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3LWL
Asym. Unit
Info
Asym.Unit (216 KB)
Biol.Unit 1 (208 KB)
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(1)
Title
:
STRUCTURE OF KLENOW FRAGMENT OF TAQ POLYMERASE IN COMPLEX WITH AN ABASIC SITE
Authors
:
A. Marx, K. Diederichs, S. Obeid
Date
:
24 Feb 10 (Deposition) - 05 May 10 (Release) - 12 Feb 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.25
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (1x)
Keywords
:
Dna Replication, Dna Repair, Dna Polymerases, Abasic Sites, Translesion Synthesis, Dna Damage, Dna-Binding, Dna-Directed Dna Polymerase, Amino Acid-Templating Mechanism, Transferase-Dna Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Obeid, N. Blatter, R. Kranaster, A. Schnur, K. Diederichs, W. Welte A. Marx
Replication Through An Abasic Dna Lesion: Structural Basis For Adenine Selectivity
Embo J. V. 29 1738 2010
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Hetero Components
(7, 20)
Info
All Hetero Components
1a: 2',3'-DIDEOXYADENOSINE-5'-MONOPHOS... (2DAa)
2a: 1',2'-DIDEOXYRIBOFURANOSE-5'-PHOSP... (3DRa)
3a: ACETATE ION (ACTa)
3b: ACETATE ION (ACTb)
3c: ACETATE ION (ACTc)
3d: ACETATE ION (ACTd)
3e: ACETATE ION (ACTe)
4a: 2',3'-DIDEOXYADENOSINE TRIPHOSPHAT... (DDSa)
5a: GLYCEROL (GOLa)
5b: GLYCEROL (GOLb)
5c: GLYCEROL (GOLc)
5d: GLYCEROL (GOLd)
5e: GLYCEROL (GOLe)
5f: GLYCEROL (GOLf)
5g: GLYCEROL (GOLg)
6a: MAGNESIUM ION (MGa)
7a: SODIUM ION (NAa)
7b: SODIUM ION (NAb)
7c: SODIUM ION (NAc)
7d: SODIUM ION (NAd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
2DA
1
Mod. Nucleotide
2',3'-DIDEOXYADENOSINE-5'-MONOPHOSPHATE
2
3DR
1
Mod. Nucleotide
1',2'-DIDEOXYRIBOFURANOSE-5'-PHOSPHATE
3
ACT
5
Ligand/Ion
ACETATE ION
4
DDS
1
Ligand/Ion
2',3'-DIDEOXYADENOSINE TRIPHOSPHATE
5
GOL
7
Ligand/Ion
GLYCEROL
6
MG
1
Ligand/Ion
MAGNESIUM ION
7
NA
4
Ligand/Ion
SODIUM ION
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Sites
(17, 17)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:587 , GLN A:613 , HIS A:639 , ARG A:659 , LYS A:663 , PHE A:667 , TYR A:671 , MG A:833 , HOH A:845 , HOH A:846 , 2DA B:112
BINDING SITE FOR RESIDUE DDS A 1
02
AC2
SOFTWARE
DDS A:1 , GLU A:820 , HOH A:845 , HOH A:846
BINDING SITE FOR RESIDUE MG A 833
03
AC3
SOFTWARE
ARG A:313 , LEU A:552
BINDING SITE FOR RESIDUE ACT A 3
04
AC4
SOFTWARE
LYS A:542 , SER A:543 , ASP A:547 , HOH C:92
BINDING SITE FOR RESIDUE ACT A 5
05
AC5
SOFTWARE
THR A:544 , TYR A:545 , PRO A:579 , ASN A:580 , ASN A:583 , HOH C:7 , DC C:209 , DC C:210
BINDING SITE FOR RESIDUE GOL A 834
06
AC6
SOFTWARE
ARG A:425 , TRP A:428 , PHE A:724
BINDING SITE FOR RESIDUE GOL A 835
07
AC7
SOFTWARE
HOH A:53 , HOH A:69 , HOH A:100 , HOH A:126 , LYS A:354 , ASP A:355 , ARG A:563 , PHE A:564 , ASN A:565 , GLN A:566
BINDING SITE FOR RESIDUE GOL A 836
08
AC8
SOFTWARE
GLU A:315 , PRO A:316 , MET A:317 , GLU A:445 , HIS A:561 , THR A:562 , ARG A:563 , ASP A:578
BINDING SITE FOR RESIDUE GOL A 6
09
AC9
SOFTWARE
VAL A:737 , SER A:739
BINDING SITE FOR RESIDUE GOL A 7
10
BC1
SOFTWARE
PRO A:316 , LYS A:354 , ASP A:355 , GLU A:445 , ARG A:563
BINDING SITE FOR RESIDUE NA A 837
11
BC2
SOFTWARE
LYS A:314 , ASP A:578 , DC C:209
BINDING SITE FOR RESIDUE NA A 838
12
BC3
SOFTWARE
ASP A:381 , SER A:383
BINDING SITE FOR RESIDUE NA A 839
13
BC4
SOFTWARE
ALA A:568 , DC C:207
BINDING SITE FOR RESIDUE NA A 4
14
BC5
SOFTWARE
HOH B:35 , HOH B:55 , DC B:106 , DG B:107 , DG B:108 , HOH B:113 , HOH B:161 , DC C:209
BINDING SITE FOR RESIDUE GOL B 4
15
BC6
SOFTWARE
HOH A:123 , LYS A:540 , DG B:107 , DG B:108 , DC B:109 , HOH B:155 , ACT C:6 , HOH C:81
BINDING SITE FOR RESIDUE GOL B 8
16
BC7
SOFTWARE
ARG A:728 , DG C:206 , DC C:207
BINDING SITE FOR RESIDUE ACT C 1
17
BC8
SOFTWARE
ASN A:485 , SER A:486 , ARG A:487 , GOL B:8 , HOH B:60 , HOH B:119 , HOH C:128 , DG C:211 , DT C:212
BINDING SITE FOR RESIDUE ACT C 6
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: DNA_POLYMERASE_A (A:659-678)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
DNA_POLYMERASE_A
PS00447
DNA polymerase family A signature.
DPO1_THEAQ
659-678
1
A:659-678
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(0, 0)
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CATH Domains
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Info
all CATH domains
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Sorry, no Info available
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Pfam Domains
(2, 2)
Info
all PFAM domains
1a: PFAM_DNA_pol_A_3lwlA01 (A:451-830)
2a: PFAM_Taq_exonuc_3lwlA02 (A:295-420)
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Clans
(
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(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: DNA_pol_A]
(69)
Family
:
DNA_pol_A
(69)
Thermus aquaticus
(17)
1a
DNA_pol_A-3lwlA01
A:451-830
Clan
:
no clan defined [family: Taq-exonuc]
(17)
Family
:
Taq-exonuc
(17)
Thermus aquaticus
(17)
2a
Taq-exonuc-3lwlA02
A:295-420
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Asymmetric Unit 1
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Asym.Unit (216 KB)
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