9Q1S
NediV IRES (P site) in complex with Rabbit 80S 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 (9) | 18S rRNA | polymer | 1670 | 539096.6 | 1 | Oryctolagus cuniculus | ||
| 2 | B (A) | 60S ribosomal protein L8 | polymer | 248 | 26998.6 | 1 | UniProt (G1TT27) | Oryctolagus cuniculus (rabbit) | |
| 3 | C (B) | 60S ribosomal protein L3 | polymer | 394 | 45119.8 | 1 | UniProt (G1TL06) | Oryctolagus cuniculus (rabbit) | |
| 4 | D (C) | 60S ribosomal protein L4 | polymer | 362 | 41101.4 | 1 | UniProt (A0A5F9DCT1) | Oryctolagus cuniculus (rabbit) | |
| 5 | E (E) | Large ribosomal subunit protein eL6 | polymer | 251 | 28818.3 | 1 | UniProt (G1SKF7) | Oryctolagus cuniculus (rabbit) | 60S ribosomal protein L6 |
| 6 | F (G) | Large ribosomal subunit protein eL8 | polymer | 240 | 27351.4 | 1 | UniProt (G1STW0) | Oryctolagus cuniculus (rabbit) | 60S ribosomal protein L7a |
| 7 | G (H) | 60S ribosomal protein L9 | polymer | 190 | 21627.2 | 1 | UniProt (G1SWI6) | Oryctolagus cuniculus (rabbit) | |
| 8 | H (I) | Ribosomal protein L10 | polymer | 213 | 24511.9 | 1 | UniProt (B7NZQ2) | Oryctolagus cuniculus (rabbit) | Ribosomal protein L10 (Predicted) |
| 9 | I (J) | 60S ribosomal protein L11 | polymer | 170 | 19399.5 | 1 | UniProt (G1TUB8) | Oryctolagus cuniculus (rabbit) | |
| 10 | J (L) | Large ribosomal subunit protein eL13 | polymer | 210 | 24200.5 | 1 | UniProt (G1TKB3) | Oryctolagus cuniculus (rabbit) | 60S ribosomal protein L13 |
| 11 | K (N) | 60S ribosomal protein L15 | polymer | 203 | 24076.1 | 1 | UniProt (G1T0C1) | Oryctolagus cuniculus (rabbit) | |
| 12 | L (O) | Large ribosomal subunit protein uL13 | polymer | 199 | 23144.9 | 1 | UniProt (G1TVS8) | Oryctolagus cuniculus (rabbit) | 60S ribosomal protein L13a |
| 13 | M (R) | 60S ribosomal protein L19 | polymer | 180 | 21613.0 | 1 | UniProt (G1TYL6) | Oryctolagus cuniculus (rabbit) | |
| 14 | N (V) | Large ribosomal subunit protein uL14 | polymer | 139 | 14761.3 | 1 | UniProt (G1T6D1) | Oryctolagus cuniculus (rabbit) | 60S ribosomal protein L23 |
| 15 | O (W) | Large ribosomal subunit protein eL24 | polymer | 94 | 11064.0 | 1 | UniProt (G1SE28) | Oryctolagus cuniculus (rabbit) | 60S ribosomal protein L24 |
| 16 | P (X) | Large ribosomal subunit protein uL23 | polymer | 118 | 13727.2 | 1 | UniProt (G1SE76) | Oryctolagus cuniculus (rabbit) | 60S ribosomal protein L23a |
| 17 | Q (Y) | 60S ribosomal protein L26 | polymer | 134 | 15891.8 | 1 | UniProt (G1SQH0) | Oryctolagus cuniculus (rabbit) | |
| 18 | R (a) | 60S ribosomal protein L27a | polymer | 147 | 16489.4 | 1 | UniProt (G1SNY0) | Oryctolagus cuniculus (rabbit) | |
| 19 | S (b) | Large ribosomal subunit protein eL29 | polymer | 116 | 13401.0 | 1 | UniProt (G1SGR6) | Oryctolagus cuniculus (rabbit) | 60S ribosomal protein L29 |
| 20 | T (e) | Large ribosomal subunit protein eL32 | polymer | 128 | 15022.0 | 1 | UniProt (G1TUN8) | Oryctolagus cuniculus (rabbit) | 60S ribosomal protein L32 |
| 21 | U (5) | 28S ribosomal RNA | polymer | 3543 | 1148115.4 | 1 | Oryctolagus cuniculus | ||
| 22 | V (7) | 5S rRNA | polymer | 119 | 38385.8 | 1 | GenBank (2844819966) | Oryctolagus cuniculus (rabbit) | |
| 23 | W (8) | 5.8S rRNA | polymer | 156 | 50143.6 | 1 | GenBank (2795784436) | Oryctolagus cuniculus (rabbit) | |
| 24 | X (D) | 60S ribosomal protein L5 | polymer | 293 | 34077.4 | 1 | UniProt (P19949) | Oryctolagus cuniculus (rabbit) | Large ribosomal subunit protein uL18 |
| 25 | Y (F) | 60S ribosomal protein L7 | polymer | 225 | 26658.8 | 1 | UniProt (G1SV32) | Oryctolagus cuniculus (rabbit) | |
| 26 | Z (M) | 60S ribosomal protein L14 | polymer | 138 | 16217.4 | 1 | UniProt (G1SZ12) | Oryctolagus cuniculus (rabbit) | Large ribosomal subunit protein eL14 |
| 27 | AA (P) | 60S ribosomal protein L17 | polymer | 153 | 17758.7 | 1 | UniProt (G1SCJ6) | Oryctolagus cuniculus (rabbit) | |
| 28 | BA (Q) | Large ribosomal subunit protein eL18 | polymer | 187 | 21568.5 | 1 | UniProt (G1TFE0) | Oryctolagus cuniculus (rabbit) | 60S ribosomal protein L18 |
| 29 | CA (S) | eL20 | polymer | 176 | 20827.6 | 1 | Oryctolagus cuniculus | ||
| 30 | DA (T) | 60S ribosomal protein L21 | polymer | 159 | 18478.8 | 1 | UniProt (G1SHQ2) | Oryctolagus cuniculus (rabbit) | |
| 31 | EA (U) | eL22 | polymer | 99 | 11495.3 | 1 | Oryctolagus cuniculus | ||
| 32 | FA (Z) | 60S ribosomal protein L27 | polymer | 135 | 15704.6 | 1 | UniProt (G1TXF6) | Oryctolagus cuniculus (rabbit) | |
| 33 | GA (c) | 60S ribosomal protein L30 | polymer | 98 | 10914.8 | 1 | UniProt (G1TDL2) | Oryctolagus cuniculus (rabbit) | |
| 34 | HA (d) | 60S ribosomal protein L31 | polymer | 107 | 12635.7 | 1 | UniProt (G1SHG0) | Oryctolagus cuniculus (rabbit) | |
| 35 | IA (f) | Large ribosomal subunit protein eL33 | polymer | 109 | 12449.6 | 1 | UniProt (G1SF08) | Oryctolagus cuniculus (rabbit) | 60S ribosomal protein L35a |
| 36 | JA (g) | 60S ribosomal protein L34 | polymer | 114 | 12994.6 | 1 | UniProt (G1TXG5) | Oryctolagus cuniculus (rabbit) | |
| 37 | KA (h) | 60S ribosomal protein L35 | polymer | 122 | 14435.4 | 1 | UniProt (G1SIT5) | Oryctolagus cuniculus (rabbit) | |
| 38 | LA (i) | 60S ribosomal protein L36 | polymer | 102 | 11888.4 | 1 | UniProt (G1TTQ5) | Oryctolagus cuniculus (rabbit) | |
| 39 | MA (j) | 60S ribosomal protein L37 | polymer | 86 | 10090.9 | 1 | UniProt (U3KPD5) | Oryctolagus cuniculus (rabbit) | |
| 40 | NA (k) | Large ribosomal subunit protein eL38 | polymer | 69 | 8107.8 | 1 | UniProt (G1U001) | Oryctolagus cuniculus (rabbit) | 60S ribosomal protein L38 |
| 41 | OA (l) | 60S ribosomal protein L39 | polymer | 50 | 6324.6 | 1 | UniProt (G1TTN1) | Oryctolagus cuniculus (rabbit) | |
| 42 | PA (m) | Large ribosomal subunit protein eL40 | polymer | 52 | 6199.6 | 1 | UniProt (P0DXC2) | Oryctolagus cuniculus (rabbit) | 60S ribosomal protein L40 |
| 43 | QA (n) | eL41 | polymer | 25 | 3473.5 | 1 | UniProt (A0A087WNH4) | Oryctolagus cuniculus (rabbit) | 60s ribosomal protein l41 |
| 44 | RA (o) | eL42 | polymer | 104 | 12198.6 | 1 | UniProt (A0A5F9D391) | Oryctolagus cuniculus (rabbit) | |
| 45 | SA (p) | 60S ribosomal protein L37a | polymer | 91 | 10168.2 | 1 | UniProt (G1SY53) | Oryctolagus cuniculus (rabbit) | |
| 46 | TA (r) | 60S ribosomal protein L28 | polymer | 124 | 14220.7 | 1 | UniProt (G1U7L1) | Oryctolagus cuniculus (rabbit) | |
| 47 | UA (1) | NediV IRES | polymer | 167 | 53498.6 | 1 | Nedicistrovirus TFN-2012 | ||
| 48 | VA (K) | eL1 | polymer | 130 | 15205.9 | 1 | Oryctolagus cuniculus | ||
| 49 | WA (AA) | 40S_SA_C domain-containing protein | polymer | 217 | 24361.9 | 1 | UniProt (G1TJH8) | Oryctolagus cuniculus (rabbit) | |
| 50 | XA (BB) | 40S ribosomal protein S3a | polymer | 213 | 24759.1 | 1 | UniProt (G1SS70) | Oryctolagus cuniculus (rabbit) | |
| 51 | YA (CC) | 40S ribosomal protein S2 | polymer | 221 | 24441.8 | 1 | UniProt (O18789) | Oryctolagus cuniculus (rabbit) | |
| 52 | ZA (EE) | 40S ribosomal protein S4 | polymer | 262 | 29523.7 | 1 | UniProt (G1TA47) | Oryctolagus cuniculus (rabbit) | |
| 53 | AB (GG) | Small ribosomal subunit protein eS6 | polymer | 224 | 25900.7 | 1 | UniProt (G1TM55) | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S6 |
| 54 | BB (HH) | Small ribosomal subunit protein eS7 | polymer | 189 | 21629.3 | 1 | UniProt (G1SVB0) | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S7 |
| 55 | CB (II) | 40S ribosomal protein S8 | polymer | 206 | 24003.0 | 1 | UniProt (G1TJW1) | Oryctolagus cuniculus (rabbit) | |
| 56 | DB (JJ) | Small ribosomal subunit protein uS4 | polymer | 176 | 20892.8 | 1 | UniProt (B7NZS8) | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S9 |
| 57 | EB (LL) | Small ribosomal subunit protein uS17 | polymer | 151 | 17586.8 | 1 | UniProt (G1TRM4) | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S11 |
| 58 | FB (NN) | 40S ribosomal protein S13 | polymer | 149 | 17057.1 | 1 | UniProt (G1SP51) | Oryctolagus cuniculus (rabbit) | |
| 59 | GB (OO) | Small ribosomal subunit protein uS11 | polymer | 136 | 14544.7 | 1 | UniProt (G1T1F0) | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S14 |
| 60 | HB (VV) | eS21 | polymer | 83 | 9124.4 | 1 | UniProt (G1TM82) | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S21 |
| 61 | IB (WW) | 40S ribosomal protein S15a | polymer | 129 | 14734.4 | 1 | UniProt (G1TG89) | Oryctolagus cuniculus (rabbit) | |
| 62 | JB (XX) | 40S ribosomal protein S23 | polymer | 141 | 15626.4 | 1 | UniProt (G1SZ47) | Oryctolagus cuniculus (rabbit) | |
| 63 | KB (YY) | 40S ribosomal protein S24 | polymer | 124 | 14432.1 | 1 | UniProt (G1T3D8) | Oryctolagus cuniculus (rabbit) | |
| 64 | LB (aa) | eS26 | polymer | 101 | 11645.8 | 1 | UniProt (G1TFE8) | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S26 |
| 65 | MB (bb) | 40S ribosomal protein S27 | polymer | 83 | 9349.0 | 1 | UniProt (G1TZ76) | Oryctolagus cuniculus (rabbit) | |
| 66 | NB (ee) | Small ribosomal subunit protein eS30 | polymer | 57 | 6512.7 | 1 | UniProt (G1T8A2) | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S30 |
| 67 | OB (DD) | Small ribosomal subunit protein uS3 | polymer | 211 | 23349.5 | 1 | UniProt (G1TNM3) | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S3 |
| 68 | PB (FF) | Small ribosomal subunit protein uS7 | polymer | 191 | 21525.9 | 1 | UniProt (G1TFM5) | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S5 |
| 69 | QB (KK) | Small ribosomal subunit protein eS10 | polymer | 78 | 9384.1 | 1 | UniProt (G1T168) | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S10 |
| 70 | RB (PP) | Small ribosomal subunit protein uS19 | polymer | 129 | 15115.8 | 1 | UniProt (G1U0Q2) | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S15 |
| 71 | SB (QQ) | Small ribosomal subunit protein uS9 | polymer | 136 | 15451.1 | 1 | UniProt (G1SGX4) | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S16 |
| 72 | TB (RR) | 40S ribosomal protein S17 | polymer | 132 | 15250.7 | 1 | UniProt (G1TU13) | Oryctolagus cuniculus (rabbit) | |
| 73 | UB (SS) | 40S ribosomal protein S18 | polymer | 144 | 16898.6 | 1 | UniProt (G1TPG3) | Oryctolagus cuniculus (rabbit) | |
| 74 | VB (TT) | Small ribosomal subunit protein eS19 | polymer | 141 | 15611.0 | 1 | UniProt (G1TN62) | Oryctolagus cuniculus (rabbit) | 40S ribosomal protein S19 |
| 75 | WB (UU) | uS10 | polymer | 48 | 5686.8 | 1 | Oryctolagus cuniculus | ||
| 76 | XB (ZZ) | 40S ribosomal protein S25 | polymer | 75 | 8526.1 | 1 | UniProt (G1TDB3) | Oryctolagus cuniculus (rabbit) | |
| 77 | YB (cc) | 40S ribosomal protein S28 | polymer | 62 | 7007.1 | 1 | UniProt (G1TIB4) | Oryctolagus cuniculus (rabbit) | |
| 78 | ZB (dd) | 40S ribosomal protein S29 | polymer | 55 | 6559.6 | 1 | UniProt (G1U7M4) | Oryctolagus cuniculus (rabbit) | |
| 79 | AC, AD, AE, AF, AG... (A, 5, V, a, aa...) | MAGNESIUM ION | non-polymer | 24.3 | 206 | Chemie (MG) PubChem (888) | |||
| 80 | AK, BK, DK, EK, WJ... (o, p, aa, dd, g...) | ZINC ION | non-polymer | 65.4 | 7 | Chemie (ZN) PubChem (32051) |
Sequence modifications
G: 80 - 319 (UniProt: G1STW0)
L: 2 - 211 (UniProt: G1TKB3)
R: 2 - 181 (UniProt: G1TYL6)
e: 2 - 129 (UniProt: G1TUN8)
Q: 2 - 188 (UniProt: G1TFE0)
k: 2 - 70 (UniProt: G1U001)
II: 2 - 207 (UniProt: G1TJW1)
VV: 1 - 83 (UniProt: G1TM82)
aa: 2 - 102 (UniProt: G1TFE8)
TT: 3 - 143 (UniProt: G1TN62)
| PDB | External Database | Details |
|---|---|---|
| Gly 244 | Cys 244 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Arg 74 | His 74 | conflict |
| Arg 190 | His 190 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Arg 38 | His 38 | conflict |
| Arg 151 | His 151 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Ala 3 | Ser 3 | conflict |
| Val 13 | Ile 13 | conflict |
| Arg 16 | Trp 16 | conflict |
| Asn 81 | Ser 81 | conflict |
| Glu 98 | Lys 98 | conflict |
| Arg 108 | Cys 108 | conflict |
| Ala 115 | Val 115 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Asp 4 | Asn 4 | conflict |
| Arg 14 | Trp 14 | conflict |
| Met 53 | Leu 53 | conflict |
| Arg 58 | Trp 58 | conflict |
| Arg 75 | Gln 75 | conflict |
| Ala 80 | Pro 80 | conflict |
| Val 86 | Ile 86 | conflict |
| Arg 104 | His 104 | conflict |
| Arg 110 | Cys 110 | conflict |
| Val 137 | Gly 137 | conflict |
| Gly 157 | Arg 157 | conflict |
| Arg 181 | Trp 181 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Lys 24 | Asn 24 | 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 |
| PDB | External Database | Details |
|---|---|---|
| Arg 28 | Cys 28 | conflict |
| Ala 56 | Val 56 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Gly 119 | Trp 119 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 78 |
| Total formula weight | 3088146.3 | |
| Non-Polymers* | Number of molecules | 213 |
| Total formula weight | 5464.7 | |
| All* | Total formula weight | 3093611.0 |
