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 | A (2) | 18S rRNA | polymer | 1870 | 603100.9 | 1 | Oryctolagus cuniculus (rabbit) | ||
| 2 | B (A) | Eukaryotic translation initiation factor 1A, X-chromosomal | polymer | 144 | 16488.4 | 1 | UniProt (P47813) Pfam (PF01176) | Homo sapiens (human) | eIF-1A X isoform,Eukaryotic translation initiation factor 4C,eIF-4C |
| 3 | C (B) | 40S ribosomal protein SA | polymer | 295 | 32958.0 | 1 | UniProt (G1TLT8) Pfam (PF00318) Pfam (PF16122) | 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 | D (C) | eS1 | polymer | 264 | 30002.1 | 1 | UniProt (G1SS70) Pfam (PF01015) | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S3a |
| 5 | E (D) | 40S ribosomal protein S2 | polymer | 221 | 24441.8 | 1 | UniProt (by SIFTS) (G1SV32) | Oryctolagus cuniculus (rabbit) | |
| 6 | F (E) | uS3 | polymer | 281 | 31146.6 | 1 | UniProt (G1TNM3) Pfam (PF07650) Pfam (PF00189) | Oryctolagus cuniculus (rabbit) | Ribosomal protein S3 |
| 7 | G (F) | 40S ribosomal protein S4 | polymer | 263 | 29654.9 | 1 | UniProt (G1TK17) Pfam (PF00467) Pfam (PF16121) Pfam (PF08071) Pfam (PF00900) UniProt (by SIFTS) (G1TA47) | Oryctolagus cuniculus (rabbit) | |
| 8 | H (G) | uS7 | polymer | 204 | 22913.5 | 1 | UniProt (G1TFM5) Pfam (PF00177) | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S5 |
| 9 | I (H) | eS6 | polymer | 249 | 28751.9 | 1 | UniProt (G1TM55) Pfam (PF01092) UniProt (by SIFTS) (A0A5K1UJS7) | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S6 |
| 10 | J (I) | 40S ribosomal protein S7 | polymer | 432 | 47356.2 | 1 | UniProt (G1SVB0) Pfam (PF01251) | Oryctolagus cuniculus (rabbit) | |
| 11 | K (J) | eS8 | polymer | 208 | 24263.4 | 1 | UniProt (G1TJW1) Pfam (PF01201) | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S8 |
| 12 | L (K) | uS4 | polymer | 194 | 22641.6 | 1 | UniProt (B7NZS8) Pfam (PF00163) Pfam (PF01479) | Oryctolagus cuniculus (rabbit) | Ribosomal protein S9 |
| 13 | M (L) | eS10 | polymer | 149 | 17156.9 | 1 | UniProt (G1TPV3) Pfam (PF03501) | Oryctolagus cuniculus (rabbit) | |
| 14 | N (M) | uS17 | polymer | 158 | 18468.8 | 1 | UniProt (G1TRM4) Pfam (PF16205) Pfam (PF00366) | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S11 |
| 15 | O (N) | eS12 | polymer | 132 | 14539.0 | 1 | UniProt (G1SFR8) Pfam (PF01248) | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S12 |
| 16 | P (O) | uS15 | polymer | 151 | 17259.4 | 1 | UniProt (G1SP51) Pfam (PF08069) Pfam (PF00312) | Oryctolagus cuniculus (rabbit) | Ribosomal protein S13 |
| 17 | Q (P) | uS11 | polymer | 168 | 18134.0 | 1 | UniProt (G1U472) Pfam (PF00411) UniProt (by SIFTS) (G1T1F0) | Oryctolagus cuniculus (rabbit) | |
| 18 | R (Q) | uS19 | polymer | 145 | 17049.2 | 1 | UniProt (G1U0Q2) Pfam (PF00203) | Oryctolagus cuniculus (rabbit) | |
| 19 | S (R) | uS9 | polymer | 172 | 19213.5 | 1 | UniProt (G1SGX4) Pfam (PF00380) | Oryctolagus cuniculus (rabbit) | Ribosomal protein S16 |
| 20 | T (S) | eS17 | polymer | 135 | 15552.1 | 1 | UniProt (G1TU13) Pfam (PF00833) | Oryctolagus cuniculus (rabbit) | |
| 21 | U (T) | uS13 | polymer | 152 | 17759.8 | 1 | UniProt (G1TPG3) Pfam (PF00416) | Oryctolagus cuniculus (rabbit) | |
| 22 | V (U) | eS19 | polymer | 145 | 16235.8 | 1 | UniProt (G1TN62) Pfam (PF01090) | Oryctolagus cuniculus (rabbit) | |
| 23 | W (V) | uS10 | polymer | 119 | 13398.8 | 1 | UniProt (G1SIZ2) Pfam (PF00338) | Oryctolagus cuniculus (rabbit) | |
| 24 | X (W) | 40S ribosomal protein S21 | polymer | 83 | 9124.4 | 1 | UniProt (G1TM82) Pfam (PF01249) | Oryctolagus cuniculus (rabbit) | |
| 25 | Y (X) | uS8 | polymer | 130 | 14865.6 | 1 | UniProt (G1TG89) Pfam (PF00410) | Oryctolagus cuniculus (rabbit) | Ribosomal protein S15a |
| 26 | Z (Y) | uS12 | polymer | 143 | 15844.7 | 1 | UniProt (G1SZ47) Pfam (PF00164) | Oryctolagus cuniculus (rabbit) | |
| 27 | AA (Z) | 40S ribosomal protein S24 | polymer | 131 | 15237.1 | 1 | UniProt (A0A5F9CNN4) Pfam (PF01282) UniProt (by SIFTS) (G1T3D8) | Oryctolagus cuniculus (rabbit) | |
| 28 | BA (a) | 40S ribosomal protein S25 | polymer | 124 | 13645.0 | 1 | UniProt (G1TDB3) Pfam (PF03297) | Oryctolagus cuniculus (rabbit) | |
| 29 | CA (b) | 40S ribosomal protein S26 | polymer | 101 | 11645.8 | 1 | Pfam (PF01283) UniProt (by SIFTS) (G1TFE8) | Oryctolagus cuniculus (rabbit) | |
| 30 | DA (c) | eS27 | polymer | 84 | 9480.2 | 1 | UniProt (G1TZ76) Pfam (PF01667) | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S27 |
| 31 | EA (d) | eS28 | polymer | 69 | 7855.1 | 1 | UniProt (G1TIB4) Pfam (PF01200) | Oryctolagus cuniculus (rabbit) | Ribosomal protein S28 |
| 32 | FA (e) | eS29 | polymer | 56 | 6690.8 | 1 | UniProt (G1U7M4) Pfam (PF00253) | Oryctolagus cuniculus (rabbit) | |
| 33 | GA (f) | eS30 | polymer | 133 | 14498.9 | 1 | UniProt (G1T8A2) Pfam (PF00240) Pfam (PF04758) | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S30 |
| 34 | HA (g) | 40S ribosomal protein S27a | polymer | 188 | 21431.7 | 1 | UniProt (G1SK22) Pfam (PF00240) Pfam (PF01599) | Oryctolagus cuniculus (rabbit) | Ubiquitin carboxyl extension protein 80,Ubiquitin-40S ribosomal protein S27a |
| 35 | IA (h) | RACK1 | polymer | 317 | 35115.7 | 1 | UniProt (G1SJB4) Pfam (PF00400) | Oryctolagus cuniculus (rabbit) | |
| 36 | JA (i) | Met-tRNA-i-Met | polymer | 75 | 24231.5 | 1 | GenBank (174924) | Oryctolagus cuniculus (rabbit) | |
| 37 | KA (n) | 60s ribosomal protein l41 | polymer | 25 | 3473.5 | 1 | UniProt (A0A087WNH4) Pfam (PF05162) | Oryctolagus cuniculus (rabbit) | |
| 38 | LA (x) | Eukaryotic translation initiation factor 5B | polymer | 627 | 70788.0 | 1 | UniProt (G1TRL5) Pfam (PF00009) Pfam (PF11987) Pfam (PF14578) | Oryctolagus cuniculus (rabbit) | Translation initiation factor IF-2 |
| 39 | MA (z) | HCV IRES | polymer | 400 | 128746.1 | 1 | GenBank (149384897) | Hepatitis C virus (isolate 1) | |
| 40 | NA (b) | ZINC ION | non-polymer | 65.4 | 1 | Chemie (ZN) | |||
| 41 | OA (x) | GUANOSINE-5'-TRIPHOSPHATE | non-polymer | 523.2 | 1 | Chemie (GTP) PubChem (177679032) PubChem (135400627) PubChem (135487750) PubChem (136088935) PubChem (136803486) PubChem (135398633) PubChem (135544356) PubChem (135547949) PubChem (135600366) PubChem (135749822) PubChem (136005188) PubChem (136073923) PubChem (136240914) PubChem (136664747) PubChem (136772743) PubChem (136772744) PubChem (136803487) PubChem (137286749) PubChem (164715984) PubChem (171699466) | |||
| 42 | PA (x) | MAGNESIUM ION | non-polymer | 24.3 | 1 | Chemie (MG) PubChem (888) | |||
| 43 | QA (x) | SODIUM ION | non-polymer | 23.0 | 1 | Chemie (NA) PubChem (923) |
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 |
