5HL7
The crystal structure of the large ribosomal subunit of Staphylococcus aureus in complex with lefamulin
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A | 50S ribosomal protein L2 | polymer | 277 | 30217.2 | 1 | UniProt (P60430) Pfam (PF00181) Pfam (PF03947) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 2 | X | 23S ribosomal RNA | polymer | 2923 | 946687.7 | 1 | GenBank (87201381) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 3 | Y | 5S ribosomal RNA | polymer | 114 | 36692.8 | 1 | GenBank (87201381) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 4 | B | 50S ribosomal protein L3 | polymer | 220 | 23760.3 | 1 | UniProt (Q2FW06) Pfam (PF00297) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 5 | C | 50S ribosomal protein L4 | polymer | 207 | 22495.7 | 1 | UniProt (Q2FW07) Pfam (PF00573) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 6 | D | 50S ribosomal protein L5 | polymer | 179 | 20296.6 | 1 | UniProt (Q2FW18) Pfam (PF00281) Pfam (PF00673) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 7 | E | 50S ribosomal protein L6 | polymer | 178 | 19890.7 | 1 | UniProt (Q2FW21) Pfam (PF00347) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 8 | G | 50S ribosomal protein L13 | polymer | 145 | 16359.4 | 1 | UniProt (Q2FW38) Pfam (PF00572) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 9 | H | 50S ribosomal protein L14 | polymer | 122 | 13157.3 | 1 | UniProt (Q2FW16) Pfam (PF00238) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 10 | I | 50S ribosomal protein L15 | polymer | 140 | 15021.2 | 1 | UniProt (P0A0F8) Pfam (PF00828) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 11 | J | 50S ribosomal protein L16 | polymer | 144 | 16274.0 | 1 | UniProt (Q2FW13) Pfam (PF00252) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 12 | K | 50S ribosomal protein L17 | polymer | 122 | 13771.8 | 1 | UniProt (Q2FW33) Pfam (PF01196) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 13 | L | 50S ribosomal protein L18 | polymer | 119 | 13124.1 | 1 | UniProt (Q2FW22) Pfam (PF00861) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 14 | M | 50S ribosomal protein L19 | polymer | 116 | 13392.8 | 1 | UniProt (Q2FZ42) Pfam (PF01245) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 15 | N | 50S ribosomal protein L20 | polymer | 118 | 13720.3 | 1 | UniProt (Q2FXQ1) Pfam (PF00453) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 16 | O | 50S ribosomal protein L21 | polymer | 102 | 11354.1 | 1 | UniProt (Q2FXS8) Pfam (PF00829) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 17 | P | 50S ribosomal protein L22 | polymer | 117 | 12857.9 | 1 | UniProt (Q2FW11) Pfam (PF00237) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 18 | Q | 50S ribosomal protein L23 | polymer | 91 | 10625.4 | 1 | UniProt (Q2FW08) Pfam (PF00276) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 19 | R | 50S ribosomal protein L24 | polymer | 105 | 11561.5 | 1 | UniProt (Q2FW17) Pfam (PF00467) Pfam (PF17136) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 20 | S | 50S ribosomal protein L25 | polymer | 217 | 23810.6 | 1 | UniProt (Q2G0S0) Pfam (PF01386) Pfam (PF14693) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | General stress protein CTC |
| 21 | T | 50S ribosomal protein L27 | polymer | 94 | 10334.8 | 1 | UniProt (Q2FXT0) Pfam (PF01016) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 22 | U | 50S ribosomal protein L28 | polymer | 62 | 6995.3 | 1 | UniProt (Q2FZ60) Pfam (PF00830) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 23 | V | 50S ribosomal protein L29 | polymer | 69 | 8105.3 | 1 | UniProt (Q2FW14) Pfam (PF00831) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 24 | W | 50S ribosomal protein L30 | polymer | 59 | 6565.7 | 1 | UniProt (P0A0G2) Pfam (PF00327) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 25 | Z | 50S ribosomal protein L32 | polymer | 58 | 6657.8 | 1 | UniProt (Q2FZF1) Pfam (PF01783) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 26 | 2 | 50S ribosomal protein L34 | polymer | 45 | 5454.6 | 1 | UniProt (Q2FUQ0) Pfam (PF00468) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 27 | 3 | 50S ribosomal protein L35 | polymer | 66 | 7722.4 | 1 | UniProt (Q2FXQ0) Pfam (PF01632) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 28 | 4 | 50S ribosomal protein L36 | polymer | 37 | 4318.4 | 1 | UniProt (Q2FW29) Pfam (PF00444) In PDB | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 29 | X, A, R, Y, T... | MANGANESE (II) ION | non-polymer | 54.9 | 274 | Chemie (MN) | |||
| 30 | X, Y, A, C, G... | MAGNESIUM ION | non-polymer | 24.3 | 240 | Chemie (MG) | |||
| 31 | X | Lefamulin | non-polymer | 507.7 | 1 | Chemie (62B) | |||
| 32 | J, X, Q, Z | (4S)-2-METHYL-2,4-PENTANEDIOL | non-polymer | 118.2 | 11 | Chemie (MPD) | |||
| 33 | Y, X | SPERMIDINE | non-polymer | 145.2 | 8 | Chemie (SPD) | |||
| 34 | X, S | ETHANOL | non-polymer | 46.1 | 3 | Chemie (EOH) | |||
| 35 | N | 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID | non-polymer | 238.3 | 1 | Chemie (EPE) |
Sequence modifications
E: 1 - 178 (UniProt: Q2FW21)
| PDB | External Database | Details |
|---|---|---|
| Lys 174 | Gly 174 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 28 |
| Total formula weight | 1341225.7 | |
| Non-Polymers* | Number of molecules | 538 |
| Total formula weight | 24232.3 | |
| All* | Total formula weight | 1365458.0 |
