PDBsum entry 4e7h

Recombination/DNA

PDB id: 4e7h

Contents

Protein chains

368 a.a.

184 a.a.

DNA/RNA

Ligands

SO4 ×5

GOL ×9

HEZ

Metals

_ZN

Waters ×232

PDB id:

4e7h

Name:

Recombination/DNA

Title:

Pfv intasome prior to 3'-processing, apo form (ui-apo)

Structure:

Pro-pol polyprotein. Chain: a, b. Fragment: unp residues 752-1143. Synonym: pr125pol, protease/reverse transcriptase/ribonuclease h, p87pro-rt-rnaseh, protease/reverse transcriptase, p65pro-rt, ribonuclease h, rnase h, integrase, in, p42in. Ec: 2.7.7.49, 2.7.7.7, 3.1.26.4, 3.4.23.-. Engineered: yes. DNA (5'-

Source:

Human spumaretrovirus. Sfvcpz(hu). Organism_taxid: 11963. Strain: hsrv2. Gene: pol. Expressed in: escherichia coli. Expression_system_taxid: 562. Synthetic: yes. Synthetic DNA.

Resolution:

2.57Å R-factor: 0.188 R-free: 0.219

Authors:

S.Hare,P.Cherepanov

Key ref:

S.Hare et al. (2012). 3'-processing and strand transfer catalysed by retroviral integrase in crystallo. Embo J, 31, 3020-3028. PubMed id: 22580823

Date:

17-Mar-12 Release date: 23-May-12

Protein chain

P14350  (POL_FOAMV) -  Pro-Pol polyprotein from Human spumaretrovirus

Seq: 1143 a.a.

Struc: 368 a.a.*

Protein chain

P14350  (POL_FOAMV) -  Pro-Pol polyprotein from Human spumaretrovirus

Seq: 1143 a.a.

Struc: 184 a.a.*

* PDB and UniProt seqs differ at 4 residue positions (black crosses)

DNA/RNA chains

A-T-T-G-T-C-A-T-G-G-A-A-T-T-T-C-G-C-A 19 bases

T-G-C-G-A-A-A-T-T-C-C-A-T-G-A-C-A-A-T 19 bases

Enzyme reactions

• Enzyme class 2: Chains A, B: E.C.2.7.7.- - ?????
• Enzyme class 3: Chains A, B: E.C.2.7.7.49 - RNA-directed Dna polymerase.
• Reaction: DNA(n) + a 2'-deoxyribonucleoside 5'-triphosphate = DNA(n+1) + diphosphate
• Enzyme class 4: Chains A, B: E.C.2.7.7.7 - DNA-directed Dna polymerase.
• Reaction: DNA(n) + a 2'-deoxyribonucleoside 5'-triphosphate = DNA(n+1) + diphosphate
• Enzyme class 5: Chains A, B: E.C.3.1.-.-
• Enzyme class 6: Chains A, B: E.C.3.1.26.4 - ribonuclease H.
• Reaction: Endonucleolytic cleavage to 5'-phosphomonoester.
• Enzyme class 7: Chains A, B: E.C.3.4.23.- - ?????

Note, where more than one E.C. class is given (as above), each may correspond to a different protein domain or, in the case of polyprotein precursors, to a different mature protein.

Molecule diagrams generated from .mol files obtained from the KEGG ftp site

reference

Embo J 31:3020-3028 (2012)

PubMed id: 22580823

3'-processing and strand transfer catalysed by retroviral integrase in crystallo.

S.Hare, G.N.Maertens, P.Cherepanov.

ABSTRACT

No abstract given.