SMTL ID : 5d3g.2 (1 other biounit)

Structure of HIV-1 Reverse Transcriptase Bound to a Novel 38-mer Hairpin Template-Primer DNA Aptamer

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-1-1-mer

Ligands

1 x GLC- FRU: beta-D-fructofuranose-(2-1)-alpha-D-glucopyranose(Non-covalent)

GLC-FRU.1: 12 residues within 4Å: Chain B: V.37, W.40, D.92, R.94, E.95, K.98, K.411, E.415, E.429, W.430, F.432 Ligands: GOL.6 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:K.411, B:E.415, B:W.430, B:D.92, B:E.95, B:E.95, B:K.98, B:K.98, B:W.430, B:W.430 Water bridges: B:E.95

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 3 residues within 4Å: Chain A: K.331, G.333, Q.334 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.334 Water bridges: A:K.331, A:K.512 Salt bridges: A:K.331, A:K.512

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 7 residues within 4Å: Chain A: K.366, T.369, E.370, A.408, T.409 Chain B: Q.410, T.413 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.370, A:E.370, A:A.408, A:T.409 GOL.4: 8 residues within 4Å: Chain B: W.282, E.344, Q.356, Y.358, P.361, F.362, N.364, W.442 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.344, B:F.362, B:N.364, B:N.364 GOL.5: 7 residues within 4Å: Chain A: L.92, V.381 Chain B: Q.39, W.40, P.41, P.149, N.153 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Q.39, B:N.153 Water bridges: B:S.150, B:S.150, B:N.153 GOL.6: 5 residues within 4Å: Chain B: W.40, E.415, W.418, T.419 Ligands: GLC-FRU.1 2 PLIP interactions: 2 interactions with chain B Water bridges: B:E.415, B:T.416 GOL.7: 5 residues within 4Å: Chain A: N.265, Q.269 Chain C: C.10, C.11, G.35 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.265, A:Q.269 Water bridges: A:S.268

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Miller, M.T. et al., Structure of HIV-1 reverse transcriptase bound to a novel 38-mer hairpin template-primer DNA aptamer. Protein Sci. (2016)

Release Date

2015-09-30

Peptides

HIV-1 REVERSE TRANSCRIPTASE P66 subunit: A
HIV-1 REVERSE TRANSCRIPTASE P51 subunit: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

HIV-1 REVERSE TRANSCRIPTASE P66 subunit

HIV-1 REVERSE TRANSCRIPTASE P51 subunit

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