6W2T
Structure of the Cricket Paralysis Virus 5-UTR IRES (CrPV 5-UTR-IRES) bound to the small ribosomal subunit in the closed state (Class 2)
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) | 18S rRNA | polymer | 1697 | 547733.1 | 1 | Oryctolagus cuniculus | ||
| 2 | B (B) | uS2 | polymer | 295 | 33022.1 | 1 | UniProt (G1TWL4) Pfam (PF00318) Pfam (PF16122) UniProt (by SIFTS) (G1TLT8) | Oryctolagus cuniculus (Rabbit) | 40S ribosomal protein SA |
| 3 | C (C) | eS1 | polymer | 264 | 30002.1 | 1 | UniProt (G1SS70) Pfam (PF01015) | Oryctolagus cuniculus (Rabbit) | 40S ribosomal protein S3a |
| 4 | D (D) | uS5 | polymer | 255 | 27529.2 | 1 | UniProt (G1SWM1) Pfam (PF00333) Pfam (PF03719) | Oryctolagus cuniculus (Rabbit) | S5 DRBM domain-containing protein |
| 5 | E (F) | eS4 | polymer | 263 | 29596.8 | 1 | UniProt (G1TK17) Pfam (PF08071) Pfam (PF00900) Pfam (PF00467) Pfam (PF16121) | Oryctolagus cuniculus (Rabbit) | 40S ribosomal protein S4 |
| 6 | F (H) | eS6 | polymer | 249 | 28751.9 | 1 | UniProt (G1TM55) Pfam (PF01092) | Oryctolagus cuniculus (Rabbit) | 40S ribosomal protein S6 |
| 7 | G (I) | eS7 | polymer | 194 | 22168.9 | 1 | UniProt (G1SVB0) | Oryctolagus cuniculus (Rabbit) | 40S ribosomal protein S7 |
| 8 | H (J) | eS8 | polymer | 208 | 24263.4 | 1 | UniProt (G1TJW1) Pfam (PF01201) | Oryctolagus cuniculus (Rabbit) | 40S ribosomal protein S8 |
| 9 | I (K) | uS4 | polymer | 194 | 22641.6 | 1 | UniProt (B7NZS8) Pfam (PF00163) Pfam (PF01479) | Oryctolagus cuniculus (Rabbit) | Ribosomal protein S9 |
| 10 | J (M) | uS17 | polymer | 158 | 18468.8 | 1 | UniProt (G1TRM4) Pfam (PF16205) Pfam (PF00366) | Oryctolagus cuniculus (Rabbit) | 40S ribosomal protein S11 |
| 11 | K (O) | uS15 | polymer | 151 | 17259.4 | 1 | UniProt (G1SP51) Pfam (PF08069) Pfam (PF00312) | Oryctolagus cuniculus (Rabbit) | Ribosomal protein S13 |
| 12 | L (P) | uS11 | polymer | 151 | 16302.8 | 1 | UniProt (G1U472) Pfam (PF00411) UniProt (by SIFTS) (G1T1F0) | Oryctolagus cuniculus (Rabbit) | |
| 13 | M (W) | eS21 | polymer | 83 | 9098.3 | 1 | Oryctolagus cuniculus | ||
| 14 | N (X) | uS8 | polymer | 130 | 14865.6 | 1 | UniProt (G1TG89) Pfam (PF00410) | Oryctolagus cuniculus (Rabbit) | Ribosomal protein S15a |
| 15 | O (Y) | uS12 | polymer | 143 | 15784.5 | 1 | UniProt (G1SZ47) Pfam (PF00164) | Oryctolagus cuniculus (Rabbit) | Ribosomal protein S23 |
| 16 | P (Z) | eS24 | polymer | 134 | 15548.4 | 1 | UniProt (G1T3D8) Pfam (PF01282) | Oryctolagus cuniculus (Rabbit) | 40S ribosomal protein S24 |
| 17 | Q (b) | eS26 | polymer | 115 | 13015.5 | 1 | UniProt (G1TFE8) Pfam (PF01283) | Oryctolagus cuniculus (Rabbit) | 40S ribosomal protein S26 |
| 18 | R (c) | eS27 | polymer | 84 | 9480.2 | 1 | UniProt (G1TZ76) Pfam (PF01667) | Oryctolagus cuniculus (Rabbit) | 40S ribosomal protein S27 |
| 19 | S (f) | eS30 | polymer | 133 | 14498.9 | 1 | UniProt (G1T8A2) Pfam (PF00240) Pfam (PF04758) | Oryctolagus cuniculus (Rabbit) | 40S ribosomal protein S30 |
| 20 | T (E) | uS3 | polymer | 281 | 31146.6 | 1 | UniProt (G1TNM3) Pfam (PF07650) Pfam (PF00189) | Oryctolagus cuniculus (Rabbit) | Ribosomal protein S3 |
| 21 | U (G) | uS7 | polymer | 204 | 22913.5 | 1 | UniProt (G1TFM5) Pfam (PF00177) | Oryctolagus cuniculus (Rabbit) | 40S ribosomal protein S5 |
| 22 | V (L) | eS10 | polymer | 149 | 17156.9 | 1 | UniProt (G1TPV3) Pfam (PF03501) | Oryctolagus cuniculus (Rabbit) | |
| 23 | W (N) | eS12 | polymer | 132 | 14539.0 | 1 | UniProt (G1SFR8) Pfam (PF01248) | Oryctolagus cuniculus (Rabbit) | 40S ribosomal protein S12 |
| 24 | X (Q) | uS19 | polymer | 145 | 17049.2 | 1 | UniProt (G1U0Q2) Pfam (PF00203) | Oryctolagus cuniculus (Rabbit) | |
| 25 | Y (R) | uS9 | polymer | 172 | 19213.5 | 1 | UniProt (G1SGX4) Pfam (PF00380) | Oryctolagus cuniculus (Rabbit) | Ribosomal protein S16 |
| 26 | Z (S) | eS17 | polymer | 135 | 15552.1 | 1 | UniProt (G1TU13) Pfam (PF00833) | Oryctolagus cuniculus (Rabbit) | |
| 27 | AA (T) | uS13 | polymer | 152 | 17759.8 | 1 | UniProt (G1TPG3) Pfam (PF00416) | Oryctolagus cuniculus (Rabbit) | |
| 28 | BA (U) | eS19 | polymer | 145 | 16235.8 | 1 | UniProt (G1TN62) Pfam (PF01090) | Oryctolagus cuniculus (Rabbit) | |
| 29 | CA (V) | uS10 | polymer | 119 | 13398.8 | 1 | UniProt (G1SIZ2) Pfam (PF00338) | Oryctolagus cuniculus (Rabbit) | |
| 30 | DA (i) | eS25 | polymer | 125 | 13776.2 | 1 | UniProt (G1TDB3) Pfam (PF03297) | Oryctolagus cuniculus (Rabbit) | |
| 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 (g) | eS31 | polymer | 156 | 18004.0 | 1 | UniProt (G1SK22) Pfam (PF00240) Pfam (PF01599) | Oryctolagus cuniculus (Rabbit) | Ribosomal protein S27a |
| 34 | HA (h) | RACK1 | polymer | 317 | 35115.7 | 1 | UniProt (G1SJB4) Pfam (PF00400) | Oryctolagus cuniculus (Rabbit) | |
| 35 | IA (3) | Eukaryotic translation initiation factor 3 subunit E | polymer | 462 | 54199.9 | 1 | UniProt (G1SUC8) Pfam (PF09440) Pfam (PF01399) Pfam (PF21357) | Oryctolagus cuniculus (Rabbit) | eIF3e,Eukaryotic translation initiation factor 3 subunit 6,eIF-3 p48 |
| 36 | JA (4) | Eukaryotic translation initiation factor 3 subunit F | polymer | 364 | 37846.7 | 1 | UniProt (G1SLC2) Pfam (PF01398) Pfam (PF13012) | Oryctolagus cuniculus (Rabbit) | eIF3f,Eukaryotic translation initiation factor 3 subunit 5,eIF-3-epsilon,eIF3 p47 |
| 37 | KA (6) | Eukaryotic translation initiation factor 3 subunit K | polymer | 218 | 25129.7 | 1 | UniProt (G1T3L2) Pfam (PF10075) | Oryctolagus cuniculus (Rabbit) | eIF3k,Eukaryotic translation initiation factor 3 subunit 12,eIF-3 p25 |
| 38 | LA (7) | Eukaryotic translation initiation factor 3 subunit L | polymer | 607 | 71001.5 | 1 | UniProt (G1SED9) Pfam (PF10255) | Oryctolagus cuniculus (Rabbit) | eIF3l,Eukaryotic translation initiation factor 3 subunit 6-interacting protein,Eukaryotic translation initiation factor 3 subunit E-interacting protein |
| 39 | MA (8) | Eukaryotic translation initiation factor 3 subunit M | polymer | 374 | 42555.8 | 1 | UniProt (G1SLW8) Pfam (PF01399) Pfam (PF18005) | Oryctolagus cuniculus (Rabbit) | eIF3m |
| 40 | NA (1) | Eukaryotic translation initiation factor 3 subunit A | polymer | 1362 | 164902.7 | 1 | UniProt (G1SMZ5) Pfam (PF22591) Pfam (PF01399) | Oryctolagus cuniculus (Rabbit) | eIF3a,Eukaryotic translation initiation factor 3 subunit 10,eIF-3-theta |
| 41 | OA (2) | Eukaryotic translation initiation factor 3 subunit C | polymer | 913 | 105706.2 | 1 | UniProt (G1U971) Pfam (PF05470) Pfam (PF01399) | Oryctolagus cuniculus (Rabbit) | eIF3c,Eukaryotic translation initiation factor 3 subunit 8,eIF3 p110 |
| 42 | PA (9) | Eukaryotic translation initiation factor 3 subunit D | polymer | 558 | 64517.2 | 1 | UniProt (K7IM66) Pfam (PF05091) | Oryctolagus cuniculus (Rabbit) | eIF3d,Eukaryotic translation initiation factor 3 subunit 7 |
| 43 | QA (5) | Eukaryotic translation initiation factor 3 subunit H | polymer | 363 | 41083.5 | 1 | UniProt (G1ST95) Pfam (PF01398) Pfam (PF19445) | Oryctolagus cuniculus (Rabbit) | eIF3h,Eukaryotic translation initiation factor 3 subunit 3,eIF-3 gamma,eIF3 p40 subunit |
| 44 | RA (A) | CrPV 5'-UTR IRES | polymer | 377 | 121095.0 | 1 | GenBank (8895506) | Cricket paralysis virus | |
| 45 | SA (a) | MAGNESIUM ION | non-polymer | 24.3 | 1 | Chemie (MG) | |||
| 46 | TA (b) | ZINC ION | non-polymer | 65.4 | 1 | Chemie (ZN) |
Sequence modifications
B: 1 - 295 (UniProt: G1TWL4)
D: 39 - 293 (UniProt: G1SWM1)
F: 1 - 263 (UniProt: G1TK17)
J: 1 - 208 (UniProt: G1TJW1)
b: 1 - 115 (UniProt: G1TFE8)
2: 1 - 913 (UniProt: G1U971)
A: 357 - 728 (GenBank: 8895506)
| PDB | External Database | Details |
|---|---|---|
| Thr 114 | Ala 114 | conflict |
| Thr 135 | Met 135 | conflict |
| Arg 155 | His 155 | conflict |
| Pro 162 | Leu 162 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Asn 57 | Asp 19 | conflict |
| Phe 97 | Cys 59 | conflict |
| Pro 181 | Leu 143 | conflict |
| Val 191 | - | insertion |
| PDB | External Database | Details |
|---|---|---|
| Gly 25 | Ser 25 | conflict |
| Val 156 | Met 156 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Arg 47 | Gly 47 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Arg 28 | Cys 28 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Glu 671 | Val 671 | conflict |
| PDB | External Database | Details |
|---|---|---|
| U 569 | C 569 | conflict |
| U 570 | C 570 | conflict |
| U 571 | A 571 | conflict |
| U 572 | C 572 | conflict |
| U 574 | C 574 | conflict |
| U 575 | G 575 | conflict |
| G 729 | - | expression tag |
| G 730 | - | expression tag |
| A 731 | - | expression tag |
| U 732 | - | expression tag |
| C 733 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 44 |
| Total formula weight | 1904476.3 | |
| Non-Polymers* | Number of molecules | 2 |
| Total formula weight | 89.7 | |
| All* | Total formula weight | 1904566.0 |
