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Asym. Unit
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Asym.Unit (302 KB)
Biol.Unit 1 (295 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE LARGE FRAGMENT OF DNA POLYMERASE I FROM THERMUS AQUATICUS IN AN OPEN BINARY COMPLEX WITH DT AS TEMPLATING NUCLEOBASE
Authors
:
K. Betz, K. Diederichs, A. Marx
Date
:
12 Jul 11 (Deposition) - 06 Jun 12 (Release) - 12 Sep 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.99
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (1x)
Keywords
:
Dna Polymerase, Transferase-Dna Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. Betz, D. A. Malyshev, T. Lavergne, W. Welte, K. Diederichs, T. J. Dwyer, P. Ordoukhanian, F. E. Romesberg, A. Marx
Klentaq Polymerase Replicates Unnatural Base Pairs By Inducing A Watson-Crick Geometry.
Nat. Chem. Biol. V. 8 612 2012
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Hetero Components
(3, 13)
Info
All Hetero Components
1a: 2',3'-DIDEOXYCYTIDINE-5'-MONOPHOSP... (DOCa)
2a: FORMIC ACID (FMTa)
2b: FORMIC ACID (FMTb)
2c: FORMIC ACID (FMTc)
2d: FORMIC ACID (FMTd)
2e: FORMIC ACID (FMTe)
2f: FORMIC ACID (FMTf)
2g: FORMIC ACID (FMTg)
2h: FORMIC ACID (FMTh)
2i: FORMIC ACID (FMTi)
3a: MAGNESIUM ION (MGa)
3b: MAGNESIUM ION (MGb)
3c: MAGNESIUM ION (MGc)
View:
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Label:
No.
Name
Count
Type
Full Name
1
DOC
1
Mod. Nucleotide
2',3'-DIDEOXYCYTIDINE-5'-MONOPHOSPHATE
2
FMT
9
Ligand/Ion
FORMIC ACID
3
MG
3
Ligand/Ion
MAGNESIUM ION
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Sites
(12, 12)
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)
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:313 , TRP A:318
BINDING SITE FOR RESIDUE FMT A 1
02
AC2
SOFTWARE
HOH A:11 , PHE A:724
BINDING SITE FOR RESIDUE FMT A 833
03
AC3
SOFTWARE
ARG A:617 , PHE A:632 , GLY A:635 , PRO A:816 , GLU A:818
BINDING SITE FOR RESIDUE FMT A 834
04
AC4
SOFTWARE
GLU A:786 , HOH A:885 , HOH A:886 , HOH A:887 , HOH A:888 , HOH A:889
BINDING SITE FOR RESIDUE MG A 7
05
AC5
SOFTWARE
HOH A:207 , PRO A:589 , GLN A:592 , ARG A:593 , ARG A:596 , SER A:829
BINDING SITE FOR RESIDUE FMT A 835
06
AC6
SOFTWARE
HOH A:94 , HOH A:151 , HIS A:621 , MET A:775 , LEU A:802 , ALA A:814
BINDING SITE FOR RESIDUE FMT A 836
07
AC7
SOFTWARE
HOH A:108 , LYS A:767 , HOH A:865
BINDING SITE FOR RESIDUE FMT A 837
08
AC8
SOFTWARE
HOH A:88 , ASN A:485 , SER A:486 , ARG A:487 , HOH A:874 , DG C:211 , DT C:212 , HOH C:225
BINDING SITE FOR RESIDUE FMT A 838
09
AC9
SOFTWARE
HOH A:22 , HOH A:40 , LYS A:354 , ASP A:355 , ARG A:563
BINDING SITE FOR RESIDUE FMT A 839
10
BC1
SOFTWARE
HOH B:2 , HOH B:4 , HOH B:5 , HOH B:6 , HOH B:115 , HOH C:218
BINDING SITE FOR RESIDUE MG B 7
11
BC2
SOFTWARE
GLU A:337 , PRO A:338 , TYR A:339 , LYS A:340 , DG B:101
BINDING SITE FOR RESIDUE FMT B 1
12
BC3
SOFTWARE
HOH B:119 , HOH C:1 , HOH C:4 , HOH C:221 , HOH C:222 , HOH C:223
BINDING SITE FOR RESIDUE MG C 7
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: DNA_POLYMERASE_A (A:659-678)
;
View:
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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)
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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
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CATH Domains
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Pfam Domains
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Asym.Unit (302 KB)
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