2F4V: 30S ribosome + designer antibiotic

PDB ID: 2F4VDownload
MMDB ID: 39836
PDB Deposition Date: 2005/11/24
Updated in MMDB: 2024/10
Experimental Method:
x-ray diffraction
Resolution: 3.8  Å
Source Organism:
Similar Structures:
Biological Unit for 2F4V: 21-meric; determined by author
Molecular Components in 2F4V
Label Count Molecule
Proteins (19 molecules)
1
30S Ribosomal Protein S2
(Gene symbol: rpsB)
Molecule annotation
1
30S Ribosomal Protein S3
(Gene symbol: rpsC)
Molecule annotation
1
30S Ribosomal Protein S4
(Gene symbol: rpsD)
Molecule annotation
1
30S Ribosomal Protein S5
Molecule annotation
1
30S Ribosomal Protein S6
Molecule annotation
1
30S Ribosomal Protein S7
(Gene symbol: TTHA1696)
Molecule annotation
1
30S Ribosomal Protein S8
Molecule annotation
1
30S Ribosomal Protein S9
Molecule annotation
1
30S Ribosomal Protein S10
Molecule annotation
1
30S Ribosomal Protein S11
(Gene symbol: TTHA1666)
Molecule annotation
1
30S Ribosomal Protein S12
Molecule annotation
1
30S Ribosomal Protein S13
(Gene symbol: rpsM)
Molecule annotation
1
30S Ribosomal Protein S14
Molecule annotation
1
30S Ribosomal Protein S15
Molecule annotation
1
30S Ribosomal Protein S16
(Gene symbol: rpsP)
Molecule annotation
1
30S Ribosomal Protein S17
Molecule annotation
1
30S Ribosomal Protein S18
Molecule annotation
1
30S Ribosomal Protein S19
Molecule annotation
1
30S Ribosomal Protein S20
Molecule annotation
Nucleotides(2 molecules)
1
16S Ribosomal RNA
Molecule annotation
1
5'-r(p*up*up*cp*u)-3'
Molecule annotation
Chemicals and Non-standard biopolymers (117 molecules)
1
101
MAGNESIUM IONMAGNESIUM ION
2
12
POTASSIUM IONPOTASSIUM ION
3
1
(2S,4S,4AR,5AS,6S,11R,11AS,12R,12AR)-7-CHLORO-4-(DIMETHYLAMINO)-6,10,11,12-TETRAHYDROXY-1,3-DIOXO-1,2,3,4,4A,5,5A,6,11,11A,12,12A-DODECAHYDROTETRACENE-2-CARBOXAMIDE(2S,4S,4AR,5AS,6S,11R,11AS,12R,12AR)-7-CHLORO-4-(DIMETHYLAMINO)-6,10,11,12-TETRAHYDROXY-1,3-DIOXO-1,2,3,4,4A,5,5A,6,11,11A,12,12A-DODECAHYDROTETRACENE-2-CARBOXAMIDE
4
1
(2R)-4-AMINO-N-{(1R,2S,3R,4R,5S)-5-AMINO-2-{2-[(2-AMINOETHYL)AMINO]ETHOXY}-4-[(2,6-DIAMINO-2,6-DIDEOXY-ALPHA-D-GLUCOPYRANOSYL)OXY]-3-HYDROXYCYCLOHEXYL}-2-HYDROXYBUTANAMIDE(2R)-4-AMINO-N-{(1R,2S,3R,4R,5S)-5-AMINO-2-{2-[(2-AMINOETHYL)AMINO]ETHOXY}-4-[(2,6-DIAMINO-2,6-DIDEOXY-ALPHA-D-GLUCOPYRANOSYL)OXY]-3-HYDROXYCYCLOHEXYL}-2-HYDROXYBUTANAMIDE
5
2
ZINC IONZINC 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