Structure of PDB 1rtd Chain C Binding Site BS02

Receptor Information

>1rtd Chain C (length=554) Species: 11676 (Human immunodeficiency virus 1)

KISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKISKI
GPENPYNTPVFAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGL
KKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLP
QGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMDDLYVGSDLEIGQHRT
KIEELRQHLLRWGLTTPDKKHQKEPPFLWMGYELHPDKWTVQPIVLPEKD
SWTVNDICKLVGKLNWASQIYPGIKVRQLCKLLRGTKALTEVIPLTEEAE
LELAENREILKEPVHGVYYDPSKDLIAEIQKQGQGQWTYQIYQEPFKNLK
TGKYARMRGAHTNDVKQLTEAVQKITTESIVIWGKTPKFKLPIQKETWET
WWTEYWQATWIPEWEFVNTPPLVKLWYQLEKEPIVGAETFYVDGAANRET
KLGKAGYVTNKGRQKVVPLTDTTNQKTQLQAIYLALQDSGLEVNIVTDSQ
YALGIIQAQPDESESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDK
LVSA

Ligand information

>1rtd Chain H (length=21)

cagtccctgttcgagcgccgg

Receptor-Ligand Complex Structure

Structure summary

• PDB: 1rtd Structure of a covalently trapped catalytic complex of HIV-1 reverse transcriptase: implications for drug resistance.
• Resolution: 3.2 Å
• Binding residue (original residue number in PDB): Y183 M184 M230 C258 K259 G262 K263 W266 L289 H361 R448 K451 T473 Q475 K476 Y501
• Binding residue (residue number reindexed from 1): Y183 M184 M230 C258 K259 G262 K263 W266 L289 H361 R448 K451 T473 Q475 K476 Y501

Enzymatic activity

• Enzyme Commision number: 2.7.7.-
  2.7.7.49: RNA-directed DNA polymerase.
  2.7.7.7: DNA-directed DNA polymerase.
  3.1.-.-
  3.1.13.2: exoribonuclease H.
  3.1.26.13: retroviral ribonuclease H.
  3.4.23.16: HIV-1 retropepsin.

Gene Ontology

Molecular Function

• GO:0003676 nucleic acid binding
• GO:0003964 RNA-directed DNA polymerase activity
• GO:0004523 RNA-DNA hybrid ribonuclease activity

Biological Process

• GO:0006278 RNA-templated DNA biosynthetic process

External links

• PDB: RCSB:1rtd, PDBe:1rtd, PDBj:1rtd
• PDBsum: 1rtd
• PubMed: 9831551
• UniProt: P03366|POL_HV1B1 Gag-Pol polyprotein (Gene Name=gag-pol)