9FXO
CRYO-EM STRUCTURE OF LEISHMANIA MAJOR 80S RIBOSOME WITH A/P/E-SITE TRNA AND MRNA : LM32CS1C1 M2 OE MUTANT
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 (L1) | LSUa_rRNA_chain_1 | polymer | 1782 | 577129.8 | 1 | Leishmania major strain Friedlin | ||
| 2 | B (L2) | LSUb_rRNA_chain_2 | polymer | 1526 | 492571.9 | 1 | Leishmania major strain Friedlin | ||
| 3 | C (L3) | SR1_chain_3 | polymer | 216 | 69146.6 | 1 | GenBank (321438308) | Leishmania major strain Friedlin | |
| 4 | D (L4) | SR2_chain_4 | polymer | 184 | 59466.3 | 1 | Leishmania major strain Friedlin | ||
| 5 | E (L5) | SR4_chain_5 | polymer | 135 | 43503.8 | 1 | Leishmania major strain Friedlin | ||
| 6 | F (L6) | SR6_chain_6 | polymer | 73 | 23336.9 | 1 | GenBank (321438308) | Leishmania major strain Friedlin | |
| 7 | G (L7) | 5.8S_rRNA_chain_7 | polymer | 171 | 54989.6 | 1 | Leishmania major strain Friedlin | ||
| 8 | H (L8) | 5S_rRNA_chain_8 | polymer | 124 | 39756.6 | 1 | Leishmania major strain Friedlin | ||
| 9 | I (LA) | Putative 60S ribosomal protein L2 | polymer | 260 | 28331.9 | 1 | UniProt (Q4FWX5) Pfam (PF00181) Pfam (PF03947) | Leishmania major strain Friedlin | |
| 10 | J (LB) | Putative ribosomal protein L3 | polymer | 419 | 47593.7 | 1 | UniProt (Q4Q2Q6) Pfam (PF00297) | Leishmania major strain Friedlin | |
| 11 | K (LC) | Putative ribosomal protein L1a | polymer | 373 | 41096.9 | 1 | UniProt (E9ADW5) Pfam (PF00573) Pfam (PF14374) | Leishmania major strain Friedlin | |
| 12 | L (LD) | 60S ribosomal protein L11 | polymer | 188 | 21694.5 | 1 | UniProt (P48157) Pfam (PF00281) Pfam (PF00673) | Leishmania major strain Friedlin | |
| 13 | M (LE) | Putative 60S ribosomal protein L9 | polymer | 190 | 21594.3 | 1 | UniProt (Q4QC91) Pfam (PF00347) | Leishmania major strain Friedlin | |
| 14 | N (LF) | Putative 60S ribosomal protein L6 | polymer | 195 | 21126.7 | 1 | UniProt (Q4Q4D3) Pfam (PF01159) | Leishmania major strain Friedlin | |
| 15 | O (LG) | 60S ribosomal protein L7a | polymer | 264 | 29824.2 | 1 | UniProt (Q4QIP1) Pfam (PF01248) | Leishmania major strain Friedlin | |
| 16 | P (LH) | Putative 60S ribosomal protein L13a | polymer | 222 | 25509.2 | 1 | UniProt (Q4QFG2) Pfam (PF00572) | Leishmania major strain Friedlin | |
| 17 | Q (LI) | Putative 60S ribosomal protein L13 | polymer | 220 | 24849.0 | 1 | UniProt (E9AEA8) Pfam (PF01294) | Leishmania major strain Friedlin | |
| 18 | R (LJ) | Putative 60S ribosomal protein L23 | polymer | 139 | 14982.6 | 1 | UniProt (E9AFK3) Pfam (PF00238) | Leishmania major strain Friedlin | |
| 19 | S (LK) | Putative 40S ribosomal protein L14 | polymer | 175 | 19948.6 | 1 | UniProt (Q4QBJ1) Pfam (PF00467) Pfam (PF01929) | Leishmania major strain Friedlin | |
| 20 | T (LL) | Putative 60S ribosomal protein L27A/L29 | polymer | 145 | 16135.9 | 1 | UniProt (E9AFK0) Pfam (PF00828) | Leishmania major strain Friedlin | |
| 21 | U (LM) | Ribosomal protein L15 | polymer | 204 | 24498.0 | 1 | UniProt (Q4Q6S3) Pfam (PF00827) | Leishmania major strain Friedlin | |
| 22 | V (LN) | Putative 60S ribosomal protein L10 | polymer | 213 | 24607.2 | 1 | UniProt (O97213) Pfam (PF00252) | Leishmania major strain Friedlin | |
| 23 | W (LO) | Putative 60S ribosomal protein L5 | polymer | 305 | 34058.6 | 1 | UniProt (E9AF09) Pfam (PF17144) Pfam (PF14204) UniProt (by SIFTS) (E9AF10) | Leishmania major strain Friedlin | |
| 24 | X (LP) | 60S ribosomal protein L18 | polymer | 198 | 22071.1 | 1 | UniProt (Q4QG98) Pfam (PF17135) | Leishmania major strain Friedlin | |
| 25 | Y (LQ) | Putative 60S ribosomal protein L19 | polymer | 254 | 28896.1 | 1 | UniProt (Q4QJ37) Pfam (PF01280) Pfam (PF25476) | Leishmania major strain Friedlin | |
| 26 | Z (LR) | 60S ribosomal protein L18a | polymer | 179 | 20852.3 | 1 | UniProt (Q4Q5J4) Pfam (PF01775) | Leishmania major strain Friedlin | |
| 27 | AA (LS) | Putative 60S ribosomal protein L21 | polymer | 159 | 18068.2 | 1 | UniProt (Q4QEX4) Pfam (PF01157) | Leishmania major strain Friedlin | |
| 28 | BA (LT) | Putative 60S ribosomal protein L17 | polymer | 166 | 19124.5 | 1 | UniProt (Q4QAX6) Pfam (PF00237) | Leishmania major strain Friedlin | |
| 29 | CA (LU) | Putative 60S ribosomal protein L22 | polymer | 129 | 15030.5 | 1 | UniProt (Q4Q0X2) Pfam (PF01776) | Leishmania major strain Friedlin | |
| 30 | DA (LV) | Putative 60S ribosomal protein L23a | polymer | 145 | 16372.4 | 1 | UniProt (Q4QJ20) Pfam (PF00276) | Leishmania major strain Friedlin | |
| 31 | EA (LW) | Putative 60S ribosomal protein L26 | polymer | 143 | 16217.1 | 1 | UniProt (Q4QAC5) Pfam (PF16906) Pfam (PF00467) | Leishmania major strain Friedlin | |
| 32 | FA (LX) | Putative ribosomal protein L24 | polymer | 124 | 14608.2 | 1 | UniProt (Q4Q1W6) Pfam (PF01246) | Leishmania major strain Friedlin | |
| 33 | GA (LY) | 60S ribosomal protein L27 | polymer | 134 | 15469.3 | 1 | UniProt (Q4Q504) Pfam (PF00467) Pfam (PF01777) | Leishmania major strain Friedlin | |
| 34 | HA (LZ) | Putative 60S ribosomal protein L28 | polymer | 147 | 16314.9 | 1 | UniProt (Q4QGW7) Pfam (PF01778) | Leishmania major strain Friedlin | |
| 35 | IA (La) | Putative 60S ribosomal protein L35 | polymer | 127 | 15262.2 | 1 | UniProt (Q4Q8V7) Pfam (PF00831) | Leishmania major strain Friedlin | |
| 36 | JA (Lb) | 60S ribosomal protein L29 | polymer | 70 | 8001.3 | 1 | UniProt (Q4Q178) Pfam (PF01779) | Leishmania major strain Friedlin | |
| 37 | KA (Lc) | Putative 60S ribosomal protein L7 | polymer | 252 | 28900.0 | 1 | UniProt (Q4Q9H4) Pfam (PF08079) Pfam (PF00327) | Leishmania major strain Friedlin | |
| 38 | LA (Ld) | 60S ribosomal protein L30 | polymer | 104 | 11370.2 | 1 | UniProt (E9AEK1) Pfam (PF01248) | Leishmania major strain Friedlin | |
| 39 | MA (Le) | Putative 60S ribosomal subunit protein L31 | polymer | 188 | 21316.3 | 1 | UniProt (E9AFF2) Pfam (PF01198) | Leishmania major strain Friedlin | |
| 40 | NA (Lf) | 60S ribosomal protein L32 | polymer | 133 | 15458.2 | 1 | UniProt (Q4QC11) Pfam (PF01655) | Leishmania major strain Friedlin | |
| 41 | OA (Lg) | Putative ribosomal protein l35a | polymer | 144 | 16492.3 | 1 | UniProt (Q4QHL3) Pfam (PF01247) | Leishmania major strain Friedlin | |
| 42 | PA (Lh) | Putative 60S ribosomal protein L34 | polymer | 168 | 19335.1 | 1 | UniProt (Q4QDP9) Pfam (PF01199) | Leishmania major strain Friedlin | |
| 43 | QA (Li) | Putative 60S Ribosomal protein L36 | polymer | 105 | 11975.2 | 1 | UniProt (Q4QCE1) Pfam (PF01158) | Leishmania major strain Friedlin | |
| 44 | RA (Lj) | Ribosomal protein L37 | polymer | 83 | 9862.6 | 1 | UniProt (E9AEH2) Pfam (PF01907) | Leishmania major strain Friedlin | |
| 45 | SA (Lk) | Putative ribosomal protein L38 | polymer | 83 | 9479.3 | 1 | UniProt (Q4Q8X0) Pfam (PF01781) | Leishmania major strain Friedlin | |
| 46 | TA (Ll) | Putative 60S ribosomal protein L39 | polymer | 51 | 6504.8 | 1 | UniProt (Q4QEQ0) Pfam (PF00832) | Leishmania major strain Friedlin | |
| 47 | UA (Lm) | Ubiquitin-60S ribosomal protein L40 | polymer | 128 | 14711.4 | 1 | UniProt (P69201) Pfam (PF00240) Pfam (PF01020) | Leishmania major strain Friedlin | |
| 48 | VA (Ln) | Ribosomal protein L41 | polymer | 34 | 4390.5 | 1 | Pfam (PF05162) UniProt (by SIFTS) (A0A0M9FZM0) | Leishmania major strain Friedlin | |
| 49 | WA (Lo) | 60S ribosomal protein L37a | polymer | 92 | 10337.2 | 1 | UniProt (Q4QC01) Pfam (PF01780) | Leishmania major strain Friedlin | Putative 60S ribosomal protein L37a |
| 50 | XA (Lp) | Putative 60S ribosomal protein L44 | polymer | 106 | 12302.7 | 1 | UniProt (Q4Q3L3) Pfam (PF00935) | Leishmania major strain Friedlin | |
| 51 | YA (S1) | SSU_rRNA_chain_S1 | polymer | 2204 | 710765.9 | 1 | Leishmania major strain Friedlin | ||
| 52 | BB, ZA (S2, S4) | tRNA | polymer | 76 | 24599.7 | 2 | Leishmania major strain Friedlin | ||
| 53 | AB (S3) | tRNA | polymer | 77 | 24786.8 | 1 | Leishmania major strain Friedlin | ||
| 54 | CB (SA) | 40S ribosomal protein S3a | polymer | 264 | 30062.0 | 1 | UniProt (Q4FX73) Pfam (PF01015) | Leishmania major strain Friedlin | LmS3a-related protein,LmS3arp |
| 55 | DB (SB) | 40S ribosomal protein SA | polymer | 246 | 27536.6 | 1 | UniProt (Q4Q0Q0) Pfam (PF00318) | Leishmania major strain Friedlin | |
| 56 | EB (SC) | Putative 40S ribosomal protein S3 | polymer | 219 | 24511.8 | 1 | UniProt (Q4Q4A0) Pfam (PF07650) Pfam (PF00189) | Leishmania major strain Friedlin | |
| 57 | FB (SD) | Putative 40S ribosomal protein S9 | polymer | 190 | 22188.9 | 1 | UniProt (Q4QIM3) Pfam (PF00163) Pfam (PF01479) | Leishmania major strain Friedlin | |
| 58 | GB (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 | |
| 59 | HB (SF) | 40S ribosomal protein S2 | polymer | 265 | 28791.1 | 1 | UniProt (Q4QDL5) Pfam (PF00333) Pfam (PF03719) | Leishmania major strain Friedlin | |
| 60 | IB (SG) | 40S ribosomal protein S6 | polymer | 249 | 28370.2 | 1 | UniProt (Q9NE83) Pfam (PF01092) | Leishmania major strain Friedlin | |
| 61 | JB (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 |
| 62 | KB (SI) | 40S ribosomal protein S7 | polymer | 200 | 23765.2 | 1 | UniProt (E9AC32) Pfam (PF01251) | Leishmania major strain Friedlin | |
| 63 | LB (SJ) | Putative 40S ribosomal protein S15A | polymer | 130 | 14719.3 | 1 | UniProt (Q4QGW3) Pfam (PF00410) | Leishmania major strain Friedlin | |
| 64 | MB (SK) | 40S ribosomal protein S8 | polymer | 220 | 24984.3 | 1 | UniProt (P25204) Pfam (PF01201) | Leishmania major strain Friedlin | |
| 65 | NB (SL) | Putative 40S ribosomal protein S16 | polymer | 149 | 16718.6 | 1 | UniProt (Q4Q9A5) Pfam (PF00380) | Leishmania major strain Friedlin | Ribosomal protein S16 |
| 66 | OB (SM) | Putative ribosomal protein S20 | polymer | 116 | 13032.0 | 1 | UniProt (Q4Q8G4) Pfam (PF00338) | Leishmania major strain Friedlin | |
| 67 | PB (SN) | Putative 40S ribosomal protein S10 | polymer | 168 | 18681.1 | 1 | UniProt (Q4Q1X7) Pfam (PF03501) | Leishmania major strain Friedlin | |
| 68 | QB (SO) | 40S ribosomal protein S14 | polymer | 144 | 15623.2 | 1 | UniProt (Q4Q8H1) Pfam (PF00411) | Leishmania major strain Friedlin | |
| 69 | RB (SP) | Putative 40S ribosomal protein S23 | polymer | 143 | 15969.6 | 1 | UniProt (Q4QC89) Pfam (PF00164) | Leishmania major strain Friedlin | |
| 70 | SB (SQ) | 40S ribosomal protein S12 | polymer | 141 | 15627.8 | 1 | UniProt (Q4QG97) Pfam (PF01248) | Leishmania major strain Friedlin | |
| 71 | TB (SR) | Putative 40S ribosomal protein S18 | polymer | 153 | 17433.4 | 1 | UniProt (Q4Q1Y3) Pfam (PF00416) | Leishmania major strain Friedlin | Ribosomal protein S18 |
| 72 | UB (SS) | Putative ribosomal protein S29 | polymer | 57 | 6696.9 | 1 | UniProt (Q4Q817) Pfam (PF00253) | Leishmania major strain Friedlin | |
| 73 | VB (ST) | Putative 40S ribosomal protein S13 | polymer | 151 | 17482.8 | 1 | UniProt (Q4Q3M1) Pfam (PF08069) Pfam (PF00312) | Leishmania major strain Friedlin | |
| 74 | WB (SU) | Putative 40S ribosomal protein S11 | polymer | 173 | 20023.5 | 1 | Leishmania major strain Friedlin | ||
| 75 | XB (SV) | Putative 40S ribosomal protein S17 | polymer | 143 | 16551.5 | 1 | UniProt (Q4Q806) Pfam (PF00833) | Leishmania major strain Friedlin | |
| 76 | YB (SW) | Putative 40S ribosomal protein S15 | polymer | 152 | 17472.4 | 1 | UniProt (Q4QBV0) Pfam (PF00203) | Leishmania major strain Friedlin | |
| 77 | ZB (SX) | 40S ribosomal protein S19-like protein | polymer | 161 | 18158.1 | 1 | UniProt (E9AEE8) Pfam (PF01090) | Leishmania major strain Friedlin | |
| 78 | AC (SY) | Putative 40S ribosomal protein S21 | polymer | 164 | 17035.6 | 1 | UniProt (Q4QH01) Pfam (PF01249) | Leishmania major strain Friedlin | |
| 79 | BC (SZ) | 40S ribosomal protein S24 | polymer | 137 | 15808.9 | 1 | UniProt (Q4Q1D2) Pfam (PF01282) | Leishmania major strain Friedlin | |
| 80 | CC (Sa) | 40S ribosomal protein S25 | polymer | 120 | 13071.4 | 1 | UniProt (Q4Q9X4) Pfam (PF03297) | Leishmania major strain Friedlin | |
| 81 | DC (Sb) | 40S ribosomal protein S26 | polymer | 112 | 12794.3 | 1 | UniProt (Q4Q8L6) Pfam (PF01283) | Leishmania major strain Friedlin | |
| 82 | EC (Sc) | Putative 40S ribosomal protein S27-1 | polymer | 86 | 9819.5 | 1 | UniProt (Q4Q140) Pfam (PF01667) | Leishmania major strain Friedlin | |
| 83 | FC (Sd) | Putative 40S ribosomal protein S33 | polymer | 87 | 9763.2 | 1 | UniProt (Q4Q931) Pfam (PF01200) | Leishmania major strain Friedlin | |
| 84 | GC (Se) | 40S ribosomal protein S30 | polymer | 66 | 7394.9 | 1 | UniProt (Q4Q7P0) Pfam (PF04758) | Leishmania major strain Friedlin | |
| 85 | HC (Sf) | Ubiquitin-60S ribosomal protein L40 | polymer | 152 | 17062.8 | 1 | UniProt (Q4QFK7) Pfam (PF00240) Pfam (PF01599) | Leishmania major strain Friedlin | |
| 86 | IC (Sg) | Guanine nucleotide-binding protein subunit beta-like protein | polymer | 312 | 34441.5 | 1 | UniProt (Q4Q7Y7) Pfam (PF00400) | Leishmania major strain Friedlin | |
| 87 | JC (Sh) | Putative RNA binding protein | polymer | 235 | 25229.3 | 1 | UniProt (Q4Q5K7) Pfam (PF00076) | Leishmania major strain Friedlin | |
| 88 | KC (S5) | mRNA | polymer | 13 | 4085.5 | 1 | Leishmania major strain Friedlin | ||
| 89 | AR, BR, HJ, IJ, JQ... (S1, L2, LM, L1) | SPERMIDINE | non-polymer | 145.2 | 21 | Chemie (SPD) PubChem (1102) | |||
| 90 | AD, AE, AF, AG, AH... (L1, L2, L8, S1, LA...) | MAGNESIUM ION | non-polymer | 24.3 | 372 | Chemie (MG) PubChem (888) | |||
| 91 | AI, AN, BI, BN, CI... (L1, L2, S1, L3, LN...) | SODIUM ION | non-polymer | 23.0 | 48 | Chemie (NA) PubChem (923) | |||
| 92 | AP, AW, BP, BW, CP... (L4, S1, LB, LC, L1...) | POTASSIUM ION | non-polymer | 39.1 | 65 | Chemie (K) PubChem (813) | |||
| 93 | AJ, AO, BJ, BO, CJ... (L1, L2, L4, L5, S1) | 1,4-DIAMINOBUTANE | non-polymer | 88.2 | 16 | Chemie (PUT) PubChem (1045) | |||
| 94 | EO, FO, GJ, OW, PW... (L2, L1, S1, L7) | PAROMOMYCIN | non-polymer | 615.6 | 6 | Chemie (PAR) PubChem (16757804) PubChem (16760604) PubChem (17757254) PubChem (20849281) PubChem (71191297) PubChem (23789070) PubChem (24096964) PubChem (24867526) PubChem (24867858) PubChem (25104843) PubChem (44120093) PubChem (44251565) PubChem (53486370) PubChem (58160567) PubChem (59361026) PubChem (59800245) PubChem (70793652) PubChem (70793824) PubChem (70795918) PubChem (71068776) PubChem (71072581) PubChem (71072592) PubChem (91151908) PubChem (94469269) PubChem (94469270) PubChem (94469271) PubChem (98048758) PubChem (98048760) PubChem (101739930) PubChem (118213779) PubChem (118705495) PubChem (122691713) PubChem (124226132) PubChem (124226133) PubChem (124226134) PubChem (124464538) PubChem (124761786) PubChem (124761787) PubChem (124761788) PubChem (124761789) PubChem (125040358) PubChem (125040360) PubChem (125121198) PubChem (129014632) PubChem (129014634) PubChem (129014635) PubChem (129313238) PubChem (134771120) PubChem (137404838) PubChem (161153506) PubChem (163199098) PubChem (164850471) PubChem (172091638) PubChem (173719997) PubChem (71188564) PubChem (44186758) PubChem (44663324) PubChem (45358711) PubChem (50989619) PubChem (66932615) PubChem (68032118) PubChem (4689) PubChem (14951) PubChem (24176) PubChem (70878598) PubChem (71751432) PubChem (73707499) PubChem (3040200) PubChem (91867972) PubChem (91972181) PubChem (94469268) PubChem (98048759) PubChem (98048761) PubChem (5702262) PubChem (121292209) PubChem (6603975) PubChem (6604293) PubChem (122537356) PubChem (6710686) PubChem (124226135) PubChem (124464537) PubChem (9809147) PubChem (125040357) PubChem (125040359) PubChem (125121197) PubChem (129009945) PubChem (131841783) PubChem (132275078) PubChem (12313981) PubChem (152952600) PubChem (162873319) PubChem (165580) PubChem (6602492) PubChem (6713982) PubChem (9961808) | |||
| 95 | IQ, UW, VQ, XQ, YQ... (LK, SS, Lj, Lm, Lo...) | ZINC ION | non-polymer | 65.4 | 7 | Chemie (ZN) | |||
| 96 | AX, AY, AZ, BX, BY... (L1, LY, Sc, L2, La...) | water | water | 18.0 | 2724 | Chemie (HOH) |
Sequence modifications
LI: 1 - 220 (UniProt: E9AEA8)
| PDB | External Database | Details |
|---|---|---|
| Arg 203 | Asn 203 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 89 |
| Total formula weight | 3612214.8 | |
| Non-Polymers* | Number of molecules | 535 |
| Total formula weight | 21298.6 | |
| All* | Total formula weight | 3633513.4 |
