› 3jts

X-ray diffraction
2.8Å resolution

GY9-Mamu-A*02-hb2m

Released:
DOI: 10.2210/pdb3jts/pdb
PDB entry 3jts coloured by chain, front view.
PDB entry 3jts coloured by chain, side view.
PDB entry 3jts coloured by chain, top view.
Source organisms:
Entry authors: Dai L, Feng Y, Qi J, Gao GF

Function and Biology Details

Reactions catalysed: 
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
3'-end directed exonucleolytic cleavage of viral RNA-DNA hybrid
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.
Specific for a P1 residue that is hydrophobic, and P1' variable, but often Pro.
Biochemical function:
  • not assigned
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-148619 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Ig-like domain-containing protein Chains: A, D, G
Molecule details ›
Chains: A, D, G
Length: 276 amino acids
Theoretical weight: 32.11 KDa
Source organism: Macaca mulatta
Expression system: Escherichia coli
UniProt:
  • Canonical: Q30597 (Residues: 17-292; Coverage: 81%)
Sequence domains:
Structure domains:
Beta-2-microglobulin Chains: B, E, H
Molecule details ›
Chains: B, E, H
Length: 119 amino acids
Theoretical weight: 13.73 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P61769 (Residues: 1-119; Coverage: 100%)
Gene names: B2M, CDABP0092, HDCMA22P
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins
Matrix protein p17 Chains: C, F, I
Molecule details ›
Chains: C, F, I
Length: 9 amino acids
Theoretical weight: 1.01 KDa
Source organism: Simian immunodeficiency virus (PBJ/BC13 ISOLATE) (SOOTY MANGABEY)
Expression system: Not provided
UniProt:
  • Canonical: P19505 (Residues: 71-79; Coverage: 1%)
Gene name: gag-pol

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-007 HF
Spacegroup: C2
Unit cell:
a: 123.96Å b: 110.331Å c: 100.095Å
α: 90° β: 114.32° γ: 90°
R-values:
R R work R free
0.199 0.197 0.248
Expression systems:
  • Escherichia coli
  • Not provided

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