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3LP3
Biol. Unit 3
Info
Asym.Unit (48 KB)
Biol.Unit 1 (23 KB)
Biol.Unit 2 (23 KB)
Biol.Unit 3 (44 KB)
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(1)
Title
:
P15 HIV RNASEH DOMAIN WITH INHIBITOR MK3
Authors
:
Y. Yan, S. K. Munshi, G. S. Prasad, H. P. Su
Date
:
04 Feb 10 (Deposition) - 09 Jun 10 (Release) - 21 Jul 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: A,B (1x)
Keywords
:
Reverse Transcriptase, Rnase H, Hiv, Aids, Capsid Maturation, Dna Integration, Dna-Directed Dna Polymerase, Endonuclease, Host Cytoplasm, Host Nucleus, Multifunctional Enzyme, Rna-Binding, Rna- Directed Dna Polymerase, Viral Nucleoprotein, Virion, Viral Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. P. Su, Y. Yan, G. S. Prasad, R. F. Smith, C. L. Daniels, P. D. Abeywickrema, J. C. Reid, H. M. Loughran, M. Kornienko, S. Sharma J. A. Grobler, B. Xu, V. Sardana, T. J. Allison, P. D. Williams, P. L. Darke, D. J. Hazuda, S. Munshi
Structural Basis For The Inhibition Of Rnase H Activity Of Hiv-1 Reverse Transcriptase By Rnase H Active Site-Directed Inhibitors.
J. Virol. V. 84 7625 2010
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Hetero Components
(1, 1)
Info
All Hetero Components
1a: 3-[4-(DIETHYLAMINO)PHENOXY]-6-(ETH... (LP9a)
1b: 3-[4-(DIETHYLAMINO)PHENOXY]-6-(ETH... (LP9b)
2a: MANGANESE (II) ION (MNa)
2b: MANGANESE (II) ION (MNb)
2c: MANGANESE (II) ION (MNc)
2d: MANGANESE (II) ION (MNd)
View:
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No.
Name
Count
Type
Full Name
1
LP9
1
Ligand/Ion
3-[4-(DIETHYLAMINO)PHENOXY]-6-(ETHOXYCARBONYL)-5,8-DIHYDROXY-7-OXO-7,8-DIHYDRO-1,8-NAPHTHYRIDIN-1-IUM
2
MN
-1
Ligand/Ion
MANGANESE (II) ION
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Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
MN A:2 , LP9 A:3 , HOH A:4 , ASP A:443 , ASP A:549
BINDING SITE FOR RESIDUE MN A 1
2
AC2
SOFTWARE
MN A:1 , LP9 A:3 , ASP A:443 , GLU A:478 , ASP A:498
BINDING SITE FOR RESIDUE MN A 2
3
AC3
SOFTWARE
MN A:1 , MN A:2 , HOH A:4 , ASP A:443 , GLN A:475 , GLU A:478 , ASP A:498 , HIS A:539 , ASP A:549 , SER A:553 , GLN B:500 , TRP B:535
BINDING SITE FOR RESIDUE LP9 A 3
4
AC4
SOFTWARE
GLN A:500 , MN B:2 , MN B:3 , ASP B:443 , ARG B:448 , GLN B:475 , GLU B:478 , ASP B:498 , HIS B:539 , ASP B:549
BINDING SITE FOR RESIDUE LP9 B 1
5
AC5
SOFTWARE
LP9 B:1 , HOH B:5 , ASP B:443 , ASP B:549
BINDING SITE FOR RESIDUE MN B 2
6
AC6
SOFTWARE
LP9 B:1 , ASP B:443 , GLU B:478 , ASP B:498
BINDING SITE FOR RESIDUE MN B 3
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: RNASE_H (A:434-556,B:434-556)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
RNASE_H
PS50879
RNase H domain profile.
POL_HV1LW
1021-1144
2
A:434-556
B:434-556
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d3lp3a_ (A:)
1b: SCOP_d3lp3b_ (B:)
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Protein Domains
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Organisms
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(
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Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Ribonuclease H-like motif
(1424)
Superfamily
:
Ribonuclease H-like
(775)
Family
:
Ribonuclease H
(190)
Protein domain
:
HIV RNase H (Domain of reverse transcriptase)
(110)
Human immunodeficiency virus type 1 [TaxId: 11676]
(101)
1a
d3lp3a_
A:
1b
d3lp3b_
B:
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CATH Domains
(0, 0)
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all CATH domains
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Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_RNase_H_3lp3B01 (B:435-556)
1b: PFAM_RNase_H_3lp3B02 (B:435-556)
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Clan
:
RNase_H
(288)
Family
:
RNase_H
(128)
Human immunodeficiency virus type 1 group M subtype B (isolate LW123) (HIV-1)
(1)
1a
RNase_H-3lp3B01
B:435-556
1b
RNase_H-3lp3B02
B:435-556
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Show PDB file:
Asym.Unit (48 KB)
Header - Asym.Unit
Biol.Unit 1 (23 KB)
Header - Biol.Unit 1
Biol.Unit 2 (23 KB)
Header - Biol.Unit 2
Biol.Unit 3 (44 KB)
Header - Biol.Unit 3
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