ia5d2
D:1-152
2k
d2ia5e2
E:1-152
2l
d2ia5f2
F:1-152
[
close SCOP info
]
CATH Domains
(2, 24)
Info
all CATH domains
1a: CATH_2ia5H02 (H:159-301)
1b: CATH_2ia5B02 (B:159-301)
1c: CATH_2ia5L02 (L:159-301)
1d: CATH_2ia5K02 (K:159-301)
1e: CATH_2ia5C02 (C:159-301)
1f: CATH_2ia5F02 (F:159-301)
1g: CATH_2ia5A02 (A:159-301)
1h: CATH_2ia5D02 (D:159-301)
1i: CATH_2ia5G02 (G:159-301)
1j: CATH_2ia5J02 (J:159-301)
1k: CATH_2ia5E02 (E:159-301)
1l: CATH_2ia5I02 (I:159-301)
2a: CATH_2ia5A01 (A:1-149)
2b: CATH_2ia5J01 (J:1-149)
2c: CATH_2ia5K01 (K:1-149)
2d: CATH_2ia5L01 (L:1-149)
2e: CATH_2ia5G01 (G:3-149)
2f: CATH_2ia5I01 (I:1-149)
2g: CATH_2ia5B01 (B:1-149)
2h: CATH_2ia5C01 (C:1-149)
2i: CATH_2ia5D01 (D:1-149)
2j: CATH_2ia5E01 (E:1-149)
2k: CATH_2ia5F01 (F:1-149)
2l: CATH_2ia5H01 (H:1-149)
View:
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Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.1000, no name defined]
(211)
Enterobacteria phage t4. Organism_taxid: 10665.
(1)
1a
2ia5H02
H:159-301
1b
2ia5B02
B:159-301
1c
2ia5L02
L:159-301
1d
2ia5K02
K:159-301
1e
2ia5C02
C:159-301
1f
2ia5F02
F:159-301
1g
2ia5A02
A:159-301
1h
2ia5D02
D:159-301
1i
2ia5G02
G:159-301
1j
2ia5J02
J:159-301
1k
2ia5E02
E:159-301
1l
2ia5I02
I:159-301
Homologous Superfamily
:
P-loop containing nucleotide triphosphate hydrolases
(1378)
Enterobacteria phage t4. Organism_taxid: 10665.
(5)
2a
2ia5A01
A:1-149
2b
2ia5J01
J:1-149
2c
2ia5K01
K:1-149
2d
2ia5L01
L:1-149
2e
2ia5G01
G:3-149
2f
2ia5I01
I:1-149
2g
2ia5B01
B:1-149
2h
2ia5C01
C:1-149
2i
2ia5D01
D:1-149
2j
2ia5E01
E:1-149
2k
2ia5F01
F:1-149
2l
2ia5H01
H:1-149
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Asym.Unit (611 KB)
Header - Asym.Unit
Biol.Unit 1 (211 KB)
Header - Biol.Unit 1
Biol.Unit 2 (206 KB)
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