1Q7Y
Crystal Structure of CCdAP-Puromycin bound at the Peptidyl transferase center of the 50S ribosomal subunit
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (A) | 23S ribosomal rna | polymer | 2922 | 946034.4 | 1 | GenBank (3377779) | Haloarcula marismortui | |
| 2 | B (B) | 5S ribosomal RNA | polymer | 122 | 39318.4 | 1 | GenBank (3377779) | Haloarcula marismortui | |
| 3 | C (5) | CCdA-P-Puromycin | polymer | 3 | 878.6 | 1 | |||
| 4 | D (C) | 50S ribosomal protein L2P | polymer | 239 | 25237.5 | 1 | UniProt (P20276) Pfam (PF00181) Pfam (PF03947) | Haloarcula marismortui | Hmal2, HL4 |
| 5 | E (D) | 50S ribosomal protein L3P | polymer | 337 | 37265.2 | 1 | UniProt (P20279) Pfam (PF00297) | Haloarcula marismortui | Hmal3, HL1 |
| 6 | F (E) | 50S ribosomal protein L4E | polymer | 246 | 26442.1 | 1 | UniProt (P12735) Pfam (PF00573) | Haloarcula marismortui | Hmal4, HL6 |
| 7 | G (F) | 50S ribosomal protein L5P | polymer | 176 | 19420.5 | 1 | UniProt (P14124) Pfam (PF00673) Pfam (PF00281) | Haloarcula marismortui | Hmal5, HL13 |
| 8 | H (G) | 50S ribosomal protein L6P | polymer | 177 | 19830.5 | 1 | UniProt (P14135) Pfam (PF00347) | Haloarcula marismortui | Hmal6, HL10 |
| 9 | I (H) | 50S ribosomal protein L7Ae | polymer | 119 | 12600.8 | 1 | UniProt (P12743) Pfam (PF01248) | Haloarcula marismortui | HS6 |
| 10 | J (I) | Acidic ribosomal protein P0 homolog | polymer | 348 | 37213.8 | 1 | UniProt (P15825) Pfam (PF00466) Pfam (PF17777) | Haloarcula marismortui | L10E, HMaL10 |
| 11 | K (J) | L10 Ribosomal Protein | polymer | 167 | 18022.5 | 1 | Pfam (PF00252) UniProt (by SIFTS) (P60617) | Haloarcula marismortui | |
| 12 | L (K) | 50S ribosomal protein L13P | polymer | 145 | 16249.2 | 1 | UniProt (P29198) Pfam (PF00572) | Haloarcula marismortui | |
| 13 | M (L) | 50S ribosomal protein L14P | polymer | 132 | 14216.2 | 1 | UniProt (P22450) Pfam (PF00238) | Haloarcula marismortui | Hmal13 |
| 14 | N (M) | 50S ribosomal protein L15P | polymer | 164 | 17874.2 | 1 | UniProt (P12737) Pfam (PF00828) | Haloarcula marismortui | Hmal15, HL9 |
| 15 | O (N) | L15 Ribosomal Protein | polymer | 194 | 22856.6 | 1 | Pfam (PF00827) UniProt (by SIFTS) (P60618) | Haloarcula marismortui | |
| 16 | P (O) | 50S ribosomal protein L18P | polymer | 186 | 20509.7 | 1 | UniProt (P14123) Pfam (PF17144) | Haloarcula marismortui | Hmal18, HL12 |
| 17 | Q (P) | 50S ribosomal protein L18e | polymer | 115 | 12307.7 | 1 | UniProt (P12733) Pfam (PF00828) | Haloarcula marismortui | HL29, L19 |
| 18 | R (Q) | 50S ribosomal protein L19E | polymer | 148 | 16631.3 | 1 | UniProt (P14119) Pfam (PF01280) Pfam (PF25476) | Haloarcula marismortui | Hmal19, HL24 |
| 19 | S (R) | 50S ribosomal protein L21e | polymer | 95 | 10436.6 | 1 | UniProt (P12734) Pfam (PF01157) | Haloarcula marismortui | HL31 |
| 20 | T (S) | 50S ribosomal protein L22P | polymer | 154 | 16835.7 | 1 | UniProt (P10970) Pfam (PF00237) | Haloarcula marismortui | Hmal22, HL23 |
| 21 | U (T) | 50S ribosomal protein L23P | polymer | 84 | 9481.3 | 1 | UniProt (P12732) Pfam (PF00276) | Haloarcula marismortui | Hmal23, HL25, L21 |
| 22 | V (U) | 50S ribosomal protein L24P | polymer | 119 | 13539.8 | 1 | UniProt (P10972) Pfam (PF16906) Pfam (PF00467) | Haloarcula marismortui | Hmal24, HL16, HL15 |
| 23 | W (V) | 50S ribosomal protein L24E | polymer | 66 | 7233.7 | 1 | UniProt (P14116) Pfam (PF01246) | Haloarcula marismortui | HL21/HL22 |
| 24 | X (W) | 50S ribosomal protein L29P | polymer | 70 | 7758.7 | 1 | UniProt (P10971) Pfam (PF00831) | Haloarcula marismortui | Hmal29, HL33 |
| 25 | Y (X) | 50S ribosomal protein L30P | polymer | 154 | 17062.9 | 1 | UniProt (P14121) Pfam (PF00327) | Haloarcula marismortui | Hmal30, HL20, HL16 |
| 26 | Z (Y) | 50S ribosomal protein L31e | polymer | 91 | 10253.4 | 1 | UniProt (P18138) Pfam (PF01198) | Haloarcula marismortui | L34, HL30 |
| 27 | AA (Z) | 50S ribosomal protein L32E | polymer | 240 | 26324.5 | 1 | UniProt (P12736) Pfam (PF14520) Pfam (PF01655) | Haloarcula marismortui | HL5 |
| 28 | BA (1) | L37Ae 50S ribosomal protein | polymer | 73 | 8097.8 | 1 | Pfam (PF01780) UniProt (by SIFTS) (P60619) | Haloarcula marismortui | |
| 29 | CA (2) | 50S ribosomal protein L37e | polymer | 56 | 6199.0 | 1 | UniProt (P32410) Pfam (PF01907) | Haloarcula marismortui | L35e |
| 30 | DA (3) | 50S ribosomal protein L39e | polymer | 48 | 5844.7 | 1 | UniProt (P22452) Pfam (PF00832) | Haloarcula marismortui | HL39e, HL46e |
| 31 | EA (4) | 50S ribosomal protein L44E | polymer | 92 | 10815.2 | 1 | UniProt (P32411) Pfam (PF00935) | Haloarcula marismortui | LA, HLA |
| 32 | AB, AC, AD, AE, BB... (A, 4, L, B, 5...) | MAGNESIUM ION | non-polymer | 24.3 | 117 | Chemie (MG) PubChem (888) | |||
| 33 | KE, LE (A) | POTASSIUM ION | non-polymer | 39.1 | 2 | Chemie (K) PubChem (813) | |||
| 34 | AF, AG, AH, BF, BG... (A, E, J, K, M...) | SODIUM ION | non-polymer | 23.0 | 86 | Chemie (NA) PubChem (923) | |||
| 35 | AI, EJ, FI, GH, GI... (D, 4, K, A, N...) | CHLORIDE ION | non-polymer | 35.5 | 22 | Chemie (CL) PubChem (312) | |||
| 36 | VH (5) | PHOSPHATE ION | non-polymer | 95.0 | 1 | Chemie (PO4) PubChem (1061) | |||
| 37 | WH (5) | PUROMYCIN | non-polymer | 471.5 | 1 | Chemie (PUY) PubChem (16760051) PubChem (4984) PubChem (5891) PubChem (23615943) PubChem (177678906) PubChem (439530) PubChem (25202279) PubChem (1712112) PubChem (40469853) PubChem (44120104) PubChem (51340256) PubChem (51340724) PubChem (57614967) PubChem (2724365) PubChem (58811233) PubChem (58811244) PubChem (5351455) PubChem (5702164) PubChem (73952279) PubChem (6602487) PubChem (6604191) PubChem (91711144) PubChem (1548891) PubChem (11953804) PubChem (94860682) PubChem (94860683) PubChem (94860684) PubChem (95566333) PubChem (95907090) PubChem (97289755) PubChem (98617641) PubChem (92403519) PubChem (6102313) PubChem (6560136) PubChem (6610289) PubChem (124504893) PubChem (12193264) PubChem (124504894) PubChem (12314760) PubChem (131676367) PubChem (134692731) PubChem (135391169) PubChem (137658626) PubChem (168313088) PubChem (170842883) PubChem (155061105) PubChem (162911390) PubChem (166947121) | |||
| 38 | AJ, BJ, DJ, NI, WI (1, 2, 4, P, V) | CADMIUM ION | non-polymer | 112.4 | 5 | Chemie (CD) PubChem (31193) | |||
| 39 | AK, BK, CK, DK, EK... (U, V, W, X, Y...) | water | water | 18.0 | 7871 | Chemie (HOH) |
Sequence modifications
D: 1 - 337 (UniProt: P20279)
Q: 1 - 148 (UniProt: P14119)
3: 1 - 48 (UniProt: P22452)
| PDB | External Database | Details |
|---|---|---|
| - | Pro 310 | deletion |
| Arg 310 | Phe 311 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Lys 71 | Tyr 71 | conflict |
| PDB | External Database | Details |
|---|---|---|
| - | Arg 31 | deletion |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 31 |
| Total formula weight | 1452792.8 | |
| Non-Polymers* | Number of molecules | 234 |
| Total formula weight | 6807.5 | |
| All* | Total formula weight | 1459600.3 |
