4W2I
Crystal structure of the Thermus thermophilus 70S ribosome in complex with negamycin, mRNA and three deacylated tRNAs in the A, P and E sites
This is a non-PDB format compatible entry.
Entity
Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
1 | AA, CA | 16S Ribosomal RNA | polymer | 1521 | 493652.2 | 2 | GenBank (55771382) | Thermus thermophilus | |
2 | AB, CB | 30S Ribosomal Protein S2 | polymer | 256 | 29317.7 | 2 | UniProt (P80371) Pfam (PF00318) In PDB | Thermus thermophilus | |
3 | AC, CC | 30S Ribosomal Protein S3 | polymer | 239 | 26751.1 | 2 | UniProt (P80372) Pfam (PF07650) Pfam (PF00189) In PDB | Thermus thermophilus | |
4 | AD, CD | 30S Ribosomal Protein S4 | polymer | 209 | 24373.4 | 2 | UniProt (P80373) Pfam (PF00163) Pfam (PF01479) In PDB | Thermus thermophilus | |
5 | AE, CE | 30S Ribosomal Protein S5 | polymer | 162 | 17583.4 | 2 | UniProt (Q5SHQ5) Pfam (PF00333) Pfam (PF03719) In PDB | Thermus thermophilus | |
6 | AF, CF | 30S Ribosomal Protein S6 | polymer | 101 | 11988.8 | 2 | UniProt (Q5SLP8) Pfam (PF01250) In PDB | Thermus thermophilus | |
7 | AG, CG | 30S Ribosomal Protein S7 | polymer | 156 | 18051.0 | 2 | UniProt (P17291) Pfam (PF00177) In PDB | Thermus thermophilus | |
8 | AH, CH | 30S Ribosomal Protein S8 | polymer | 138 | 15868.6 | 2 | UniProt (Q5SHQ2) In PDB | Thermus thermophilus | |
9 | AI, CI | 30S Ribosomal Protein S9 | polymer | 128 | 14410.6 | 2 | UniProt (P80374) Pfam (PF00380) In PDB | Thermus thermophilus | |
10 | AJ, CJ | 30S Ribosomal Protein S10 | polymer | 105 | 11955.0 | 2 | UniProt (Q5SHN7) Pfam (PF00338) In PDB | Thermus thermophilus | |
11 | AK, CK | 30S Ribosomal Protein S11 | polymer | 129 | 13737.9 | 2 | UniProt (P80376) Pfam (PF00411) In PDB | Thermus thermophilus | |
12 | AL, CL | 30S Ribosomal Protein S12 | polymer | 132 | 14637.4 | 2 | UniProt (Q5SHN3) Pfam (PF00164) In PDB | Thermus thermophilus | |
13 | AM, CM | 30S Ribosomal Protein S13 | polymer | 126 | 14338.9 | 2 | UniProt (P80377) Pfam (PF00416) In PDB | Thermus thermophilus | |
14 | AN, CN | 30S Ribosomal Protein S14 | polymer | 61 | 7158.7 | 2 | UniProt (Q5SHQ1) In PDB | Thermus thermophilus | |
15 | AO, CO | 30S Ribosomal Protein S15 | polymer | 89 | 10578.4 | 2 | UniProt (Q5SJ76) Pfam (PF00312) In PDB | Thermus thermophilus | |
16 | AP, CP | 30S Ribosomal Protein S16 | polymer | 88 | 10410.0 | 2 | UniProt (Q5SJH3) Pfam (PF00886) In PDB | Thermus thermophilus | |
17 | AQ, CQ | 30S Ribosomal Protein S17 | polymer | 105 | 12325.7 | 2 | UniProt (Q5SHP7) In PDB | Thermus thermophilus | |
18 | AR, CR | 30S Ribosomal Protein S18 | polymer | 88 | 10258.3 | 2 | UniProt (Q5SLQ0) Pfam (PF01084) In PDB | Thermus thermophilus | |
19 | AS, CS | 30S Ribosomal Protein S19 | polymer | 93 | 10605.5 | 2 | UniProt (Q5SHP2) Pfam (PF00203) In PDB | Thermus thermophilus | |
20 | AT, CT | 30S Ribosomal Protein S20 | polymer | 106 | 11736.1 | 2 | UniProt (P80380) Pfam (PF01649) In PDB | Thermus thermophilus | |
21 | AU, CU | 30S Ribosomal Protein THX | polymer | 27 | 3350.0 | 2 | UniProt (Q5SIH3) Pfam (PF17070) In PDB | Thermus thermophilus | |
22 | AV, CV | mRNA | polymer | 24 | 7804.7 | 2 | synthetic construct | ||
23 | AW, AY, CW, CY | A/P-site tRNA | polymer | 76 | 24645.9 | 4 | Escherichia coli | ||
24 | AX, CX | E-site tRNA | polymer | 77 | 24846.9 | 2 | Escherichia coli | ||
25 | BA, DA | 23S Ribosomal RNA | polymer | 2915 | 947895.4 | 2 | GenBank (55771382) | Thermus thermophilus | |
26 | BB, DB | 5S Ribosomal RNA | polymer | 121 | 39188.4 | 2 | GenBank (55771382) | Thermus thermophilus | |
27 | BD, DD | 50S Ribosomal Protein L2 | polymer | 276 | 30532.6 | 2 | UniProt (P60405) Pfam (PF00181) Pfam (PF03947) In PDB | Thermus thermophilus | |
28 | BE, DE | 50S Ribosomal Protein L3 | polymer | 206 | 22450.2 | 2 | UniProt (Q5SHN8) Pfam (PF00297) In PDB | Thermus thermophilus | |
29 | BF, DF | 50S Ribosomal Protein L4 | polymer | 210 | 23271.9 | 2 | UniProt (Q5SHN9) Pfam (PF00573) In PDB | Thermus thermophilus | |
30 | BG, DG | 50S Ribosomal Protein L5 | polymer | 182 | 21061.6 | 2 | UniProt (Q5SHQ0) Pfam (PF00281) Pfam (PF00673) In PDB | Thermus thermophilus | |
31 | BH, DH | 50S Ribosomal Protein L6 | polymer | 180 | 19568.9 | 2 | UniProt (Q5SHQ3) In PDB | Thermus thermophilus | |
32 | BI, DI | 50S Ribosomal Protein L9 | polymer | 148 | 16422.2 | 2 | UniProt (Q5SLQ1) Pfam (PF01281) Pfam (PF03948) In PDB | Thermus thermophilus | |
33 | BN, DN | 50S Ribosomal Protein L13 | polymer | 140 | 15927.9 | 2 | UniProt (P60488) Pfam (PF00572) In PDB | Thermus thermophilus | |
34 | BO, DO | 50S Ribosomal Protein L14 | polymer | 122 | 13323.6 | 2 | UniProt (Q5SHP8) Pfam (PF00238) In PDB | Thermus thermophilus | |
35 | BP, DP | 50S Ribosomal Protein L15 | polymer | 150 | 16319.1 | 2 | UniProt (Q5SHQ7) Pfam (PF00828) In PDB | Thermus thermophilus | |
36 | BQ, DQ | 50S Ribosomal Protein L16 | polymer | 141 | 15993.9 | 2 | UniProt (P60489) Pfam (PF00252) In PDB | Thermus thermophilus | |
37 | BR, DR | 50S Ribosomal Protein L17 | polymer | 118 | 13750.1 | 2 | UniProt (Q9Z9H5) Pfam (PF01196) In PDB | Thermus thermophilus | |
38 | BS, DS | 50S Ribosomal Protein L18 | polymer | 112 | 12639.8 | 2 | UniProt (Q5SHQ4) Pfam (PF00861) In PDB | Thermus thermophilus | |
39 | BT, DT | 50S Ribosomal Protein L19 | polymer | 146 | 17188.8 | 2 | UniProt (P60490) Pfam (PF01245) In PDB | Thermus thermophilus | |
40 | BU, DU | 50S Ribosomal Protein L20 | polymer | 118 | 13779.3 | 2 | UniProt (P60491) Pfam (PF00453) In PDB | Thermus thermophilus | |
41 | BV, DV | 50S Ribosomal Protein L21 | polymer | 101 | 11069.2 | 2 | UniProt (P60492) Pfam (PF00829) In PDB | Thermus thermophilus | |
42 | BW, DW | 50S Ribosomal Protein L22 | polymer | 113 | 12808.1 | 2 | UniProt (Q5SHP3) Pfam (PF00237) In PDB | Thermus thermophilus | |
43 | BX, DX | 50S Ribosomal Protein L23 | polymer | 96 | 10759.8 | 2 | UniProt (Q5SHP0) Pfam (PF00276) In PDB | Thermus thermophilus | |
44 | BY, DY | 50S Ribosomal Protein L24 | polymer | 110 | 12085.6 | 2 | UniProt (Q5SHP9) Pfam (PF00467) Pfam (PF17136) In PDB | Thermus thermophilus | |
45 | BZ, DZ | 50S Ribosomal Protein L25 | polymer | 206 | 23238.6 | 2 | UniProt (Q5SHZ1) Pfam (PF01386) Pfam (PF14693) In PDB | Thermus thermophilus | |
46 | B0, D0 | 50S Ribosomal Protein L27 | polymer | 85 | 9529.1 | 2 | UniProt (P60493) Pfam (PF01016) In PDB | Thermus thermophilus | |
47 | B1, D1 | 50S Ribosomal Protein L28 | polymer | 98 | 11004.2 | 2 | UniProt (P60494) Pfam (PF00830) In PDB | Thermus thermophilus | |
48 | B2, D2 | 50S Ribosomal Protein L29 | polymer | 72 | 8670.3 | 2 | UniProt (Q5SHP6) Pfam (PF00831) In PDB | Thermus thermophilus | |
49 | B3, D3 | 50S Ribosomal Protein L30 | polymer | 60 | 6799.1 | 2 | UniProt (Q5SHQ6) Pfam (PF00327) In PDB | Thermus thermophilus | |
50 | B4, D4 | 50S Ribosomal Protein L31 | polymer | 71 | 8300.5 | 2 | UniProt (Q5SJE1) Pfam (PF01197) In PDB | Thermus thermophilus | |
51 | B5, D5 | 50S Ribosomal Protein L32 | polymer | 60 | 6722.1 | 2 | UniProt (P80339) Pfam (PF01783) In PDB | Thermus thermophilus | |
52 | B6, D6 | 50S Ribosomal Protein L33 | polymer | 54 | 6632.9 | 2 | UniProt (P35871) Pfam (PF00471) In PDB | Thermus thermophilus | |
53 | B7, D7 | 50S Ribosomal Protein L34 | polymer | 49 | 6132.4 | 2 | UniProt (P80340) Pfam (PF00468) In PDB | Thermus thermophilus | |
54 | B8, D8 | 50S Ribosomal Protein L35 | polymer | 65 | 7506.2 | 2 | UniProt (Q5SKU1) Pfam (PF01632) In PDB | Thermus thermophilus | |
55 | B9, D9 | 50S Ribosomal Protein L36 | polymer | 37 | 4435.4 | 2 | UniProt (Q5SHR2) Pfam (PF00444) In PDB | Thermus thermophilus | |
56 | BA, CA, DA, DB, CD... | MAGNESIUM ION | non-polymer | 24.3 | 2013 | Chemie (MG) | |||
57 | AX, CW, CA, AA, CX... | NEGAMYCIN | non-polymer | 248.3 | 19 | Chemie (NEG) | |||
58 | CD, AD | IRON/SULFUR CLUSTER | non-polymer | 351.6 | 2 | Chemie (SF4) | |||
59 | B9, D9, BY, AN, CN... | ZINC ION | non-polymer | 65.4 | 12 | Chemie (ZN) | |||
60 | CX, AX | POTASSIUM ION | non-polymer | 39.1 | 2 | Chemie (K) | |||
61 | water | water | 18.0 | 3049 | Chemie (HOH) |
Sequence viewer
Contents of the asymmetric unit
Polymers | Number of chains | 112 |
Total formula weight | 4500078.1 | |
Non-Polymers* | Number of molecules | 2048 |
Total formula weight | 55209.7 | |
All* | Total formula weight | 4555287.7 |