6Q95
Structure of tmRNA SmpB bound in A site of T. thermophilus 70S ribosome
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 | A (2) | 16S RIBOSOMAL RNA | polymer | 1522 | 493958.3 | 1 | GenBank (55771382) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 2 | B (g) | 30S ribosomal protein S2 | polymer | 235 | 27116.4 | 1 | UniProt (P80371) Pfam (PF00318) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 3 | C (h) | 30S ribosomal protein S3 | polymer | 207 | 22975.6 | 1 | UniProt (P80372) Pfam (PF07650) Pfam (PF00189) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 4 | D (i) | 30S ribosomal protein S4 | polymer | 208 | 24242.3 | 1 | UniProt (P80373) Pfam (PF00163) Pfam (PF01479) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 5 | E (j) | 30S ribosomal protein S5 | polymer | 151 | 16460.2 | 1 | UniProt (Q5SHQ5) Pfam (PF00333) Pfam (PF03719) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 6 | F (k) | 30S ribosomal protein S6 | polymer | 101 | 11988.8 | 1 | UniProt (Q5SLP8) Pfam (PF01250) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | TS9 |
| 7 | G (l) | 30S ribosomal protein S7 | polymer | 155 | 17919.8 | 1 | UniProt (P17291) Pfam (PF00177) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 8 | H (m) | 30S ribosomal protein S8 | polymer | 138 | 15868.6 | 1 | UniProt (P0DOY9) Pfam (PF00410) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 9 | I (n) | 30S ribosomal protein S9 | polymer | 127 | 14298.5 | 1 | UniProt (P80374) Pfam (PF00380) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 10 | J (o) | 30S ribosomal protein S10 | polymer | 99 | 11398.3 | 1 | UniProt (Q5SHN7) Pfam (PF00338) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 11 | K (p) | 30S ribosomal protein S11 | polymer | 119 | 12606.4 | 1 | UniProt (P80376) Pfam (PF00411) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 12 | L (q) | 30S ribosomal protein S12 | polymer | 125 | 13875.4 | 1 | UniProt (Q5SHN3) Pfam (PF00164) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 13 | M (r) | 30S ribosomal protein S13 | polymer | 120 | 13623.9 | 1 | UniProt (P80377) Pfam (PF00416) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 14 | N (s) | 30S ribosomal protein S14 type Z | polymer | 60 | 7027.5 | 1 | UniProt (P0DOY6) Pfam (PF00253) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 15 | O (t) | 30S ribosomal protein S15 | polymer | 88 | 10447.2 | 1 | UniProt (Q5SJ76) Pfam (PF00312) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 16 | P (u) | 30S ribosomal protein S16 | polymer | 84 | 9995.5 | 1 | UniProt (Q5SJH3) Pfam (PF00886) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 17 | Q (v) | 30S ribosomal protein S17 | polymer | 100 | 11880.1 | 1 | UniProt (P0DOY7) Pfam (PF00366) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 18 | R (w) | 30S ribosomal protein S18 | polymer | 70 | 8155.8 | 1 | UniProt (Q5SLQ0) Pfam (PF01084) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 19 | S (x) | 30S ribosomal protein S19 | polymer | 79 | 9006.5 | 1 | UniProt (Q5SHP2) Pfam (PF00203) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 20 | T (y) | 30S ribosomal protein S20 | polymer | 99 | 10921.1 | 1 | UniProt (P80380) Pfam (PF01649) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 21 | U (z) | 30S ribosomal protein Thx | polymer | 25 | 3089.7 | 1 | UniProt (Q5SIH3) Pfam (PF17070) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | S31 |
| 22 | V (7) | tRNA-fMet | polymer | 77 | 24816.8 | 1 | Escherichia coli | ||
| 23 | W (8) | tRNA-Phe | polymer | 76 | 24400.4 | 1 | Escherichia coli | ||
| 24 | X (9) | mRNA | polymer | 6 | 1853.1 | 1 | Escherichia coli | ||
| 25 | Y (W) | 50S ribosomal protein L27 | polymer | 85 | 9529.1 | 1 | UniProt (P60493) Pfam (PF01016) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 26 | Z (X) | 50S ribosomal protein L28 | polymer | 89 | 9985.8 | 1 | UniProt (P60494) Pfam (PF00830) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 27 | AA (Y) | 50S ribosomal protein L29 | polymer | 51 | 6112.2 | 1 | UniProt (Q5SHP6) Pfam (PF00831) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 28 | BA (Z) | 50S ribosomal protein L30 | polymer | 60 | 6799.1 | 1 | UniProt (Q5SHQ6) Pfam (PF00327) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 29 | CA (a) | 50S ribosomal protein L31 | polymer | 58 | 6640.6 | 1 | UniProt (Q5SJE1) Pfam (PF01197) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 30 | DA (b) | 50S ribosomal protein L32 | polymer | 59 | 6590.9 | 1 | UniProt (P80339) Pfam (PF01783) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 31 | EA (c) | 50S ribosomal protein L33 | polymer | 45 | 5602.6 | 1 | UniProt (P35871) Pfam (PF00471) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 32 | FA (d) | 50S ribosomal protein L34 | polymer | 49 | 6132.4 | 1 | UniProt (P80340) Pfam (PF00468) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 33 | GA (e) | 50S ribosomal protein L35 | polymer | 64 | 7375.0 | 1 | UniProt (Q5SKU1) Pfam (PF01632) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 34 | HA (1) | 23S RIBOSOMAL RNA | polymer | 2915 | 947935.4 | 1 | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | ||
| 35 | IA (3) | 5S RIBOSOMAL RNA | polymer | 119 | 38553.0 | 1 | GenBank (55771382) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 36 | JA (A) | 50S ribosomal protein L1 | polymer | 229 | 24872.7 | 1 | UniProt (Q5SLP7) Pfam (PF00687) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 37 | KA (B) | 50S ribosomal protein L2 | polymer | 272 | 29985.8 | 1 | UniProt (P60405) Pfam (PF00181) Pfam (PF03947) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 38 | LA (C) | 50S ribosomal protein L3 | polymer | 205 | 22321.0 | 1 | UniProt (Q5SHN8) Pfam (PF00297) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 39 | MA (D) | 50S ribosomal protein L4 | polymer | 208 | 23071.7 | 1 | UniProt (Q5SHN9) Pfam (PF00573) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | L1e |
| 40 | NA (E) | 50S ribosomal protein L5 | polymer | 181 | 20930.4 | 1 | UniProt (Q5SHQ0) Pfam (PF00281) Pfam (PF00673) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 41 | OA (F) | 50S ribosomal protein L6 | polymer | 160 | 17476.3 | 1 | UniProt (P0DOY8) Pfam (PF00347) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 42 | PA (G) | 50S ribosomal protein L9 | polymer | 60 | 6536.7 | 1 | UniProt (Q5SLQ1) Pfam (PF01281) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 43 | QA (J) | 50S ribosomal protein L13 | polymer | 139 | 15828.8 | 1 | UniProt (P60488) Pfam (PF00572) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 44 | RA (K) | 50S ribosomal protein L14 | polymer | 122 | 13323.6 | 1 | UniProt (Q5SHP8) Pfam (PF00238) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 45 | SA (L) | 50S ribosomal protein L15 | polymer | 146 | 15858.5 | 1 | UniProt (Q5SHQ7) Pfam (PF00828) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 46 | TA (M) | 50S ribosomal protein L16 | polymer | 136 | 15364.0 | 1 | UniProt (P60489) Pfam (PF00252) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 47 | UA (N) | 50S ribosomal protein L17 | polymer | 117 | 13619.0 | 1 | UniProt (Q9Z9H5) Pfam (PF01196) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 48 | VA (O) | 50S ribosomal protein L18 | polymer | 99 | 10998.9 | 1 | UniProt (Q5SHQ4) Pfam (PF00861) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | TL24 |
| 49 | WA (P) | 50S ribosomal protein L19 | polymer | 138 | 16289.9 | 1 | UniProt (P60490) Pfam (PF01245) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 50 | XA (Q) | 50S ribosomal protein L20 | polymer | 117 | 13648.1 | 1 | UniProt (P60491) Pfam (PF00453) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 51 | YA (R) | 50S ribosomal protein L21 | polymer | 101 | 11069.2 | 1 | UniProt (P60492) Pfam (PF00829) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 52 | ZA (S) | 50S ribosomal protein L22 | polymer | 113 | 12808.1 | 1 | UniProt (Q5SHP3) Pfam (PF00237) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 53 | AB (T) | 50S ribosomal protein L23 | polymer | 93 | 10386.3 | 1 | UniProt (Q5SHP0) Pfam (PF00276) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 54 | BB (U) | 50S ribosomal protein L24 | polymer | 101 | 11181.7 | 1 | UniProt (Q5SHP9) Pfam (PF00467) Pfam (PF17136) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 55 | CB (V) | 50S ribosomal protein L25 | polymer | 92 | 10954.6 | 1 | UniProt (Q5SHZ1) Pfam (PF01386) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | TL5 |
| 56 | DB (5) | SsrA-binding protein | polymer | 144 | 16785.5 | 1 | UniProt (Q8RR57) Pfam (PF01668) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | Small protein B |
| 57 | EB (6) | Nascent peptide MET-ALA | polymer | 2 | 220.3 | 1 | Escherichia coli | ||
| 58 | FB (f) | 50S ribosomal protein L36 | polymer | 37 | 4435.4 | 1 | UniProt (Q72I28) Pfam (PF00444) UniProt (by SIFTS) (Q5SHR2) | Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) | |
| 59 | GB, HB (H, I) | 50S RIBOSOMAL PROTEIN L10 AND L11 | polymer | 140 | 11932.7 | 2 | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | ||
| 60 | IB (4) | transfer-messenger RNA (tmRNA) | polymer | 349 | 112818.9 | 1 | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | ||
| 61 | AC, AD, AE, AF, AG... (2, 7, 1, 3, 8...) | MAGNESIUM ION | non-polymer | 24.3 | 637 | Chemie (MG) | |||
| 62 | QI, XI, YZ (i, s, f) | ZINC ION | non-polymer | 65.4 | 3 | Chemie (ZN) |
Sequence modifications
n: 2 - 128 (UniProt: P80374)
G: 1 - 146 (UniProt: Q5SLQ1)
V: 3 - 179 (UniProt: Q5SHZ1)
| PDB | External Database | Details |
|---|---|---|
| Arg 58 | His 58 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Ala 146 | Glu 60 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Asp 179 | Glu 94 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 61 |
| Total formula weight | 2343833.1 | |
| Non-Polymers* | Number of molecules | 640 |
| Total formula weight | 15678.5 | |
| All* | Total formula weight | 2359511.6 |
