Structure of PDB 4b3o Chain A

Receptor sequence
>4b3oA (length=540) Species: 11676 (Human immunodeficiency virus 1) [Search protein sequence]
PIETVPVKLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKISKIGPE
NPYNTPVFVDFRELNKKTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYF
SVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTK
ILEPFRKQNPDIVIYQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGLTT
PDKKHQKEPPFLWMGYELHPDKWTVQPIVLPEKDSWTVNDIQKLVGKLNW
ASQIYPGIKVRQLCKLLRGTKALTEVIPLTEEAELELAENREILKEPVHG
VYYDPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRGAHTNDVK
QLTEAVQKITTESIVIWGKTPKFKLPIQKETWETWWTEYWQATWVPEWEF
VNTPPLVKLWYQLEKEPIVGAETFYVDGAASRETKLGKAGYVTNKGRQKV
VTLTDTTNQKTELQAIHLALQDSGLEVNIVTDSQYALGIIQAQPDQSESE
LVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGI
3D structure
PDB4b3o Complexes of HIV-1 RT, Nnrti and RNA/DNA Hybrid Reveal a Structure Compatible with RNA Degradation
ChainA
Resolution3.3 Å
3D
structure
[Spin on]
[Spin off]
[Reset orientation]

[High quality]
[Low quality]

[White background]
[Black background]

[Download]
[Download structure with residue number starting from 1]
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.
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 dna A Q151 M184 M230 G231 N255 Q258 K259 G262 K263 W266 K366 Q407 T473 Q475 Y501 Q135 M168 M214 G215 N239 Q242 K243 G246 K247 W250 K350 Q391 T457 Q459 Y485
BS02 rna A W24 L92 N265 C280 L283 R284 K353 N474 H539 W21 L76 N249 C264 L267 R268 K337 N458 H523
BS03 EFZ A L100 K101 V106 Y181 Y188 F227 L84 K85 V90 Y165 Y172 F211 BindingDB: IC50=25nM,Ki=30nM
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

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:4b3o, PDBe:4b3o, PDBj:4b3o
PDBsum4b3o
PubMed23314251
UniProtP04585|POL_HV1H2 Gag-Pol polyprotein (Gene Name=gag-pol)

[Back to BioLiP]