Brand  (β version)

PDB ID: 4NX4

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Ligands
Code Name Style Show Link
CL Chloride ion PoSSuM
JPR 1-(3-chloro-4-methylphenyl)-3-{2-[({5-[(dimethylamino)methyl]-2-furyl}methyl)thio]ethyl}urea PoSSuM
ZN Zinc ion PoSSuM
Non-standard Residues
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Structure summary

Code : 4NX4   PDBj   RCSB PDB   PDBe
Header : VIRAL PROTEIN
Title : Re-refinement of CAP-1 HIV-CA complex
Release Data : 2014-02-26
Compound :
mol_id molecule chains synonym
1 Gag-Pol polyprotein C Capsid protein p24
fragment: HIV-1 CAPSID (UNP residues 133-278)
Source :
mol_id organism_scientific organism_common expression_system
1 Human immunodeficiency virus type 1  (taxid:11698) HIV-1 Escherichia coli  (taxid:562)
strain: NEW YORK-5 ISOLATE
Authors : Lang, P.T., Holton, J.M., Fraser, J.S., Alber, T.
Keywords : CAPSID, VIRAL PROTEIN
Exp. method : X-RAY DIFFRACTION ( 1.500 Å )
Citation :

Protein structural ensembles are revealed by redefining X-ray electron density noise.

Lang, P.T.,Holton, J.M.,Fraser, J.S.  et al.
(2014)  Proc.Natl.Acad.Sci.USA  111 : 237 - 242

PubMed: 24363322
DOI: 10.1073/pnas.1302823110

Structure of the antiviral assembly inhibitor CAP-1 complex with the HIV-1 CA protein.

Kelly, B.N.,Kyere, S.,Kinde, I.  et al.
(2007)  J.Mol.Biol.  373 : 355 - 366

PubMed: 17826792
DOI: 10.1016/j.jmb.2007.07.070

Reaction

Chain : C
UniProt : P12497 (POL_HV1N5)
Reaction: EC: Evidence:
Physiological Direction:
Specific for a P1 residue that is hydrophobic, and P1' variable, but often Pro. 3.4.23.16 PROSITE-ProRule:PRU00275
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Endohydrolysis of RNA in RNA/DNA hybrids. Three different cleavage modes: 1. sequence-specific internal cleavage of RNA. Human immunodeficiency virus type 1 and Moloney murine leukemia virus enzymes prefer to cleave the RNA strand one nucleotide away from the RNA-DNA junction. 2. RNA 5'-end directed cleavage 13-19 nucleotides from the RNA end. 3. DNA 3'-end directed cleavage 15-20 nucleotides away from the primer terminus. 3.1.26.13 ECO:0000250
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3'-end directed exonucleolytic cleavage of viral RNA-DNA hybrid. 3.1.13.2 ECO:0000250
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DNA(n) + a 2'-deoxyribonucleoside 5'-triphosphate = DNA(n+1) + diphosphate 2.7.7.49 PROSITE-ProRule:PRU00405
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DNA(n) + a 2'-deoxyribonucleoside 5'-triphosphate = DNA(n+1) + diphosphate 2.7.7.7 PROSITE-ProRule:PRU00405
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Cofactor: Evidence: Note:
Mg(2+) ECO:0000250
Binds 2 magnesium ions for reverse transcriptase polymerase activity.
Mg(2+) ECO:0000250
Binds 2 magnesium ions for ribonuclease H (RNase H) activity. Substrate-binding is a precondition for magnesium binding.
Mg(2+) ECO:0000250
Magnesium ions are required for integrase activity. Binds at least 1, maybe 2 magnesium ions.