Three-dimensional Structure of the Channel-forming Trans-membrane Domain of Virus Protein “u” (Vpu) from HIV-1

2003 ◽  
Vol 333 (2) ◽  
pp. 409-424 ◽  
Author(s):  
Sang Ho Park ◽  
Anthony A. Mrse ◽  
Alexander A. Nevzorov ◽  
Michael F. Mesleh ◽  
Myrta Oblatt-Montal ◽  
...  
Keyword(s):  
Three Dimensional ◽  
Dimensional Structure ◽  
Virus Protein ◽  
Membrane Domain ◽  
Three Dimensional Structure ◽  
Virus Protein U ◽  
Hiv 1

scholarly journals Construction of A Preliminary Three-Dimensional Structure Simian betaretrovirus Serotype-2 (SRV-2) Reverse Transcriptase Isolated from Indonesian Cynomolgus Monkey

2020 ◽  
Vol 31 (3) ◽  
pp. 47-61
Author(s):  
Uus Saepuloh ◽  
Diah Iskandriati ◽  
Joko Pamungkas ◽  
Dedy Duryadi Solihin ◽  
Sela Septima Mariya ◽  
...  
Keyword(s):  
Reverse Transcriptase ◽  
Cynomolgus Monkey ◽  
Tertiary Structure ◽  
Vaccine Development ◽  
Three Dimensional ◽  
Dimensional Structure ◽  
Nucleotide Position ◽  
Structure Model ◽  
Three Dimensional Structure ◽  
Hiv 1

Simian betaretrovirus serotype-2 (SRV-2) is an important pathogenic agent in Asian macaques. It is a potential confounding variable in biomedical research. SRV-2 also provides a valuable viral model compared to other retroviruses which can be used for understanding many aspects of retroviral-host interactions and immunosuppression, infection mechanism, retroviral structure, antiretroviral and vaccine development. In this study, we isolated the gene encoding reverse transcriptase enzyme (RT) of SRV-2 that infected Indonesian cynomolgus monkey (Mf ET1006) and predicted the three dimensional structure model using the iterative threading assembly refinement (I-TASSER) computational programme. This SRV-2 RT Mf ET1006 consisted of 547 amino acids at nucleotide position 3284–4925 of whole genome SRV-2. The polymerase active site located in the finger/palm subdomain characterised by three conserved catalytic aspartates (Asp90, Asp165, Asp166), and has a highly conserved YMDD motif as Tyr163, Met164, Asp165 and Asp166. We estimated that this SRV-2 RT Mf ET1006 structure has the accuracy of template modelling score (TM-score 0.90 ± 0.06) and root mean square deviation (RMSD) 4.7 ± 3.1Å, indicating that this model can be trusted and the accuracy can be seen from the appearance of protein folding in tertiary structure. The superpositionings between SRV-2 RT Mf ET1006 and Human Immunodeficiency Virus-1 (HIV-1) RT were performed to predict the structural in details and to optimise the best fits for illustrations. This SRV-2 RT Mf ET1006 structure model has the highest homology to HIV-1 RT (2B6A.pdb) with estimated accuracy at TM-score 0.911, RMSD 1.85 Å, and coverage of 0.953. This preliminary study of SRV-2 RT Mf ET1006 structure modelling is intriguing and provide some information to explore the molecular characteristic and biochemical mechanism of this enzyme.

Three-dimensional structure of the RNase H domain of HIV-1 reverse transcriptase at 2. 4 Å resolution

Peptides ◽  
1992 ◽  
pp. 682-684
Author(s):  
David A. Matthews ◽  
Jay F. Davies ◽  
Zuzana Hostomska ◽  
Zdenek Hostomsky ◽  
Steven R. Jordan
Keyword(s):  
Reverse Transcriptase ◽  
Three Dimensional ◽  
Rnase H ◽  
Dimensional Structure ◽  
Three Dimensional Structure ◽  
Hiv 1

Three-dimensional Structure and Evolution of HIV-1 Protease

1990 ◽  
pp. 79-91
Author(s):  
Andrew Wilderspin ◽  
Duncan Gaskin ◽  
Risto Lapatto ◽  
Tom Blundell ◽  
Andrew Hemmings ◽  
...  
Keyword(s):  
Three Dimensional ◽  
Dimensional Structure ◽  
Three Dimensional Structure ◽  
Hiv 1

Three-dimensional structure of aspartyl protease from human immunodeficiency virus HIV-1

Nature ◽  
1989 ◽  
Vol 337 (6208) ◽  
pp. 615-620 ◽  
Author(s):  
Manuel A. Navia ◽  
Paula M. D. Fitzgerald ◽  
Brian M. McKeever ◽  
Chih-Tai Leu ◽  
Jill C. Heimbach ◽  
...  
Keyword(s):  
Human Immunodeficiency Virus ◽  
Three Dimensional ◽  
Dimensional Structure ◽  
Aspartyl Protease ◽  
Three Dimensional Structure ◽  
Immunodeficiency Virus ◽  
Hiv 1

scholarly journals 3TA5-06 The three-dimensional structure of human erythrocyte band 3 membrane domain determined by electron crystallography(The 47th Annual Meeting of the Biophysical Society of Japan)

2009 ◽  
Vol 49 (supplement) ◽  
pp. S59
Author(s):  
Tomohiro Yamaguchi ◽  
Yoko Hiroaki ◽  
Yohei Ikeda ◽  
Yoshito Abe ◽  
Hiroyuki Kuma ◽  
...  
Keyword(s):  
Annual Meeting ◽  
Human Erythrocyte ◽  
Three Dimensional ◽  
Band 3 ◽  
Dimensional Structure ◽  
Membrane Domain ◽  
Electron Crystallography ◽  
Three Dimensional Structure ◽  
Biophysical Society

scholarly journals Three-dimensional Structure of a Mutant HIV-1 Protease Displaying Cross-resistance to All Protease Inhibitors in Clinical Trials

1995 ◽  
Vol 270 (37) ◽  
pp. 21433-21436 ◽  
Author(s):  
Zhongguo Chen ◽  
Ying Li ◽  
Hilary B. Schock ◽  
Dawn Hall ◽  
Elizabeth Chen ◽  
...  
Keyword(s):  
Clinical Trials ◽  
Protease Inhibitors ◽  
Three Dimensional ◽  
Dimensional Structure ◽  
Cross Resistance ◽  
Three Dimensional Structure ◽  
Hiv 1

scholarly journals Three-dimensional Structure of HIV-1 Virus-like Particles by Electron Cryotomography

2005 ◽  
Vol 346 (2) ◽  
pp. 577-588 ◽  
Author(s):  
Jordan Benjamin ◽  
Barbie K. Ganser-Pornillos ◽  
William F. Tivol ◽  
Wesley I. Sundquist ◽  
Grant J. Jensen
Keyword(s):  
Three Dimensional ◽  
Dimensional Structure ◽  
Virus Like Particles ◽  
Three Dimensional Structure ◽  
Electron Cryotomography ◽  
Hiv 1

scholarly journals Three-Dimensional Structure of the Transmembrane Domain of Vpu from HIV-1 in Aligned Phospholipid Bicelles

2006 ◽  
Vol 91 (8) ◽  
pp. 3032-3042 ◽  
Author(s):  
Sang Ho Park ◽  
Anna A. De Angelis ◽  
Alexander A. Nevzorov ◽  
Chin H. Wu ◽  
Stanley J. Opella
Keyword(s):  
Transmembrane Domain ◽  
Three Dimensional ◽  
Dimensional Structure ◽  
Three Dimensional Structure ◽  
Hiv 1

The three-dimensional structure of the aspartyl protease from the HIV-1 isolate BRU

Biochimie ◽  
1991 ◽  
Vol 73 (11) ◽  
pp. 1391-1396 ◽  
Author(s):  
S SPINELLI ◽  
Q LIU ◽  
P ALZARI ◽  
P HIREL ◽  
R POLJAK
Keyword(s):  
Three Dimensional ◽  
Dimensional Structure ◽  
Aspartyl Protease ◽  
Three Dimensional Structure ◽  
Hiv 1
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