RT/RNase H (Reverse Transcriptase and RNase H)
HIV RT/RNase H forms a heterodimer with
RT/RNase H polyprotein and reverse transcribes viral RNA into DNA.
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[animated
gif: 320x240
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Isoforms:
Cleavage
site:
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Localization:
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Function:
- RT makes a double-stranded DNA copy of
the dimer of single-stranded RNA
- RT has both RNA-dependant and
DNA-dependant polymerase activity
- RNase H activity removes RNA strand from
RNA/DNA duplex
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Additional
Information:
- RT has low fidelity (high frequency of mutation)
- viral DNA can be completely synthesized within
6 hours of viral entry
- major
functional species of polymerase is a heterodimer of p50 (Reverse
Transcriptase) and p65 (Reverse Transcriptase - RNase H) (Ref. #2)
- many cis-acting elements in viral RNA are
required for the generation of viral DNA (Ref. #3)
- TAR
is a small RNA stem-loop structure located at 5'-end of viral RNA and
is required for initiation of Reverse Transcriptase (Ref. #3)
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Genomic Location: [TOP]
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Reference
Sequences:
HIV-1
(HXB2):
10 20 30 40 50 60 70
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PISPIETVPV KLKPGMDGPK VKQWPLTEEK IKALVEICTE MEKEGKISKI GPENPYNTPV FAIKKKDSTK
80 90 100 110 120 130 140
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WRKLVDFREL NKRTQDFWEV QLGIPHPAGL KKKKSVTVLD VGDAYFSVPL DEDFRKYTAF TIPSINNETP
150 160 170 180 190 200 210
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GIRYQYNVLP QGWKGSPAIF QSSMTKILEP FRKQNPDIVI YQYMDDLYVG SDLEIGQHRT KIEELRQHLL
220 230 240 250 260 270 280
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RWGLTTPDKK HQKEPPFLWM GYELHPDKWT VQPIVLPEKD SWTVNDIQKL VGKLNWASQI YPGIKVRQLC
290 300 310 320 330 340 350
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KLLRGTKALT EVIPLTEEAE LELAENREIL KEPVHGVYYD PSKDLIAEIQ KQGQGQWTYQ IYQEPFKNLK
360 370 380 390 400 410 420
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TGKYARMRGA HTNDVKQLTE AVQKITTESI VIWGKTPKFK LPIQKETWET WWTEYWQATW IPEWEFVNTP
430 440 450 460 470 480 490
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PLVKLWYQLE KEPIVGAETF YVDGAANRET KLGKAGYVTN RGRQKVVTLT DTTNQKTELQ AIYLALQDSG
500 510 520 530 540 550 560
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LEVNIVTDSQ YALGIIQAQP DQSESELVNQ IIEQLIKKEK VYLAWVPAHK GIGGNEQVDK LVSAGIRKVL
[download in fasta format]
Length:
560 amino acids (residues 155 to 715)
Molecular Weight: 64479 Da
Theoretical pI: 8.57
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Primary and
Secondary Database Entries: [TOP]
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Identifiers:
PDB:
Search for
HIV & p66
SwissProt:
P04585
(HIV-1 HXB2 POL)
EMBL: K03455; AAB50259.1 [EMBL/GenBank/DDBJ]
PIR: UNKNOWN
HIV: K03455; UNKNOWN$HXB2
InterPro: IPR008187;UNKNOWN
Pfam: PF00558;UNKNOWN
Prints: none
ProDom: PD000472
SCOP: SSF56672;
DNA/RNA polymerase / SSF53098;
Ribonuclease H-like
BLOCKS: P04585
Prosite: P04585
ProtoNet: P04585
ProtoMap: P04585
PRESAGE: P04585
Database of Interacting Proteins: P04585
ModBase: P04585
Swiss-2DPAGE: 2D gel
- BioAfrica
Tools:
- -
Pol Protein Data
Mining Tool
provides real-time analysis of HIV-1 Pol isolates
- -
HIV
Structure BLAST searches for similar HIV sequences that have known
structures
- -
HIV
Proteomics Resource contains protein sequence and structure
analysis tools
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Reviews and
References: [TOP]
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- 0
- HIV Sequence Compendium 2000
- Kuiken
CL, Foley B, Hahn B, Korber B, Marx PA, McCutchan F, Mellors JW,
Mullins JI, Sodroski J, Wolinksy S.
- Theoretical
Biol. & Biophys. Group, Los
Alamos Nat Lab, LA-UR 01-3860 [Read it online: Compendium]
- 0
- Retroviruses
- Coffin
JM, Hughes SH, Varmus HE.
- CD-ROM
ed. (2002) Cold
Spring Harbor Laboratory Press [Read it online: NCBI
Bookshelf]
- 1
- Molecular Characteristics of HIV-1 Subtype C Viruses from
KwaZulu-Natal, South Africa:
- Implications
for Vaccine and Antiretroviral Control Strategies.
- Gordon
M, De Oliveira T, Bishop K, Coovadia HM, Madurai L, Engelbrecht S,
Janse van Rensburg E, Mosam A, Smith A, Cassol S.
- Journal
of Virology 77(4): 2587-2599 (2003) [pubmed: 12551997]
- 2
- Crystal structure at 3.5 A resolution of HIV-1 reverse
transcriptase complexed with an inhibitor.
- Kohlstaedt
LA, Wang J, Friedman JM.
- Science
256: 1783-1790 (1992) [pubmed: 1377403]
- 3
- A critical role for the TAR element in promoting efficient human
immunodeficiency virus type 1
- reverse
transcription.
- Harrich
D, Ulich C, Gaynor RB.
- J
Virol 70: 4017-4127 (1996) [pubmed: 8648739]
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