1. The Crystal Structure of the Monomeric Reverse Transcriptase from Moloney Murine Leukemia Virus 
Debanu Das, Millie M Georgiadis 
Structure 
Volume 12, Issue 5, Pages (May 2004)
DOI: /j.str

2. Figure 1
Representative Electron Density Maps Obtained from the MMVL RT:DNA Crystals
(A) A surface representation of electron density at 1.5σ in 2Fo-Fc map for part of the thumb domain with the model shown as a stick rendering in blue.
(B) The solvent-flattened electron density for the MMLV RT at 1.0 σ obtained by combination of experimental and model phases is shown with well-ordered density (green cage) for the fingers, palm, thumb, and connection domains (black trace) and less well-ordered density for the RNase H domain (magenta trace).
Structure  , DOI: ( /j.str )

3. Figure 2
The Crystal Structure of the MMLV RT and a Comparison with the p66 Subunit of the HIV-1 RT
(A) A ribbon rendering of the MMLV RT is shown with the fingers domain in red, palm in blue, thumb in green, connection in yellow, and the RNase H in magenta.
(B) A structural comparison of the MMLV RT monomer is shown in the same color scheme as in (A) with the p66 subunit of HIV-1 RT shown in gray. The structures were superimposed using the highly conserved structural elements in the palm domains. In contrast to the rather extended p66 subunit of HIV-1 RT, the MMLV RT is a far more clamp-shaped molecule.
Structure  , DOI: ( /j.str )

4. Figure 3
A Comparison of the Molecular Surfaces of MMLV RT and HIV-1 RT
The electrostatic surface potential representations are shown for (A) the MMLV RT (B) the p66/p51 heterodimer of HIV-1 RT and (C) the p66 subunit of HIV-1 RT alone. The overall shape of the MMLV RT is clamp like and distinct from that of the heterodimeric HIV-1 RT or the p66 subunit of HIV-1 RT. Also apparent is a conserved positively charged patch (blue) in the central portion (connection domain) of the two enzymes, which may play a role in protein-DNA interactions during nucleotide synthesis.
Structure  , DOI: ( /j.str )

5. Figure 4
A Comparison of the Full-Length and N-Terminal Fragment of MMLV RT
The fingers and palm domains from the MMLV RT are shown in red with the corresponding domains from the N-terminal fragment of MMLV RT (1QAJ) in blue illustrating that the structures are remarkably similar. Of particular interest is the fact that the relative position of the fingers domain with respect to the palm domain is invariant in the many structures that we have reported of the N-terminal fragment and now in the full-length MMLV RT.
Structure  , DOI: ( /j.str )

6. Figure 5
A Comparison of the Thumb and Connections Domains from MMLV RT and HIV-1 RT
(A) A ribbon rendering of the thumb domain from MMLV RT is shown in blue superimposed with the corresponding domain of the p66 subunit of the HIV-1 RT shown in gray. The two domains have similar folds but superimpose with an rmsd of 4.9 Å indicative of the significant structural differences between them. Amino acid residues in MMLV RT (R298, E302, and T306) that correspond to the “minor groove binding tract” of HIV-1 RT (Q258, G262, and W266) are highlighted in red illustrating the structural differences between the two enzymes most notably in the length and path of the corresponding α helices.
(B) The connection domains from MMLV RT in yellow and the p66 subunit of HIV-1 RT in gray are shown superimposed revealing again similar folds but significant structural differences. Notably, the polypeptide linking the connection domain with the RNase H domain in the two enzymes are located on opposite ends of the connection domain.
Structure  , DOI: ( /j.str )

7. Figure 6
A Structure-Based Sequence Alignment of the MMLV RT with the HIV-1 RT
Secondary structural elements from the fingers, palm, thumb, and connection domains assigned by using the Kabsch and Sanders algorithm (Kabsch and Sander, 1983; Laskowski et al., 1993) are indicated above the sequence for MMLV RT and below for HIV-1 RT. The arrows indicate β strands and coils α helices with color coded by domain as in Figure 2. Although the positions of the secondary structural elements are similar in the two enzymes, the lengths of these secondary structural elements differ significantly. The red boxes (white text) indicate sequences that are identical in the two enzymes and white boxes (red text) those that are similar. Readily apparent is the far greater sequence identity within the fingers and palm domains (∼30%) than in the thumb and connection domains (∼10%). Also of note is a small insertion in the thumb domain including residues 328–333 and a large insertion between the connection and RNase H domains including residues 473–504 in MMLV RT that is not found in HIV-1 RT.
Structure  , DOI: ( /j.str )

8. Figure 7
The Trajectory of Template-Primer Exiting the Polymerase Active Site of MMLV RT Differs from that of HIV-1 RT or DNA Pol 1 Enzymes
(A) A ribbon rendering of the MMLV RT with the domains color coded as in Figure 2.
(B) The same view of MMLV RT with the template-primer from Taq (black) and HIV-1 RT (gray) shown following superpositioning of common structural elements in the palm or palm and fingers domains, respectively. Neither of these trajectories is plausible due to steric clash suggesting that the trajectory for the template-primer in MMLV RT differs significantly from the two shown.
Structure  , DOI: ( /j.str )