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 (A) | 50S ribosomal protein L2 | polymer | 277 | 30217.2 | 1 | UniProt (P60430) Pfam (PF00181) Pfam (PF03947) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 2 | B (X) | 23S ribosomal RNA | polymer | 2923 | 946687.7 | 1 | GenBank (87201381) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 3 | C (Y) | 5S ribosomal RNA | polymer | 114 | 36692.8 | 1 | GenBank (87201381) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 4 | D (B) | 50S ribosomal protein L3 | polymer | 220 | 23760.3 | 1 | UniProt (Q2FW06) Pfam (PF00297) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 5 | E (C) | 50S ribosomal protein L4 | polymer | 207 | 22495.7 | 1 | UniProt (Q2FW07) Pfam (PF00573) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 6 | F (D) | 50S ribosomal protein L5 | polymer | 179 | 20296.6 | 1 | UniProt (Q2FW18) Pfam (PF00281) Pfam (PF00673) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 7 | G (E) | 50S ribosomal protein L6 | polymer | 178 | 19890.7 | 1 | UniProt (Q2FW21) Pfam (PF00347) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 8 | H (G) | 50S ribosomal protein L13 | polymer | 145 | 16359.4 | 1 | UniProt (Q2FW38) Pfam (PF00572) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 9 | I (H) | 50S ribosomal protein L14 | polymer | 122 | 13157.3 | 1 | UniProt (Q2FW16) Pfam (PF00238) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 10 | J (I) | 50S ribosomal protein L15 | polymer | 140 | 15021.2 | 1 | UniProt (P0A0F8) Pfam (PF00828) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 11 | K (J) | 50S ribosomal protein L16 | polymer | 144 | 16274.0 | 1 | UniProt (Q2FW13) Pfam (PF00252) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 12 | L (K) | 50S ribosomal protein L17 | polymer | 122 | 13771.8 | 1 | UniProt (Q2FW33) Pfam (PF01196) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 13 | M (L) | 50S ribosomal protein L18 | polymer | 119 | 13124.1 | 1 | UniProt (Q2FW22) Pfam (PF00861) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 14 | N (M) | 50S ribosomal protein L19 | polymer | 116 | 13392.8 | 1 | UniProt (Q2FZ42) Pfam (PF01245) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 15 | O (N) | 50S ribosomal protein L20 | polymer | 118 | 13720.3 | 1 | UniProt (Q2FXQ1) Pfam (PF00453) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 16 | P (O) | 50S ribosomal protein L21 | polymer | 102 | 11354.1 | 1 | UniProt (Q2FXS8) Pfam (PF00829) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 17 | Q (P) | 50S ribosomal protein L22 | polymer | 117 | 12857.9 | 1 | UniProt (Q2FW11) Pfam (PF00237) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 18 | R (Q) | 50S ribosomal protein L23 | polymer | 91 | 10625.4 | 1 | UniProt (Q2FW08) Pfam (PF00276) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 19 | S (R) | 50S ribosomal protein L24 | polymer | 105 | 11561.5 | 1 | UniProt (Q2FW17) Pfam (PF00467) Pfam (PF17136) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 20 | T (S) | 50S ribosomal protein L25 | polymer | 217 | 23810.6 | 1 | UniProt (Q2G0S0) Pfam (PF01386) Pfam (PF14693) | Staphylococcus aureus subsp. aureus NCTC 8325 | General stress protein CTC |
| 21 | U (T) | 50S ribosomal protein L27 | polymer | 94 | 10334.8 | 1 | UniProt (Q2FXT0) Pfam (PF01016) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 22 | V (U) | 50S ribosomal protein L28 | polymer | 62 | 6995.3 | 1 | UniProt (Q2FZ60) Pfam (PF00830) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 23 | W (V) | 50S ribosomal protein L29 | polymer | 69 | 8105.3 | 1 | UniProt (Q2FW14) Pfam (PF00831) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 24 | X (W) | 50S ribosomal protein L30 | polymer | 59 | 6565.7 | 1 | UniProt (P0A0G2) Pfam (PF00327) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 25 | Y (Z) | 50S ribosomal protein L32 | polymer | 58 | 6657.8 | 1 | UniProt (Q2FZF1) Pfam (PF01783) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 26 | Z (2) | 50S ribosomal protein L34 | polymer | 45 | 5454.6 | 1 | UniProt (Q2FUQ0) Pfam (PF00468) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 27 | AA (3) | 50S ribosomal protein L35 | polymer | 66 | 7722.4 | 1 | UniProt (Q2FXQ0) Pfam (PF01632) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 28 | BA (4) | 50S ribosomal protein L36 | polymer | 37 | 4318.4 | 1 | UniProt (Q2FW29) Pfam (PF00444) | Staphylococcus aureus subsp. aureus NCTC 8325 | |
| 29 | AB, AC, AD, AE, AF... (X, A, R, Y, T...) | MANGANESE (II) ION | non-polymer | 54.9 | 274 | Chemie (MN) PubChem (27854) | |||
| 30 | AJ, AK, AL, AM, AN... (X, Y, A, C, G...) | MAGNESIUM ION | non-polymer | 24.3 | 240 | Chemie (MG) PubChem (888) | |||
| 31 | IA (X) | Lefamulin | non-polymer | 507.7 | 1 | Chemie (62B) PubChem (177668735) PubChem (25185056) PubChem (25185057) PubChem (25185329) PubChem (24936048) PubChem (52918381) PubChem (74368213) PubChem (58076382) PubChem (89460004) PubChem (177668733) PubChem (76964543) PubChem (90465828) PubChem (132175320) PubChem (138532111) PubChem (166855340) PubChem (168841442) PubChem (134692784) PubChem (138983581) PubChem (145705980) PubChem (164889802) | |||
| 32 | IU, JA, KA, LA, MA... (J, X, Q, Z) | (4S)-2-METHYL-2,4-PENTANEDIOL | non-polymer | 118.2 | 11 | Chemie (MPD) | |||
| 33 | CU, DT, ET, FT, GT... (Y, X) | SPERMIDINE | non-polymer | 145.2 | 8 | Chemie (SPD) PubChem (1102) | |||
| 34 | KT, LT, QU (X, S) | ETHANOL | non-polymer | 46.1 | 3 | Chemie (EOH) | |||
| 35 | LU (N) | 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID | non-polymer | 238.3 | 1 | Chemie (EPE) PubChem (23831) |
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 |
