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 | 23S ribosomal rna | polymer | 2922 | 946034.4 | 1 | GenBank (3377779) | Haloarcula marismortui | |
2 | B | 5S ribosomal RNA | polymer | 122 | 39318.4 | 1 | GenBank (3377779) | Haloarcula marismortui | |
3 | 5 | CCdA-P-Puromycin | polymer | 3 | 878.6 | 1 | |||
4 | C | 50S ribosomal protein L2P | polymer | 239 | 25237.5 | 1 | UniProt (P20276) Pfam (PF00181) Pfam (PF03947) In PDB | Haloarcula marismortui | Hmal2, HL4 |
5 | D | 50S ribosomal protein L3P | polymer | 337 | 37265.2 | 1 | UniProt (P20279) Pfam (PF00297) In PDB | Haloarcula marismortui | Hmal3, HL1 |
6 | E | 50S ribosomal protein L4E | polymer | 246 | 26442.1 | 1 | UniProt (P12735) Pfam (PF00573) In PDB | Haloarcula marismortui | Hmal4, HL6 |
7 | F | 50S ribosomal protein L5P | polymer | 176 | 19420.5 | 1 | UniProt (P14124) Pfam (PF00673) Pfam (PF00281) In PDB | Haloarcula marismortui | Hmal5, HL13 |
8 | G | 50S ribosomal protein L6P | polymer | 177 | 19830.5 | 1 | UniProt (P14135) Pfam (PF00347) In PDB | Haloarcula marismortui | Hmal6, HL10 |
9 | H | 50S ribosomal protein L7Ae | polymer | 119 | 12600.8 | 1 | UniProt (P12743) Pfam (PF01248) In PDB | Haloarcula marismortui | HS6 |
10 | I | Acidic ribosomal protein P0 homolog | polymer | 348 | 37213.8 | 1 | UniProt (P15825) Pfam (PF00466) Pfam (PF17777) In PDB | Haloarcula marismortui | L10E, HMaL10 |
11 | J | L10 Ribosomal Protein | polymer | 167 | 18022.5 | 1 | Pfam (PF00252) UniProt (by SIFTS) (P60617) In PDB | Haloarcula marismortui | |
12 | K | 50S ribosomal protein L13P | polymer | 145 | 16249.2 | 1 | UniProt (P29198) Pfam (PF00572) In PDB | Haloarcula marismortui | |
13 | L | 50S ribosomal protein L14P | polymer | 132 | 14216.2 | 1 | UniProt (P22450) Pfam (PF00238) In PDB | Haloarcula marismortui | Hmal13 |
14 | M | 50S ribosomal protein L15P | polymer | 164 | 17874.2 | 1 | UniProt (P12737) Pfam (PF00828) In PDB | Haloarcula marismortui | Hmal15, HL9 |
15 | N | L15 Ribosomal Protein | polymer | 194 | 22856.6 | 1 | Pfam (PF00827) UniProt (by SIFTS) (P60618) In PDB | Haloarcula marismortui | |
16 | O | 50S ribosomal protein L18P | polymer | 186 | 20509.7 | 1 | UniProt (P14123) Pfam (PF17144) In PDB | Haloarcula marismortui | Hmal18, HL12 |
17 | P | 50S ribosomal protein L18e | polymer | 115 | 12307.7 | 1 | UniProt (P12733) Pfam (PF00828) In PDB | Haloarcula marismortui | HL29, L19 |
18 | Q | 50S ribosomal protein L19E | polymer | 148 | 16631.3 | 1 | UniProt (P14119) Pfam (PF01280) In PDB | Haloarcula marismortui | Hmal19, HL24 |
19 | R | 50S ribosomal protein L21e | polymer | 95 | 10436.6 | 1 | UniProt (P12734) Pfam (PF01157) In PDB | Haloarcula marismortui | HL31 |
20 | S | 50S ribosomal protein L22P | polymer | 154 | 16835.7 | 1 | UniProt (P10970) Pfam (PF00237) In PDB | Haloarcula marismortui | Hmal22, HL23 |
21 | T | 50S ribosomal protein L23P | polymer | 84 | 9481.3 | 1 | UniProt (P12732) Pfam (PF00276) In PDB | Haloarcula marismortui | Hmal23, HL25, L21 |
22 | U | 50S ribosomal protein L24P | polymer | 119 | 13539.8 | 1 | UniProt (P10972) Pfam (PF16906) Pfam (PF00467) In PDB | Haloarcula marismortui | Hmal24, HL16, HL15 |
23 | V | 50S ribosomal protein L24E | polymer | 66 | 7233.7 | 1 | UniProt (P14116) Pfam (PF01246) In PDB | Haloarcula marismortui | HL21/HL22 |
24 | W | 50S ribosomal protein L29P | polymer | 70 | 7758.7 | 1 | UniProt (P10971) Pfam (PF00831) In PDB | Haloarcula marismortui | Hmal29, HL33 |
25 | X | 50S ribosomal protein L30P | polymer | 154 | 17062.9 | 1 | UniProt (P14121) Pfam (PF00327) In PDB | Haloarcula marismortui | Hmal30, HL20, HL16 |
26 | Y | 50S ribosomal protein L31e | polymer | 91 | 10253.4 | 1 | UniProt (P18138) Pfam (PF01198) In PDB | Haloarcula marismortui | L34, HL30 |
27 | Z | 50S ribosomal protein L32E | polymer | 240 | 26324.5 | 1 | UniProt (P12736) Pfam (PF14520) Pfam (PF01655) In PDB | Haloarcula marismortui | HL5 |
28 | 1 | L37Ae 50S ribosomal protein | polymer | 73 | 8097.8 | 1 | Pfam (PF01780) UniProt (by SIFTS) (P60619) In PDB | Haloarcula marismortui | |
29 | 2 | 50S ribosomal protein L37e | polymer | 56 | 6199.0 | 1 | UniProt (P32410) Pfam (PF01907) In PDB | Haloarcula marismortui | L35e |
30 | 3 | 50S ribosomal protein L39e | polymer | 48 | 5844.7 | 1 | UniProt (P22452) Pfam (PF00832) In PDB | Haloarcula marismortui | HL39e, HL46e |
31 | 4 | 50S ribosomal protein L44E | polymer | 92 | 10815.2 | 1 | UniProt (P32411) Pfam (PF00935) In PDB | Haloarcula marismortui | LA, HLA |
32 | A, 4, L, B, 5... | MAGNESIUM ION | non-polymer | 24.3 | 117 | Chemie (MG) | |||
33 | A | POTASSIUM ION | non-polymer | 39.1 | 2 | Chemie (K) | |||
34 | A, E, J, K, M... | SODIUM ION | non-polymer | 23.0 | 86 | Chemie (NA) | |||
35 | D, 4, K, A, N... | CHLORIDE ION | non-polymer | 35.5 | 22 | Chemie (CL) | |||
36 | 5 | PHOSPHATE ION | non-polymer | 95.0 | 1 | Chemie (PO4) | |||
37 | 5 | PUROMYCIN | non-polymer | 471.5 | 1 | Chemie (PUY) | |||
38 | 1, 2, 4, P, V | CADMIUM ION | non-polymer | 112.4 | 5 | Chemie (CD) | |||
39 | 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 |