7SYW
Structure of the wt IRES eIF5B-containing 48S initiation complex, closed conformation. Structure 15(wt)
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | 2 | 18S rRNA | polymer | 1870 | 603100.9 | 1 | Oryctolagus cuniculus (rabbit) | ||
| 2 | A | Eukaryotic translation initiation factor 1A, X-chromosomal | polymer | 144 | 16488.4 | 1 | UniProt (P47813) Pfam (PF01176) In PDB | Homo sapiens (human) | eIF-1A X isoform,Eukaryotic translation initiation factor 4C,eIF-4C |
| 3 | B | 40S ribosomal protein SA | polymer | 295 | 32958.0 | 1 | UniProt (G1TLT8) Pfam (PF00318) Pfam (PF16122) In PDB | Oryctolagus cuniculus (rabbit) | 37 kDa laminin receptor precursor,37LRP,37/67 kDa laminin receptor,LRP/LR,67 kDa laminin receptor,67LR,Laminin receptor 1,LamR,Laminin-binding protein precursor p40,LBP/p40 |
| 4 | C | eS1 | polymer | 264 | 30002.1 | 1 | UniProt (G1SS70) Pfam (PF01015) In PDB | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S3a |
| 5 | D | 40S ribosomal protein S2 | polymer | 221 | 24441.8 | 1 | UniProt (by SIFTS) (G1SV32) In PDB | Oryctolagus cuniculus (rabbit) | |
| 6 | E | uS3 | polymer | 281 | 31146.6 | 1 | UniProt (G1TNM3) Pfam (PF07650) Pfam (PF00189) In PDB | Oryctolagus cuniculus (rabbit) | Ribosomal protein S3 |
| 7 | F | 40S ribosomal protein S4 | polymer | 263 | 29654.9 | 1 | UniProt (G1TK17) Pfam (PF00467) Pfam (PF16121) Pfam (PF08071) Pfam (PF00900) UniProt (by SIFTS) (G1TA47) In PDB | Oryctolagus cuniculus (rabbit) | |
| 8 | G | uS7 | polymer | 204 | 22913.5 | 1 | UniProt (G1TFM5) Pfam (PF00177) In PDB | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S5 |
| 9 | H | eS6 | polymer | 249 | 28751.9 | 1 | UniProt (G1TM55) Pfam (PF01092) UniProt (by SIFTS) (A0A5K1UJS7) In PDB | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S6 |
| 10 | I | 40S ribosomal protein S7 | polymer | 432 | 47356.2 | 1 | UniProt (G1SVB0) In PDB | Oryctolagus cuniculus (rabbit) | |
| 11 | J | eS8 | polymer | 208 | 24263.4 | 1 | UniProt (G1TJW1) Pfam (PF01201) In PDB | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S8 |
| 12 | K | uS4 | polymer | 194 | 22641.6 | 1 | UniProt (B7NZS8) Pfam (PF00163) Pfam (PF01479) In PDB | Oryctolagus cuniculus (rabbit) | Ribosomal protein S9 |
| 13 | L | eS10 | polymer | 149 | 17156.9 | 1 | UniProt (G1TPV3) Pfam (PF03501) In PDB | Oryctolagus cuniculus (rabbit) | |
| 14 | M | uS17 | polymer | 158 | 18468.8 | 1 | UniProt (G1TRM4) Pfam (PF16205) Pfam (PF00366) In PDB | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S11 |
| 15 | N | eS12 | polymer | 132 | 14539.0 | 1 | UniProt (G1SFR8) Pfam (PF01248) In PDB | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S12 |
| 16 | O | uS15 | polymer | 151 | 17259.4 | 1 | UniProt (G1SP51) Pfam (PF08069) Pfam (PF00312) In PDB | Oryctolagus cuniculus (rabbit) | Ribosomal protein S13 |
| 17 | P | uS11 | polymer | 168 | 18134.0 | 1 | UniProt (G1U472) Pfam (PF00411) UniProt (by SIFTS) (G1T1F0) In PDB | Oryctolagus cuniculus (rabbit) | |
| 18 | Q | uS19 | polymer | 145 | 17049.2 | 1 | UniProt (G1U0Q2) Pfam (PF00203) In PDB | Oryctolagus cuniculus (rabbit) | |
| 19 | R | uS9 | polymer | 172 | 19213.5 | 1 | UniProt (G1SGX4) Pfam (PF00380) In PDB | Oryctolagus cuniculus (rabbit) | Ribosomal protein S16 |
| 20 | S | eS17 | polymer | 135 | 15552.1 | 1 | UniProt (G1TU13) Pfam (PF00833) In PDB | Oryctolagus cuniculus (rabbit) | |
| 21 | T | uS13 | polymer | 152 | 17759.8 | 1 | UniProt (G1TPG3) Pfam (PF00416) In PDB | Oryctolagus cuniculus (rabbit) | |
| 22 | U | eS19 | polymer | 145 | 16235.8 | 1 | UniProt (G1TN62) Pfam (PF01090) In PDB | Oryctolagus cuniculus (rabbit) | |
| 23 | V | uS10 | polymer | 119 | 13398.8 | 1 | UniProt (G1SIZ2) Pfam (PF00338) In PDB | Oryctolagus cuniculus (rabbit) | |
| 24 | W | 40S ribosomal protein S21 | polymer | 83 | 9124.4 | 1 | UniProt (G1TM82) Pfam (PF01249) In PDB | Oryctolagus cuniculus (rabbit) | |
| 25 | X | uS8 | polymer | 130 | 14865.6 | 1 | UniProt (G1TG89) Pfam (PF00410) In PDB | Oryctolagus cuniculus (rabbit) | Ribosomal protein S15a |
| 26 | Y | uS12 | polymer | 143 | 15844.7 | 1 | UniProt (G1SZ47) Pfam (PF00164) In PDB | Oryctolagus cuniculus (rabbit) | |
| 27 | Z | 40S ribosomal protein S24 | polymer | 131 | 15237.1 | 1 | UniProt (A0A5F9CNN4) Pfam (PF01282) UniProt (by SIFTS) (G1T3D8) In PDB | Oryctolagus cuniculus (rabbit) | |
| 28 | a | 40S ribosomal protein S25 | polymer | 124 | 13645.0 | 1 | UniProt (G1TDB3) Pfam (PF03297) In PDB | Oryctolagus cuniculus (rabbit) | |
| 29 | b | 40S ribosomal protein S26 | polymer | 101 | 11645.8 | 1 | Pfam (PF01283) UniProt (by SIFTS) (G1TFE8) In PDB | Oryctolagus cuniculus (rabbit) | |
| 30 | c | eS27 | polymer | 84 | 9480.2 | 1 | UniProt (G1TZ76) Pfam (PF01667) In PDB | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S27 |
| 31 | d | eS28 | polymer | 69 | 7855.1 | 1 | UniProt (G1TIB4) Pfam (PF01200) In PDB | Oryctolagus cuniculus (rabbit) | Ribosomal protein S28 |
| 32 | e | eS29 | polymer | 56 | 6690.8 | 1 | UniProt (G1U7M4) Pfam (PF00253) In PDB | Oryctolagus cuniculus (rabbit) | |
| 33 | f | eS30 | polymer | 133 | 14498.9 | 1 | UniProt (G1T8A2) Pfam (PF00240) Pfam (PF04758) In PDB | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S30 |
| 34 | g | 40S ribosomal protein S27a | polymer | 188 | 21431.7 | 1 | UniProt (G1SK22) Pfam (PF00240) Pfam (PF01599) In PDB | Oryctolagus cuniculus (rabbit) | Ubiquitin carboxyl extension protein 80,Ubiquitin-40S ribosomal protein S27a |
| 35 | h | RACK1 | polymer | 317 | 35115.7 | 1 | UniProt (G1SJB4) Pfam (PF00400) In PDB | Oryctolagus cuniculus (rabbit) | |
| 36 | i | Met-tRNA-i-Met | polymer | 75 | 24231.5 | 1 | GenBank (174924) | Oryctolagus cuniculus (rabbit) | |
| 37 | n | 60s ribosomal protein l41 | polymer | 25 | 3473.5 | 1 | UniProt (A0A087WNH4) Pfam (PF05162) In PDB | Oryctolagus cuniculus (rabbit) | |
| 38 | x | Eukaryotic translation initiation factor 5B | polymer | 627 | 70788.0 | 1 | UniProt (G1TRL5) Pfam (PF00009) Pfam (PF11987) Pfam (PF14578) In PDB | Oryctolagus cuniculus (rabbit) | Translation initiation factor IF-2 |
| 39 | z | HCV IRES | polymer | 400 | 128746.1 | 1 | GenBank (149384897) | Hepatitis C virus (isolate 1) | |
| 40 | b | ZINC ION | non-polymer | 65.4 | 1 | Chemie (ZN) | |||
| 41 | x | GUANOSINE-5'-TRIPHOSPHATE | non-polymer | 523.2 | 1 | Chemie (GTP) | |||
| 42 | x | MAGNESIUM ION | non-polymer | 24.3 | 1 | Chemie (MG) | |||
| 43 | x | SODIUM ION | non-polymer | 23.0 | 1 | Chemie (NA) |
Sequence modifications
B: 1 - 295 (UniProt: G1TLT8)
F: 1 - 263 (UniProt: G1TK17)
J: 1 - 208 (UniProt: G1TJW1)
W: 1 - 83 (UniProt: G1TM82)
| PDB | External Database | Details |
|---|---|---|
| Thr 114 | Ala 114 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Gly 25 | Ser 25 | conflict |
| Arg 51 | Lys 51 | conflict |
| Thr 78 | Ala 78 | conflict |
| Val 156 | Met 156 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Arg 47 | Gly 47 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Asn 3 | Ser 3 | conflict |
| Asp 4 | Asn 4 | conflict |
| Gln 33 | Pro 33 | conflict |
| Phe 50 | Ser 50 | conflict |
| Ala 75 | Ser 75 | conflict |
| Asp 76 | His 76 | conflict |
| Lys 81 | Gln 81 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 39 |
| Total formula weight | 1501160.4 | |
| Non-Polymers* | Number of molecules | 4 |
| Total formula weight | 635.9 | |
| All* | Total formula weight | 1501796.2 |
