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2AJQ
Asym. Unit
Info
Asym.Unit (305 KB)
Biol.Unit 1 (152 KB)
Biol.Unit 2 (151 KB)
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(1)
Title
:
STRUCTURE OF REPLICATIVE DNA POLYMERASE PROVIDES INSIGTS INTO THE MECHANISMS FOR PROCESSIVITY, FRAMESHIFTING AND EDITING
Authors
:
L. Brieba, T. Ellenberger
Date
:
02 Aug 05 (Deposition) - 26 Sep 06 (Release) - 17 Nov 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.60
Chains
:
Asym. Unit : A,B,F,I,P,T,X,Z
Biol. Unit 1: A,B,P,T (1x)
Biol. Unit 2: F,I,X,Z (1x)
Keywords
:
Polymerase T7; X-Ray Crystallography; Ternary Complex, Transferase, Transcription/Dna Complex, Transferase, Transcription/Dna Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
L. Brieba, T. Ellenberger
Structure Of Replicative Dna Polymerase Provides Insigts Into The Mechanisms For Processivity, Frameshifting And Editing
To Be Published
(for further references see the
PDB file header
)
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: 3'-DEOXYTHYMIDINE-5'-MONOPHOSPHATE (2DTa)
1b: 3'-DEOXYTHYMIDINE-5'-MONOPHOSPHATE (2DTb)
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No.
Name
Count
Type
Full Name
1
2DT
2
Mod. Nucleotide
3'-DEOXYTHYMIDINE-5'-MONOPHOSPHATE
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Sites
(0, 0)
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: THIOREDOXIN_1 (B:24-42,I:24-42)
2: DNA_POLYMERASE_A (A:518-537,F:518-537)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
THIOREDOXIN_1
PS00194
Thioredoxin family active site.
THIO_ECOLI
25-43
2
B:24-42
I:24-42
2
DNA_POLYMERASE_A
PS00447
DNA polymerase family A signature.
DPOL_BPT7
518-537
2
A:518-537
F:518-537
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Exons
(0, 0)
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(3, 6)
Info
All SCOP Domains
1a: SCOP_d2ajqa1 (A:1-210)
1b: SCOP_d2ajqf1 (F:1-210)
2a: SCOP_d2ajqb_ (B:)
2b: SCOP_d2ajqi_ (I:)
3a: SCOP_d2ajqa2 (A:211-704)
3b: SCOP_d2ajqf2 (F:211-704)
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)
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)
(
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Ribonuclease H-like motif
(1424)
Superfamily
:
Ribonuclease H-like
(775)
Family
:
DnaQ-like 3'-5' exonuclease
(253)
Protein domain
:
Exonuclease domain of T7 DNA polymerase
(17)
Bacteriophage T7 [TaxId: 10760]
(17)
1a
d2ajqa1
A:1-210
1b
d2ajqf1
F:1-210
Fold
:
Thioredoxin fold
(994)
Superfamily
:
Thioredoxin-like
(992)
Family
:
Thioltransferase
(167)
Protein domain
:
Thioredoxin
(106)
Escherichia coli [TaxId: 562]
(47)
2a
d2ajqb_
B:
2b
d2ajqi_
I:
Class
:
Multi-domain proteins (alpha and beta)
(2421)
Fold
:
DNA/RNA polymerases
(850)
Superfamily
:
DNA/RNA polymerases
(850)
Family
:
DNA polymerase I
(233)
Protein domain
:
T7 phage DNA polymerase
(17)
Bacteriophage T7 [TaxId: 10760]
(17)
3a
d2ajqa2
A:211-704
3b
d2ajqf2
F:211-704
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CATH Domains
(5, 10)
Info
all CATH domains
1a: CATH_2ajqA03 (A:415-477,A:590-704)
1b: CATH_2ajqF03 (F:415-477,F:590-704)
2a: CATH_2ajqA01 (A:1-232)
2b: CATH_2ajqF01 (F:1-232)
3a: CATH_2ajqB00 (B:3-107)
3b: CATH_2ajqI00 (I:3-107)
4a: CATH_2ajqA04 (A:478-589)
4b: CATH_2ajqF04 (F:478-589)
5a: CATH_2ajqF02 (F:233-414)
5b: CATH_2ajqA02 (A:233-414)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Alpha-Beta Plaits
(1688)
Homologous Superfamily
:
[code=3.30.70.370, no name defined]
(99)
[unclassified]
(84)
1a
2ajqA03
A:415-477,A:590-704
1b
2ajqF03
F:415-477,F:590-704
Topology
:
Nucleotidyltransferase; domain 5
(788)
Homologous Superfamily
:
[code=3.30.420.10, no name defined]
(372)
[unclassified]
(102)
2a
2ajqA01
A:1-232
2b
2ajqF01
F:1-232
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Glutaredoxin
(620)
Homologous Superfamily
:
Glutaredoxin
(617)
[unclassified]
(18)
3a
2ajqB00
B:3-107
3b
2ajqI00
I:3-107
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
DNA polymerase; domain 1
(617)
Homologous Superfamily
:
5' to 3' exonuclease, C-terminal subdomain
(384)
[unclassified]
(230)
4a
2ajqA04
A:478-589
4b
2ajqF04
F:478-589
Architecture
:
Up-down Bundle
(3216)
Topology
:
Taq DNA Polymerase; Chain T, domain 4
(88)
Homologous Superfamily
:
Taq DNA Polymerase; Chain T, domain 4
(88)
[unclassified]
(77)
5a
2ajqF02
F:233-414
5b
2ajqA02
A:233-414
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Pfam Domains
(0, 0)
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Asymmetric Unit 1
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Asym.Unit (305 KB)
Header - Asym.Unit
Biol.Unit 1 (152 KB)
Header - Biol.Unit 1
Biol.Unit 2 (151 KB)
Header - Biol.Unit 2
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