8QHU
CRYO-EM STRUCTURE OF LEISHMANIA MAJOR 80S RIBOSOME : LM32Cs1C1 snoRNA overexpression
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 (SB) | 40S ribosomal protein SA | polymer | 246 | 27536.6 | 1 | UniProt (Q4Q0Q0) Pfam (PF00318) | Leishmania major strain Friedlin | |
| 2 | B (SC) | Putative 40S ribosomal protein S3 | polymer | 219 | 24511.8 | 1 | UniProt (Q4Q4A0) Pfam (PF07650) Pfam (PF00189) | Leishmania major strain Friedlin | |
| 3 | C (SD) | Putative 40S ribosomal protein S9 | polymer | 190 | 22188.9 | 1 | UniProt (Q4QIM3) Pfam (PF00163) Pfam (PF01479) | Leishmania major strain Friedlin | |
| 4 | D (SE) | 40S ribosomal protein S4 | polymer | 273 | 30742.1 | 1 | UniProt (Q4QG31) Pfam (PF08071) Pfam (PF01479) Pfam (PF00900) Pfam (PF00467) Pfam (PF16121) | Leishmania major strain Friedlin | |
| 5 | E (SF) | 40S ribosomal protein S2 | polymer | 265 | 28791.1 | 1 | UniProt (Q4QDL5) Pfam (PF00333) Pfam (PF03719) | Leishmania major strain Friedlin | |
| 6 | F (SG) | 40S ribosomal protein S6 | polymer | 249 | 28370.2 | 1 | UniProt (Q9NE83) Pfam (PF01092) | Leishmania major strain Friedlin | |
| 7 | G (SH) | 40S ribosomal protein S5 | polymer | 190 | 21336.6 | 1 | UniProt (Q868B1) Pfam (PF00177) | Leishmania major strain Friedlin | 40S ribosomal protein S5A,40S ribosomal protein S5B |
| 8 | H (SI) | 40S ribosomal protein S7 | polymer | 200 | 23765.2 | 1 | UniProt (E9AC32) Pfam (PF01251) | Leishmania major strain Friedlin | |
| 9 | I (SJ) | Putative 40S ribosomal protein S15A | polymer | 130 | 14719.3 | 1 | UniProt (Q4QGW3) Pfam (PF00410) | Leishmania major strain Friedlin | |
| 10 | J (SK) | 40S ribosomal protein S8 | polymer | 220 | 24984.3 | 1 | UniProt (P25204) Pfam (PF01201) | Leishmania major strain Friedlin | |
| 11 | K (SL) | Putative 40S ribosomal protein S16 | polymer | 149 | 16718.6 | 1 | UniProt (Q4Q9A5) Pfam (PF00380) | Leishmania major strain Friedlin | Ribosomal protein S16 |
| 12 | L (SM) | Putative ribosomal protein S20 | polymer | 116 | 13032.0 | 1 | UniProt (Q4Q8G4) Pfam (PF00338) | Leishmania major strain Friedlin | |
| 13 | M (SN) | Putative 40S ribosomal protein S10 | polymer | 168 | 18681.1 | 1 | UniProt (Q4Q1X7) Pfam (PF03501) | Leishmania major strain Friedlin | |
| 14 | N (SO) | 40S ribosomal protein S14 | polymer | 144 | 15623.2 | 1 | UniProt (Q4Q8H1) Pfam (PF00411) | Leishmania major strain Friedlin | |
| 15 | O (SP) | Putative 40S ribosomal protein S23 | polymer | 143 | 15969.6 | 1 | UniProt (Q4QC89) Pfam (PF00164) | Leishmania major strain Friedlin | |
| 16 | P (SQ) | 40S ribosomal protein S12 | polymer | 141 | 15627.8 | 1 | UniProt (Q4QG97) Pfam (PF01248) | Leishmania major strain Friedlin | |
| 17 | Q (SR) | Putative 40S ribosomal protein S18 | polymer | 153 | 17433.4 | 1 | UniProt (Q4Q1Y3) Pfam (PF00416) | Leishmania major strain Friedlin | Ribosomal protein S18 |
| 18 | R (SS) | Putative ribosomal protein S29 | polymer | 57 | 6696.9 | 1 | UniProt (Q4Q817) Pfam (PF00253) | Leishmania major strain Friedlin | |
| 19 | S (ST) | Putative 40S ribosomal protein S13 | polymer | 151 | 17482.8 | 1 | UniProt (Q4Q3M1) Pfam (PF08069) Pfam (PF00312) | Leishmania major strain Friedlin | |
| 20 | T (SU) | Putative 40S ribosomal protein S11 | polymer | 173 | 20023.5 | 1 | Pfam (PF16205) Pfam (PF00366) UniProt (by SIFTS) (Q4QCN7) | Leishmania major strain Friedlin | |
| 21 | U (SV) | Putative 40S ribosomal protein S17 | polymer | 143 | 16551.5 | 1 | UniProt (Q4Q806) Pfam (PF00833) | Leishmania major strain Friedlin | |
| 22 | V (SW) | Putative 40S ribosomal protein S15 | polymer | 152 | 17472.4 | 1 | UniProt (Q4QBV0) Pfam (PF00203) | Leishmania major strain Friedlin | |
| 23 | W (SX) | 40S ribosomal protein S19-like protein | polymer | 161 | 18158.1 | 1 | UniProt (E9AEE8) Pfam (PF01090) | Leishmania major strain Friedlin | |
| 24 | X (SY) | Putative 40S ribosomal protein S21 | polymer | 164 | 17035.6 | 1 | UniProt (Q4QH01) Pfam (PF01249) | Leishmania major strain Friedlin | |
| 25 | Y (SZ) | 40S ribosomal protein S24 | polymer | 137 | 15808.9 | 1 | UniProt (Q4Q1D2) Pfam (PF01282) | Leishmania major strain Friedlin | |
| 26 | Z (Sa) | 40S ribosomal protein S25 | polymer | 120 | 13071.4 | 1 | UniProt (Q4Q9X4) Pfam (PF03297) | Leishmania major strain Friedlin | |
| 27 | AA (Sb) | 40S ribosomal protein S26 | polymer | 112 | 12794.3 | 1 | UniProt (Q4Q8L6) Pfam (PF01283) | Leishmania major strain Friedlin | |
| 28 | BA (Sc) | Putative 40S ribosomal protein S27-1 | polymer | 86 | 9819.5 | 1 | UniProt (Q4Q140) Pfam (PF01667) | Leishmania major strain Friedlin | |
| 29 | CA (Sd) | Putative 40S ribosomal protein S33 | polymer | 87 | 9763.2 | 1 | UniProt (Q4Q931) Pfam (PF01200) | Leishmania major strain Friedlin | |
| 30 | DA (Se) | 40S ribosomal protein S30 | polymer | 66 | 7394.9 | 1 | UniProt (Q4Q7P0) Pfam (PF04758) | Leishmania major strain Friedlin | |
| 31 | EA (Sf) | Ubiquitin-60S ribosomal protein L40 | polymer | 152 | 17062.8 | 1 | UniProt (Q4QFK7) Pfam (PF00240) Pfam (PF01599) | Leishmania major strain Friedlin | |
| 32 | FA (Sg) | Small ribosomal subunit protein RACK1 | polymer | 312 | 34441.5 | 1 | UniProt (Q4Q7Y7) Pfam (PF00400) | Leishmania major strain Friedlin | Guanine nucleotide-binding protein subunit beta-like protein |
| 33 | GA (Sh) | Putative RNA binding protein | polymer | 235 | 25229.3 | 1 | UniProt (Q4Q5K7) Pfam (PF00076) | Leishmania major strain Friedlin | |
| 34 | HA (S4) | E-site_tRNA_chain_S4 | polymer | 76 | 24485.5 | 1 | GenBank (1851743410) | Leishmania major strain Friedlin | |
| 35 | IA (S1) | SSU_rRNA_chain_S1 | polymer | 2204 | 710704.9 | 1 | Leishmania major strain Friedlin | ||
| 36 | JA (SA) | 40S ribosomal protein S3a | polymer | 264 | 30062.0 | 1 | UniProt (Q4FX73) Pfam (PF01015) | Leishmania major strain Friedlin | LmS3a-related protein,LmS3arp |
| 37 | KA (4) | SR2_chain_4 | polymer | 184 | 59450.3 | 1 | GenBank (321438308) | Leishmania major strain Friedlin | |
| 38 | LA (6) | SR6_chain_6 | polymer | 73 | 23336.9 | 1 | GenBank (321438308) | Leishmania major strain Friedlin | |
| 39 | MA (8) | 5S_rRNA_chain_8 | polymer | 123 | 39450.4 | 1 | GenBank (321399712) | Leishmania major strain Friedlin | |
| 40 | NA (A) | Putative 60S ribosomal protein L2 | polymer | 260 | 28331.9 | 1 | UniProt (Q4FWX5) Pfam (PF00181) Pfam (PF03947) | Leishmania major strain Friedlin | |
| 41 | OA (B) | Putative ribosomal protein L3 | polymer | 419 | 47593.7 | 1 | UniProt (Q4Q2Q6) Pfam (PF00297) | Leishmania major strain Friedlin | |
| 42 | PA (C) | Putative ribosomal protein L1a | polymer | 373 | 41096.9 | 1 | UniProt (E9ADW5) Pfam (PF00573) Pfam (PF14374) | Leishmania major strain Friedlin | |
| 43 | QA (D) | 60S ribosomal protein L11 | polymer | 188 | 21694.5 | 1 | UniProt (P48157) Pfam (PF00281) Pfam (PF00673) | Leishmania major strain Friedlin | |
| 44 | RA (E) | Putative 60S ribosomal protein L9 | polymer | 190 | 21594.3 | 1 | UniProt (Q4QC91) Pfam (PF00347) | Leishmania major strain Friedlin | |
| 45 | SA (H) | Putative 60S ribosomal protein L13a | polymer | 222 | 25509.2 | 1 | UniProt (Q4QFG2) Pfam (PF00572) | Leishmania major strain Friedlin | |
| 46 | TA (I) | Putative 60S ribosomal protein L13 | polymer | 220 | 24849.0 | 1 | UniProt (E9AEA8) Pfam (PF01294) | Leishmania major strain Friedlin | |
| 47 | UA (J) | Putative 60S ribosomal protein L23 | polymer | 139 | 14982.6 | 1 | UniProt (E9AFK3) Pfam (PF00238) | Leishmania major strain Friedlin | |
| 48 | VA (K) | Putative 40S ribosomal protein L14 | polymer | 175 | 19948.6 | 1 | UniProt (Q4QBJ1) Pfam (PF00467) Pfam (PF01929) | Leishmania major strain Friedlin | |
| 49 | WA (L) | Putative 60S ribosomal protein L27A/L29 | polymer | 145 | 16135.9 | 1 | UniProt (E9AFK0) Pfam (PF00828) | Leishmania major strain Friedlin | |
| 50 | XA (M) | Ribosomal protein L15 | polymer | 204 | 24498.0 | 1 | UniProt (Q4Q6S3) Pfam (PF00827) | Leishmania major strain Friedlin | |
| 51 | YA (P) | 60S ribosomal protein L18 | polymer | 198 | 22071.1 | 1 | UniProt (Q4QG98) Pfam (PF17135) | Leishmania major strain Friedlin | |
| 52 | ZA (Q) | Putative 60S ribosomal protein L19 | polymer | 254 | 28896.1 | 1 | UniProt (Q4QJ37) Pfam (PF01280) | Leishmania major strain Friedlin | |
| 53 | AB (R) | 60S ribosomal protein L18a | polymer | 179 | 20852.3 | 1 | UniProt (Q4Q5J4) Pfam (PF01775) | Leishmania major strain Friedlin | |
| 54 | BB (S) | Putative 60S ribosomal protein L21 | polymer | 159 | 18068.2 | 1 | UniProt (Q4QEX4) Pfam (PF01157) | Leishmania major strain Friedlin | |
| 55 | CB (T) | Putative 60S ribosomal protein L17 | polymer | 166 | 19124.5 | 1 | UniProt (Q4QAX6) Pfam (PF00237) | Leishmania major strain Friedlin | |
| 56 | DB (U) | Putative 60S ribosomal protein L22 | polymer | 129 | 15030.5 | 1 | UniProt (Q4Q0X2) Pfam (PF01776) | Leishmania major strain Friedlin | |
| 57 | EB (V) | Putative 60S ribosomal protein L23a | polymer | 145 | 16372.4 | 1 | UniProt (Q4QJ20) Pfam (PF00276) | Leishmania major strain Friedlin | |
| 58 | FB (W) | Putative 60S ribosomal protein L26 | polymer | 143 | 16217.1 | 1 | UniProt (Q4QAC5) Pfam (PF16906) Pfam (PF00467) | Leishmania major strain Friedlin | |
| 59 | GB (X) | Putative ribosomal protein L24 | polymer | 124 | 14608.2 | 1 | UniProt (Q4Q1W6) Pfam (PF01246) | Leishmania major strain Friedlin | |
| 60 | HB (Y) | 60S ribosomal protein L27 | polymer | 134 | 15469.3 | 1 | UniProt (Q4Q504) Pfam (PF00467) Pfam (PF01777) | Leishmania major strain Friedlin | |
| 61 | IB (Z) | Putative 60S ribosomal protein L28 | polymer | 147 | 16314.9 | 1 | UniProt (Q4QGW7) Pfam (PF01778) | Leishmania major strain Friedlin | |
| 62 | JB (a) | Putative 60S ribosomal protein L35 | polymer | 127 | 15262.2 | 1 | UniProt (Q4Q8V7) Pfam (PF00831) | Leishmania major strain Friedlin | |
| 63 | KB (b) | 60S ribosomal protein L29 | polymer | 70 | 8001.3 | 1 | UniProt (Q4Q178) Pfam (PF01779) | Leishmania major strain Friedlin | |
| 64 | LB (c) | Putative 60S ribosomal protein L7 | polymer | 252 | 28900.0 | 1 | UniProt (Q4Q9H4) Pfam (PF08079) Pfam (PF00327) | Leishmania major strain Friedlin | |
| 65 | MB (d) | 60S ribosomal protein L30 | polymer | 104 | 11370.2 | 1 | UniProt (E9AEK1) Pfam (PF01248) | Leishmania major strain Friedlin | |
| 66 | NB (f) | 60S ribosomal protein L32 | polymer | 133 | 15458.2 | 1 | UniProt (Q4QC11) Pfam (PF01655) | Leishmania major strain Friedlin | |
| 67 | OB (g) | Putative ribosomal protein l35a | polymer | 144 | 16492.3 | 1 | UniProt (Q4QHL3) Pfam (PF01247) | Leishmania major strain Friedlin | |
| 68 | PB (h) | Putative 60S ribosomal protein L34 | polymer | 168 | 19335.1 | 1 | UniProt (Q4QDP9) Pfam (PF01199) | Leishmania major strain Friedlin | |
| 69 | QB (i) | Putative 60S Ribosomal protein L36 | polymer | 105 | 11975.2 | 1 | UniProt (Q4QCE1) Pfam (PF01158) | Leishmania major strain Friedlin | |
| 70 | RB (j) | Ribosomal protein L37 | polymer | 83 | 9862.6 | 1 | UniProt (E9AEH2) Pfam (PF01907) | Leishmania major strain Friedlin | |
| 71 | SB (k) | Putative ribosomal protein L38 | polymer | 83 | 9479.3 | 1 | UniProt (Q4Q8X0) Pfam (PF01781) | Leishmania major strain Friedlin | |
| 72 | TB (l) | Putative 60S ribosomal protein L39 | polymer | 51 | 6504.8 | 1 | UniProt (Q4QEQ0) Pfam (PF00832) | Leishmania major strain Friedlin | |
| 73 | UB (m) | Ubiquitin-60S ribosomal protein L40 | polymer | 128 | 14711.4 | 1 | UniProt (P69201) Pfam (PF00240) Pfam (PF01020) | Leishmania major strain Friedlin | |
| 74 | VB (n) | 60S ribosomal protein L41 | polymer | 34 | 4390.5 | 1 | Pfam (PF05162) UniProt (by SIFTS) (A0A0M9FZM0) | Leishmania major strain Friedlin | |
| 75 | WB (o) | 60S ribosomal protein L37a | polymer | 92 | 10337.2 | 1 | UniProt (Q4QC01) Pfam (PF01780) | Leishmania major strain Friedlin | Putative 60S ribosomal protein L37a |
| 76 | XB (p) | Putative 60S ribosomal protein L44 | polymer | 106 | 12302.7 | 1 | UniProt (Q4Q3L3) Pfam (PF00935) | Leishmania major strain Friedlin | |
| 77 | YB (F) | Putative 60S ribosomal protein L6 | polymer | 195 | 21126.7 | 1 | UniProt (Q4Q4D3) Pfam (PF01159) | Leishmania major strain Friedlin | |
| 78 | ZB (G) | 60S ribosomal protein L7a | polymer | 264 | 29824.2 | 1 | UniProt (Q4QIP1) Pfam (PF01248) | Leishmania major strain Friedlin | |
| 79 | AC (N) | Putative 60S ribosomal protein L10 | polymer | 213 | 24607.2 | 1 | UniProt (O97213) Pfam (PF00252) | Leishmania major strain Friedlin | |
| 80 | BC (O) | Putative 60S ribosomal protein L5 | polymer | 305 | 34058.6 | 1 | UniProt (E9AF09) Pfam (PF17144) Pfam (PF14204) UniProt (by SIFTS) (E9AF10) | Leishmania major strain Friedlin | |
| 81 | CC (e) | Putative 60S ribosomal subunit protein L31 | polymer | 188 | 21316.3 | 1 | UniProt (E9AFF2) Pfam (PF01198) | Leishmania major strain Friedlin | |
| 82 | DC (1) | RNA (1646-MER) | polymer | 1782 | 577069.6 | 1 | GenBank (321438308) | Leishmania major strain Friedlin | |
| 83 | EC (3) | SR1_chain_3 | polymer | 216 | 69146.6 | 1 | GenBank (321438308) | Leishmania major strain Friedlin | |
| 84 | FC (5) | SR4_chain_5 | polymer | 135 | 43481.8 | 1 | GenBank (321438308) | Leishmania major strain Friedlin | |
| 85 | GC (7) | 5.8S_rRNA_chain_7 | polymer | 171 | 54989.6 | 1 | GenBank (1207899567) | Leishmania major strain Friedlin | |
| 86 | HC (2) | LSUb_rRNA_chain_2 | polymer | 1526 | 492463.7 | 1 | GenBank (321438308) | Leishmania major strain Friedlin | |
| 87 | AD, AE, AF, AI, AJ... (S1, 1, 2, S, T...) | MAGNESIUM ION | non-polymer | 24.3 | 335 | Chemie (MG) | |||
| 88 | AH, AM, AN, BN, CG... (M, 1, 2, 4, N...) | POTASSIUM ION | non-polymer | 39.1 | 46 | Chemie (K) | |||
| 89 | AG, AR, BR, CR, DM... (S1, 2, 1, 3, 5...) | SODIUM ION | non-polymer | 23.0 | 10 | Chemie (NA) | |||
| 90 | AS, JR, KR, LR, MR... (2, S1, 4, 8, A...) | water | water | 18.0 | 367 | Chemie (HOH) |
Sequence modifications
S4: 1 - 76 (GenBank: 1851743410)
I: 1 - 220 (UniProt: E9AEA8)
1: 1 - 1782 (GenBank: 321438308)
| PDB | External Database | Details |
|---|---|---|
| G 3 | C 2534674 | conflict |
| C 70 | G 2534741 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Arg 203 | Asn 203 | conflict |
| PDB | External Database | Details |
|---|---|---|
| G 164 | U 993097 | conflict |
| U 165 | C 993098 | conflict |
| A 198 | C 993131 | conflict |
| A 523 | G 993456 | conflict |
| C 593 | U 993526 | conflict |
| A 1428 | C 994361 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 86 |
| Total formula weight | 3558054.9 | |
| Non-Polymers* | Number of molecules | 391 |
| Total formula weight | 10170.6 | |
| All* | Total formula weight | 3568225.5 |
