4V8Q
Complex of SmpB, a tmRNA fragment and EF-Tu-GDP-Kirromycin with the 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 (A0) | 50S RIBOSOMAL PROTEIN L27 | polymer | 85 | 9529.1 | 1 | UniProt (P60493) Pfam (PF01016) | Thermus thermophilus HB8 | |
| 2 | B (A1) | 50S RIBOSOMAL PROTEIN L28 | polymer | 98 | 11004.2 | 1 | UniProt (P60494) Pfam (PF00830) | Thermus thermophilus HB8 | |
| 3 | C (A2) | 50S RIBOSOMAL PROTEIN L29 | polymer | 72 | 8670.3 | 1 | UniProt (Q5SHP6) Pfam (PF00831) | Thermus thermophilus HB8 | |
| 4 | D (A3) | 50S RIBOSOMAL PROTEIN L30 | polymer | 60 | 6799.1 | 1 | UniProt (Q5SHQ6) Pfam (PF00327) | Thermus thermophilus HB8 | |
| 5 | E (A4) | 50S RIBOSOMAL PROTEIN L31 | polymer | 71 | 8300.5 | 1 | UniProt (Q5SJE1) Pfam (PF01197) | Thermus thermophilus HB8 | |
| 6 | F (A5) | 50S RIBOSOMAL PROTEIN L32 | polymer | 60 | 6722.1 | 1 | UniProt (P80339) Pfam (PF01783) | Thermus thermophilus HB8 | |
| 7 | G (A6) | 50S RIBOSOMAL PROTEIN L33 | polymer | 54 | 6632.9 | 1 | UniProt (P35871) Pfam (PF00471) | Thermus thermophilus HB8 | |
| 8 | H (A7) | 50S RIBOSOMAL PROTEIN L34 | polymer | 49 | 6132.4 | 1 | UniProt (P80340) Pfam (PF00468) | Thermus thermophilus HB8 | |
| 9 | I (A8) | 50S RIBOSOMAL PROTEIN L35 | polymer | 65 | 7506.2 | 1 | UniProt (Q5SKU1) Pfam (PF01632) | Thermus thermophilus HB8 | |
| 10 | J (A9) | 50S RIBOSOMAL PROTEIN L36 | polymer | 37 | 4435.4 | 1 | UniProt (Q5SHR2) Pfam (PF00444) | Thermus thermophilus HB8 | |
| 11 | K (AA) | 23S ribosomal RNA | polymer | 2915 | 947999.6 | 1 | GenBank (55979969) | Thermus thermophilus HB8 | |
| 12 | L (AB) | 5S ribosomal RNA | polymer | 122 | 39540.6 | 1 | GenBank (55979969) | Thermus thermophilus HB8 | |
| 13 | M (AC) | 50S RIBOSOMAL PROTEIN L1 | polymer | 229 | 24885.7 | 1 | UniProt (Q5SLP7) Pfam (PF00687) | Thermus thermophilus HB8 | |
| 14 | N (AD) | 50S RIBOSOMAL PROTEIN L2 | polymer | 276 | 30532.6 | 1 | UniProt (P60405) Pfam (PF00181) Pfam (PF03947) | Thermus thermophilus HB8 | |
| 15 | O (AE) | 50S RIBOSOMAL PROTEIN L3 | polymer | 206 | 22450.2 | 1 | UniProt (Q5SHN8) Pfam (PF00297) | Thermus thermophilus HB8 | |
| 16 | P (AF) | 50S RIBOSOMAL PROTEIN L4 | polymer | 210 | 23271.9 | 1 | UniProt (Q5SHN9) Pfam (PF00573) | Thermus thermophilus HB8 | |
| 17 | Q (AG) | 50S RIBOSOMAL PROTEIN L5 | polymer | 182 | 21061.6 | 1 | UniProt (Q5SHQ0) Pfam (PF00281) Pfam (PF00673) | Thermus thermophilus HB8 | |
| 18 | R (AH) | 50S RIBOSOMAL PROTEIN L6 | polymer | 180 | 19568.9 | 1 | UniProt (Q5SHQ3) Pfam (PF00347) UniProt (by SIFTS) (P0DOY8) | Thermus thermophilus HB8 | |
| 19 | S (AJ) | 50S RIBOSOMAL PROTEIN L10 | polymer | 130 | 11081.7 | 1 | Thermus thermophilus HB8 | ||
| 20 | T (AK) | 50S RIBOSOMAL PROTEIN L11 | polymer | 140 | 11932.7 | 1 | Thermus thermophilus HB8 | ||
| 21 | U (AN) | 50S RIBOSOMAL PROTEIN L13 | polymer | 140 | 15927.9 | 1 | UniProt (P60488) Pfam (PF00572) | Thermus thermophilus HB8 | |
| 22 | V (AO) | 50S RIBOSOMAL PROTEIN L14 | polymer | 122 | 13323.6 | 1 | UniProt (Q5SHP8) Pfam (PF00238) | Thermus thermophilus HB8 | |
| 23 | W (AP) | 50S RIBOSOMAL PROTEIN L15 | polymer | 150 | 16319.1 | 1 | UniProt (Q5SHQ7) Pfam (PF00828) | Thermus thermophilus HB8 | |
| 24 | X (AQ) | 50S RIBOSOMAL PROTEIN L16 | polymer | 141 | 15993.9 | 1 | UniProt (P60489) Pfam (PF00252) | Thermus thermophilus HB8 | |
| 25 | Y (AR) | 50S RIBOSOMAL PROTEIN L17 | polymer | 118 | 13750.1 | 1 | UniProt (Q9Z9H5) Pfam (PF01196) | Thermus thermophilus HB8 | |
| 26 | Z (AS) | 50S RIBOSOMAL PROTEIN L18 | polymer | 112 | 12639.8 | 1 | UniProt (Q5SHQ4) Pfam (PF00861) | Thermus thermophilus HB8 | |
| 27 | AA (AT) | 50S RIBOSOMAL PROTEIN L19 | polymer | 146 | 17188.8 | 1 | UniProt (P60490) Pfam (PF01245) | Thermus thermophilus HB8 | |
| 28 | BA (AU) | 50S RIBOSOMAL PROTEIN L20 | polymer | 118 | 13779.3 | 1 | UniProt (P60491) Pfam (PF00453) | Thermus thermophilus HB8 | |
| 29 | CA (AV) | 50S RIBOSOMAL PROTEIN L21 | polymer | 101 | 11069.2 | 1 | UniProt (P60492) Pfam (PF00829) | Thermus thermophilus HB8 | |
| 30 | DA (AW) | 50S RIBOSOMAL PROTEIN L22 | polymer | 113 | 12808.1 | 1 | UniProt (Q5SHP3) Pfam (PF00237) | Thermus thermophilus HB8 | |
| 31 | EA (AX) | 50S RIBOSOMAL PROTEIN L23 | polymer | 96 | 10759.8 | 1 | UniProt (Q5SHP0) Pfam (PF00276) | Thermus thermophilus HB8 | |
| 32 | FA (AY) | 50S RIBOSOMAL PROTEIN L24 | polymer | 110 | 12085.6 | 1 | UniProt (Q5SHP9) Pfam (PF00467) Pfam (PF17136) | Thermus thermophilus HB8 | |
| 33 | GA (AZ) | 50S RIBOSOMAL PROTEIN L25 | polymer | 206 | 23238.6 | 1 | UniProt (Q5SHZ1) Pfam (PF01386) Pfam (PF14693) | Thermus thermophilus HB8 | |
| 34 | HA (B2) | SMALL PROTEIN B SMPB | polymer | 144 | 16785.5 | 1 | UniProt (Q8RR57) Pfam (PF01668) | Thermus thermophilus HB8 | |
| 35 | IA (BA) | 16S ribosomal RNA | polymer | 1522 | 493966.3 | 1 | GenBank (55979969) | Thermus thermophilus HB8 | |
| 36 | JA (BB) | 30S RIBOSOMAL PROTEIN S2 | polymer | 256 | 29317.7 | 1 | UniProt (P80371) Pfam (PF00318) | Thermus thermophilus HB8 | |
| 37 | KA (BC) | 30S RIBOSOMAL PROTEIN S3 | polymer | 239 | 26751.1 | 1 | UniProt (P80372) Pfam (PF07650) Pfam (PF00189) | Thermus thermophilus HB8 | |
| 38 | LA (BD) | 30S RIBOSOMAL PROTEIN S4 | polymer | 209 | 24373.4 | 1 | UniProt (P80373) Pfam (PF00163) Pfam (PF01479) | Thermus thermophilus HB8 | |
| 39 | MA (BE) | 30S RIBOSOMAL PROTEIN S5 | polymer | 162 | 17583.4 | 1 | UniProt (Q5SHQ5) Pfam (PF00333) Pfam (PF03719) | Thermus thermophilus HB8 | |
| 40 | NA (BF) | 30S RIBOSOMAL PROTEIN S6 | polymer | 101 | 11988.8 | 1 | UniProt (Q5SLP8) Pfam (PF01250) | Thermus thermophilus HB8 | |
| 41 | OA (BG) | 30S RIBOSOMAL PROTEIN S7 | polymer | 156 | 18051.0 | 1 | UniProt (P17291) Pfam (PF00177) | Thermus thermophilus HB8 | |
| 42 | PA (BH) | 30S RIBOSOMAL PROTEIN S8 | polymer | 138 | 15868.6 | 1 | UniProt (Q5SHQ2) Pfam (PF00410) UniProt (by SIFTS) (P0DOY9) | Thermus thermophilus HB8 | |
| 43 | QA (BI) | 30S RIBOSOMAL PROTEIN S9 | polymer | 128 | 14429.7 | 1 | UniProt (P80374) Pfam (PF00380) | Thermus thermophilus HB8 | |
| 44 | RA (BJ) | 30S RIBOSOMAL PROTEIN S10 | polymer | 105 | 11955.0 | 1 | UniProt (Q5SHN7) Pfam (PF00338) | Thermus thermophilus HB8 | |
| 45 | SA (BK) | 30S RIBOSOMAL PROTEIN S11 | polymer | 129 | 13737.9 | 1 | UniProt (P80376) Pfam (PF00411) | Thermus thermophilus HB8 | |
| 46 | TA (BL) | 30S RIBOSOMAL PROTEIN S12 | polymer | 135 | 14920.8 | 1 | UniProt (Q5SHN3) Pfam (PF00164) | Thermus thermophilus HB8 | |
| 47 | UA (BM) | 30S RIBOSOMAL PROTEIN S13 | polymer | 126 | 14338.9 | 1 | UniProt (P80377) Pfam (PF00416) | Thermus thermophilus HB8 | |
| 48 | VA (BN) | 30S RIBOSOMAL PROTEIN S14 | polymer | 61 | 7158.7 | 1 | UniProt (Q5SHQ1) Pfam (PF00253) UniProt (by SIFTS) (P0DOY6) | Thermus thermophilus HB8 | |
| 49 | WA (BO) | 30S RIBOSOMAL PROTEIN S15 | polymer | 89 | 10578.4 | 1 | UniProt (Q5SJ76) Pfam (PF00312) | Thermus thermophilus HB8 | |
| 50 | XA (BP) | 30S RIBOSOMAL PROTEIN S16 | polymer | 88 | 10410.0 | 1 | UniProt (Q5SJH3) Pfam (PF00886) | Thermus thermophilus HB8 | |
| 51 | YA (BQ) | 30S RIBOSOMAL PROTEIN S17 | polymer | 105 | 12325.7 | 1 | UniProt (Q5SHP7) Pfam (PF00366) UniProt (by SIFTS) (P0DOY7) | Thermus thermophilus HB8 | |
| 52 | ZA (BR) | 30S RIBOSOMAL PROTEIN S18 | polymer | 88 | 10258.3 | 1 | UniProt (Q5SLQ0) Pfam (PF01084) | Thermus thermophilus HB8 | |
| 53 | AB (BS) | 30S RIBOSOMAL PROTEIN S19 | polymer | 93 | 10605.5 | 1 | UniProt (Q5SHP2) Pfam (PF00203) | Thermus thermophilus HB8 | |
| 54 | BB (BT) | 30S RIBOSOMAL PROTEIN S20 | polymer | 106 | 11736.1 | 1 | UniProt (P80380) Pfam (PF01649) | Thermus thermophilus HB8 | |
| 55 | CB (BU) | 30S RIBOSOMAL PROTEIN THX | polymer | 27 | 3350.0 | 1 | UniProt (Q5SIH3) Pfam (PF17070) | Thermus thermophilus HB8 | |
| 56 | DB, EB (BV, BW) | E-SITE or P-SITE TRNA FMET | polymer | 77 | 24802.8 | 2 | Escherichia coli K-12 | ||
| 57 | FB (BX) | MRNA | polymer | 19 | 6228.8 | 1 | Escherichia coli | ||
| 58 | GB (BY) | TMRNA DELA | polymer | 90 | 28819.2 | 1 | Thermus thermophilus HB8 | ||
| 59 | HB (BZ) | ELONGATION FACTOR TU | polymer | 405 | 44729.0 | 1 | UniProt (Q5SHN6) Pfam (PF00009) Pfam (PF03144) Pfam (PF03143) | Thermus thermophilus HB8 | |
| 60 | IB, KB, LB (A9, BD, BN) | ZINC ION | non-polymer | 65.4 | 3 | Chemie (ZN) | |||
| 61 | JB, MB (AA, BZ) | MAGNESIUM ION | non-polymer | 24.3 | 2 | Chemie (MG) | |||
| 62 | NB (BZ) | KIRROMYCIN | non-polymer | 796.9 | 1 | Chemie (KIR) | |||
| 63 | OB (BZ) | GUANOSINE-5'-DIPHOSPHATE | non-polymer | 443.2 | 1 | Chemie (GDP) |
Sequence modifications
AC: 0 - 228 (UniProt: Q5SLP7)
BA: 0 - 1544 (GenBank: 55979969)
BL: 5 - 135 (UniProt: Q5SHN3)
BZ: 1 - 405 (UniProt: Q5SHN6)
| PDB | External Database | Details |
|---|---|---|
| Ile 19 | Val 20 | conflict |
| His 27 | Arg 28 | conflict |
| Met 127 | Leu 128 | conflict |
| PDB | External Database | Details |
|---|---|---|
| A 1489 | G 1467 | conflict |
| A 1490 | C 1468 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Met 1 | - | expression tag |
| Val 2 | - | expression tag |
| Ala 3 | - | expression tag |
| Leu 4 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Glu 181 | Gln 182 | conflict |
| Lys 184 | Arg 185 | conflict |
| Lys 189 | Arg 190 | conflict |
| Lys 264 | Arg 265 | conflict |
| Leu 288 | Val 289 | conflict |
| Ile 322 | Val 323 | conflict |
| Thr 336 | Ser 337 | conflict |
| Arg 354 | Gln 355 | conflict |
| Gln 357 | Pro 358 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 60 |
| Total formula weight | 2346814.5 | |
| Non-Polymers* | Number of molecules | 7 |
| Total formula weight | 1485.0 | |
| All* | Total formula weight | 2348299.5 |
