7LNF: 3'-deoxy modification at 3' end of RNA primer complex with guanosine dinucleotide ligand G(5')ppp(5')G

PDB ID: 7LNFDownload
MMDB ID: 206347
PDB Deposition Date: 2021/2/7
Updated in MMDB: 2023/10
Experimental Method:
x-ray diffraction
Resolution: 1.652  Å
Source Organism:
Biological Unit for 7LNF: dimeric; determined by author
Molecular Components in 7LNF
Label Count Molecule
Nucleotides(2 molecules)
2
RNA (5'-r(*(lcc)p*(lcc)p*(lcc)p*(lcg)p*ap*cp*up*up*ap*ap*gp*up*cp*(gdo))-3')
Molecule annotation
Chemicals and Non-standard biopolymers (22 molecules)
1
4
[(1R,3R,4R,7S)-7-HYDROXY-3-(5-METHYLCYTOSIN-1-YL)-2,5-DIOXABICYCLO[2.2.1]HEPT-1-YL]METHYL DIHYDROGEN PHOSPHATE[(1R,3R,4R,7S)-7-HYDROXY-3-(5-METHYLCYTOSIN-1-YL)-2,5-DIOXABICYCLO[2.2.1]HEPT-1-YL]METHYL DIHYDROGEN PHOSPHATE
2
2
[(1R,3R,4R,7S)-7-HYDROXY-3-(GUANIN-9-YL)-2,5-DIOXABICYCLO[2.2.1]HEPT-1-YL]METHYL DIHYDROGEN PHOSPHATE[(1R,3R,4R,7S)-7-HYDROXY-3-(GUANIN-9-YL)-2,5-DIOXABICYCLO[2.2.1]HEPT-1-YL]METHYL DIHYDROGEN PHOSPHATE
3
2
3'-deoxy-guanosine 5'-monophosphate3'-deoxy-guanosine 5'-monophosphate
4
2
4-AMINO-1-[(1S,3R,4R,7S)-7-HYDROXY-1-(HYDROXYMETHYL)-2,5-DIOXABICYCLO[2.2.1]HEPT-3-YL]-5-METHYLPYRIMIDIN-2(1H)-ONE4-AMINO-1-[(1S,3R,4R,7S)-7-HYDROXY-1-(HYDROXYMETHYL)-2,5-DIOXABICYCLO[2.2.1]HEPT-3-YL]-5-METHYLPYRIMIDIN-2(1H)-ONE
5
2
DIGUANOSINE-5'-TRIPHOSPHATEDIGUANOSINE-5'-TRIPHOSPHATE
6
8
MAGNESIUM IONMAGNESIUM ION
7
2
COBALT (II) IONCOBALT (II) ION
* Click molecule labels to explore molecular sequence information.
Citing MMDB
Madej T, Lanczycki CJ, Zhang D, Thiessen PA, Geer RC, Marchler-Bauer A, Bryant SH. " MMDB and VAST+: tracking structural similarities between macromolecular complexes. Nucleic Acids Res. 2014 Jan; 42(Database issue):D297-303