5LZS
Structure of the mammalian ribosomal elongation complex with aminoacyl-tRNA, eEF1A, and didemnin B
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 (A) | uL2 | polymer | 257 | 28088.9 | 1 | UniProt (G1TT27) Pfam (PF00181) Pfam (PF03947) | Oryctolagus cuniculus (Rabbit) | |
| 2 | B (B) | uL3 | polymer | 403 | 46108.0 | 1 | UniProt (G1TL06) Pfam (PF00297) | Oryctolagus cuniculus (Rabbit) | |
| 3 | C (C) | uL4 | polymer | 425 | 47727.6 | 1 | UniProt (G1SVW5) Pfam (PF00573) Pfam (PF14374) | Oryctolagus cuniculus (Rabbit) | |
| 4 | D (D) | 60S ribosomal protein L5 | polymer | 297 | 34481.8 | 1 | UniProt (G1SYJ6) UniProt (by SIFTS) (P19949) | Oryctolagus cuniculus (Rabbit) | |
| 5 | E (E) | 60S ribosomal protein L6 | polymer | 291 | 33028.3 | 1 | UniProt (G1SKF7) Pfam (PF01159) Pfam (PF03868) | Oryctolagus cuniculus (Rabbit) | |
| 6 | F (F) | uL30 | polymer | 247 | 29201.8 | 1 | UniProt (G1TUB1) Pfam (PF08079) Pfam (PF00327) | Oryctolagus cuniculus (Rabbit) | |
| 7 | G (G) | eL8 | polymer | 319 | 36221.5 | 1 | UniProt (G1STW0) Pfam (PF01248) | Oryctolagus cuniculus (Rabbit) | |
| 8 | H (H) | uL6 | polymer | 192 | 21871.4 | 1 | UniProt (G1TX33) Pfam (PF00347) UniProt (by SIFTS) (G1SWI6) | Oryctolagus cuniculus (Rabbit) | |
| 9 | I (I) | Ribosomal protein L10 (Predicted) | polymer | 214 | 24643.1 | 1 | UniProt (B7NZQ2) Pfam (PF00252) | Oryctolagus cuniculus (Rabbit) | Uncharacterized protein |
| 10 | J (J) | uL5 | polymer | 178 | 20288.5 | 1 | UniProt (G1TUB8) Pfam (PF00281) Pfam (PF00673) | Oryctolagus cuniculus (Rabbit) | |
| 11 | K (L) | eL13 | polymer | 211 | 24331.7 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 12 | L (M) | eL14 | polymer | 218 | 23870.5 | 1 | UniProt (G1SZ12) Pfam (PF01929) | Oryctolagus cuniculus (Rabbit) | |
| 13 | M (N) | Ribosomal protein L15 | polymer | 204 | 24207.3 | 1 | UniProt (G1T0C1) Pfam (PF00827) | Oryctolagus cuniculus (Rabbit) | |
| 14 | N (O) | uL13 | polymer | 203 | 23533.3 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 15 | O (P) | uL22 | polymer | 184 | 21444.2 | 1 | UniProt (G1TVT6) Pfam (PF00237) UniProt (by SIFTS) (G1SCJ6) | Oryctolagus cuniculus (Rabbit) | |
| 16 | P (Q) | eL18 | polymer | 188 | 21699.7 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 17 | Q (R) | eL19 | polymer | 196 | 23535.3 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 18 | R (S) | eL20 | polymer | 176 | 20827.6 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 19 | S (T) | eL21 | polymer | 160 | 18610.0 | 1 | UniProt (G1SHQ2) Pfam (PF01157) | Oryctolagus cuniculus (Rabbit) | |
| 20 | T (U) | eL22 | polymer | 128 | 14813.0 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 21 | U (V) | uL14 | polymer | 140 | 14892.5 | 1 | UniProt (G1T6D1) Pfam (PF00238) | Oryctolagus cuniculus (Rabbit) | |
| 22 | V (W) | uL24 | polymer | 157 | 17825.1 | 1 | UniProt (G1SE28) Pfam (PF01246) | Oryctolagus cuniculus (Rabbit) | |
| 23 | W (X) | uL23 | polymer | 156 | 17768.2 | 1 | UniProt (G1SE76) Pfam (PF03939) Pfam (PF00276) | Oryctolagus cuniculus (Rabbit) | |
| 24 | X (Y) | uL24 | polymer | 145 | 17303.4 | 1 | UniProt (G1SQH0) Pfam (PF16906) Pfam (PF00467) | Oryctolagus cuniculus (Rabbit) | |
| 25 | Y (Z) | 60S ribosomal protein L27 | polymer | 136 | 15835.8 | 1 | UniProt (G1TXF6) Pfam (PF00467) Pfam (PF01777) | Oryctolagus cuniculus (Rabbit) | |
| 26 | Z (a) | uL15 | polymer | 148 | 16620.6 | 1 | UniProt (G1SNY0) Pfam (PF00828) | Oryctolagus cuniculus (Rabbit) | |
| 27 | AA (b) | eL29 | polymer | 245 | 26708.7 | 1 | UniProt (G1SGR6) Pfam (PF01779) | Oryctolagus cuniculus (Rabbit) | |
| 28 | BA (c) | eL30 | polymer | 115 | 12807.1 | 1 | UniProt (G1TDL2) Pfam (PF01248) | Oryctolagus cuniculus (Rabbit) | |
| 29 | CA (d) | eL31 | polymer | 125 | 14494.9 | 1 | UniProt (G1SHG0) Pfam (PF01198) | Oryctolagus cuniculus (Rabbit) | |
| 30 | DA (e) | eL32 | polymer | 135 | 15898.9 | 1 | UniProt (G1U437) Pfam (PF01655) UniProt (by SIFTS) (G1TUN8) | Oryctolagus cuniculus (Rabbit) | |
| 31 | EA (f) | eL33 | polymer | 110 | 12580.8 | 1 | UniProt (G1SF08) Pfam (PF01247) | Oryctolagus cuniculus (Rabbit) | |
| 32 | FA (g) | eL34 | polymer | 116 | 13196.9 | 1 | UniProt (G1U945) Pfam (PF01199) UniProt (by SIFTS) (G1TXG5) | Oryctolagus cuniculus (Rabbit) | |
| 33 | GA (h) | uL29 | polymer | 123 | 14566.6 | 1 | UniProt (G1SIT5) Pfam (PF00831) | Oryctolagus cuniculus (Rabbit) | |
| 34 | HA (i) | 60S ribosomal protein L36 | polymer | 105 | 12263.8 | 1 | UniProt (G1TTQ5) Pfam (PF01158) | Oryctolagus cuniculus (Rabbit) | |
| 35 | IA (j) | Ribosomal protein L37 | polymer | 97 | 11111.0 | 1 | UniProt (U3KPD5) Pfam (PF01907) | Oryctolagus cuniculus (Rabbit) | |
| 36 | JA (k) | eL38 | polymer | 70 | 8238.9 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 37 | KA (l) | eL39 | polymer | 51 | 6455.8 | 1 | UniProt (G1TTN1) Pfam (PF00832) | Oryctolagus cuniculus (Rabbit) | |
| 38 | LA (m) | eL40 | polymer | 102 | 11699.8 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 39 | MA (n) | 60s ribosomal protein l41 | polymer | 25 | 3473.5 | 1 | Oryctolagus cuniculus (Rabbit) | eL41 | |
| 40 | NA (o) | eL42 | polymer | 106 | 12477.0 | 1 | UniProt (G1U344) Pfam (PF00935) UniProt (by SIFTS) (G1T040) | Oryctolagus cuniculus (Rabbit) | |
| 41 | OA (p) | eL43 | polymer | 92 | 10299.4 | 1 | UniProt (G1SY53) Pfam (PF01780) | Oryctolagus cuniculus (Rabbit) | |
| 42 | PA (r) | eL28 | polymer | 137 | 15783.6 | 1 | UniProt (G1U7L1) Pfam (PF01778) | Oryctolagus cuniculus (Rabbit) | |
| 43 | QA (s) | uL10 | polymer | 318 | 34380.5 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 44 | RA (t) | uL11 | polymer | 165 | 17847.6 | 1 | UniProt (G1SMR7) Pfam (PF03946) Pfam (PF00298) | Oryctolagus cuniculus (Rabbit) | |
| 45 | GC, SA (2, ii) | tRNA | polymer | 76 | 24436.6 | 2 | Oryctolagus cuniculus (Rabbit) | ||
| 46 | TA (3) | E-site tRNA | polymer | 75 | 24102.3 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 47 | UA (5) | 28S ribosomal RNA | polymer | 3543 | 1148115.4 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 48 | VA (7) | 5S ribosomal RNA | polymer | 120 | 38691.9 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 49 | WA (8) | 5.8S ribosomal RNA | polymer | 156 | 50143.6 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 50 | XA (9) | 18S ribosomal RNA | polymer | 1869 | 602776.9 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 51 | YA (AA) | uS2 | polymer | 295 | 32958.0 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 52 | ZA (BB) | 40S ribosomal protein S3a | polymer | 264 | 30002.1 | 1 | UniProt (G1SS70) Pfam (PF01015) | Oryctolagus cuniculus (Rabbit) | |
| 53 | AB (CC) | uS5 | polymer | 293 | 31327.4 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 54 | BB (DD) | uS4 | polymer | 243 | 26715.3 | 1 | UniProt (G1TNM3) Pfam (PF07650) Pfam (PF00189) | Oryctolagus cuniculus (Rabbit) | |
| 55 | CB (EE) | 40S ribosomal protein S4 | polymer | 263 | 29654.9 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 56 | DB (FF) | Uncharacterized protein | polymer | 204 | 22913.5 | 1 | UniProt (G1TFM5) Pfam (PF00177) | Oryctolagus cuniculus (Rabbit) | |
| 57 | EB (GG) | 40S ribosomal protein S6 | polymer | 249 | 28751.9 | 1 | UniProt (G1TM55) Pfam (PF01092) | Oryctolagus cuniculus (Rabbit) | |
| 58 | FB (HH) | uS7 | polymer | 194 | 22168.9 | 1 | UniProt (G1SVB0) | Oryctolagus cuniculus (Rabbit) | |
| 59 | GB (II) | 40S ribosomal protein S8 | polymer | 208 | 24263.4 | 1 | UniProt (G1TJW1) Pfam (PF01201) | Oryctolagus cuniculus (Rabbit) | |
| 60 | HB (JJ) | Ribosomal protein S9 (Predicted) | polymer | 194 | 22641.6 | 1 | UniProt (B7NZS8) Pfam (PF00163) Pfam (PF01479) | Oryctolagus cuniculus (Rabbit) | |
| 61 | IB (KK) | eS10 | polymer | 165 | 18933.8 | 1 | UniProt (G1TPV3) Pfam (PF03501) | Oryctolagus cuniculus (Rabbit) | |
| 62 | JB (LL) | uS17 | polymer | 158 | 18468.8 | 1 | UniProt (G1TRM4) Pfam (PF16205) Pfam (PF00366) | Oryctolagus cuniculus (Rabbit) | |
| 63 | KB (MM) | 40S ribosomal protein S12 | polymer | 132 | 14539.0 | 1 | UniProt (G1SFR8) Pfam (PF01248) | Oryctolagus cuniculus (Rabbit) | |
| 64 | LB (NN) | uS15 | polymer | 151 | 17259.4 | 1 | UniProt (G1SP51) Pfam (PF08069) Pfam (PF00312) | Oryctolagus cuniculus (Rabbit) | |
| 65 | MB (OO) | uS11 | polymer | 168 | 18134.0 | 1 | UniProt (G1T1F0) Pfam (PF00411) | Oryctolagus cuniculus (Rabbit) | |
| 66 | NB (PP) | uS19 | polymer | 145 | 17049.2 | 1 | UniProt (G1U0Q2) Pfam (PF00203) | Oryctolagus cuniculus (Rabbit) | |
| 67 | OB (QQ) | uS9 | polymer | 146 | 16477.4 | 1 | UniProt (G1SGX4) Pfam (PF00380) | Oryctolagus cuniculus (Rabbit) | |
| 68 | PB (RR) | eS17 | polymer | 135 | 15552.1 | 1 | UniProt (G1TU13) Pfam (PF00833) | Oryctolagus cuniculus (Rabbit) | |
| 69 | QB (SS) | uS13 | polymer | 152 | 17759.8 | 1 | UniProt (G1TPG3) Pfam (PF00416) | Oryctolagus cuniculus (Rabbit) | |
| 70 | RB (TT) | eS19 | polymer | 145 | 16106.6 | 1 | UniProt (G1TN62) Pfam (PF01090) | Oryctolagus cuniculus (Rabbit) | |
| 71 | SB (UU) | uS10 | polymer | 119 | 13398.8 | 1 | UniProt (G1SIZ2) Pfam (PF00338) | Oryctolagus cuniculus (Rabbit) | |
| 72 | TB (VV) | eS21 | polymer | 83 | 9124.4 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 73 | UB (WW) | uS8 | polymer | 130 | 14865.6 | 1 | UniProt (G1TG89) Pfam (PF00410) | Oryctolagus cuniculus (Rabbit) | |
| 74 | VB (XX) | uS12 | polymer | 143 | 15844.7 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 75 | WB (YY) | eS24 | polymer | 130 | 15107.9 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 76 | XB (ZZ) | eS25 | polymer | 125 | 13776.2 | 1 | UniProt (G1TDB3) Pfam (PF03297) | Oryctolagus cuniculus (Rabbit) | |
| 77 | YB (aa) | eS26 | polymer | 115 | 13047.5 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 78 | ZB (bb) | 40S ribosomal protein S27 | polymer | 84 | 9480.2 | 1 | UniProt (G1TZ76) Pfam (PF01667) | Oryctolagus cuniculus (Rabbit) | |
| 79 | AC (cc) | eS28 | polymer | 69 | 7855.1 | 1 | UniProt (G1TIB4) Pfam (PF01200) | Oryctolagus cuniculus (Rabbit) | |
| 80 | BC (dd) | uS14 | polymer | 56 | 6690.8 | 1 | UniProt (G1U7M4) Pfam (PF00253) | Oryctolagus cuniculus (Rabbit) | |
| 81 | CC (ee) | eS30 | polymer | 133 | 14498.9 | 1 | UniProt (G1T8A2) Pfam (PF00240) Pfam (PF04758) | Oryctolagus cuniculus (Rabbit) | |
| 82 | DC (ff) | eS31 | polymer | 156 | 18004.0 | 1 | UniProt (G1SK22) Pfam (PF00240) Pfam (PF01599) | Oryctolagus cuniculus (Rabbit) | |
| 83 | EC (gg) | RACK1 | polymer | 317 | 35115.7 | 1 | UniProt (G1SJB4) Pfam (PF00400) | Oryctolagus cuniculus (Rabbit) | |
| 84 | FC (hh) | mRNA | polymer | 10 | 3139.9 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 85 | HC (jj) | Elongation factor 1-alpha 1 | polymer | 462 | 50294.8 | 1 | UniProt (P68105) Pfam (PF00009) Pfam (PF03144) Pfam (PF22594) | Oryctolagus cuniculus (Rabbit) | EF-1-alpha-1,Elongation factor Tu,EF-Tu,Eukaryotic elongation factor 1 A-1,eEF1A-1 |
| 86 | AD, AE, AF, AG, AH... (5, 7, 9, aa, 8...) | MAGNESIUM ION | non-polymer | 24.3 | 276 | Chemie (MG) | |||
| 87 | CN, DN, EN, PC, RC... (aa, dd, ff, g, j...) | ZINC ION | non-polymer | 65.4 | 8 | Chemie (ZN) | |||
| 88 | FN (jj) | GUANOSINE-5'-DIPHOSPHATE | non-polymer | 443.2 | 1 | Chemie (GDP) | |||
| 89 | HN (jj) | (2~{S})-~{N}-[(2~{R})-1-[[(3~{S},6~{S},8~{S},12~{S},13~{R},16~{S},17~{R},20~{S},23~{S})-13-[(2~{S})-butan-2-yl]-20-[(4-methoxyphenyl)methyl]-6,17,21-trimethyl-3-(2-methylpropyl)-12-oxidanyl-2,5,7,10,15,19,22-heptakis(oxidanylidene)-8-propan-2-yl-9,18-dioxa-1,4,14,21-tetrazabicyclo[21.3.0]hexacosan-16-yl]amino]-4-methyl-1-oxidanylidene-pentan-2-yl]-~{N}-methyl-1-[(2~{S})-2-oxidanylpropanoyl]pyrrolidine-2-carboxamide | non-polymer | 1112.4 | 1 | Chemie (7C4) |
Sequence modifications
B: 2 - 403 (UniProt: G1TL06)
C: 1 - 378 (UniProt: G1SVW5)
C: 379 - 425 (PDB: 5LZS)
D: 2 - 297 (UniProt: G1SYJ6)
F: 1 - 247 (UniProt: G1TUB1)
G: 1 - 77 (PDB: 5LZS)
G: 78 - 319 (UniProt: G1STW0)
a: 1 - 148 (UniProt: G1SNY0)
b: 1 - 226 (UniProt: G1SGR6)
b: 227 - 245 (PDB: 5LZS)
II: 1 - 208 (UniProt: G1TJW1)
OO: -16 - -5 (PDB: 5LZS)
OO: -4 - 151 (UniProt: G1T1F0)
TT: 1 - 145 (UniProt: G1TN62)
| PDB | External Database | Details |
|---|---|---|
| Met 1 | - | initiating methionine |
C: 379 - 425 (PDB: 5LZS)
D: 2 - 297 (UniProt: G1SYJ6)
| PDB | External Database | Details |
|---|---|---|
| Met 1 | - | initiating methionine |
| PDB | External Database | Details |
|---|---|---|
| Arg 61 | Gly 61 | conflict |
| Arg 93 | Gly 93 | conflict |
| Met 131 | Val 131 | conflict |
| Ile 153 | Val 153 | conflict |
G: 78 - 319 (UniProt: G1STW0)
| PDB | External Database | Details |
|---|---|---|
| Gly 244 | Cys 167 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Met 1 | Gln 1 | conflict |
b: 227 - 245 (PDB: 5LZS)
II: 1 - 208 (UniProt: G1TJW1)
| PDB | External Database | Details |
|---|---|---|
| Arg 47 | Gly 47 | conflict |
OO: -4 - 151 (UniProt: G1T1F0)
TT: 1 - 145 (UniProt: G1TN62)
| PDB | External Database | Details |
|---|---|---|
| Gly 119 | Trp 119 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 86 |
| Total formula weight | 3487688.5 | |
| Non-Polymers* | Number of molecules | 286 |
| Total formula weight | 8787.0 | |
| All* | Total formula weight | 3496475.5 |
