8K2B
Cryo-EM structure of the human 39S mitoribosome with Tigecycline
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) | 16s rRNA | polymer | 1559 | 500019.6 | 1 | Homo sapiens (human) | ||
| 2 | B (L2) | Val tRNA | polymer | 69 | 22022.1 | 1 | Homo sapiens (human) | ||
| 3 | C (LB) | Large ribosomal subunit protein uL2m | polymer | 305 | 33355.9 | 1 | UniProt (Q5T653) Pfam (PF00181) Pfam (PF03947) | Homo sapiens (human) | 39S ribosomal protein L2,mitochondrial,L2mt,MRP-L2 |
| 4 | D (LC) | Large ribosomal subunit protein uL3m | polymer | 348 | 38689.6 | 1 | UniProt (P09001) Pfam (PF00297) | Homo sapiens (human) | 39S ribosomal protein L3,mitochondrial,L3mt,MRP-L3 |
| 5 | E (LD) | Large ribosomal subunit protein uL4m | polymer | 311 | 34970.2 | 1 | UniProt (Q9BYD3) Pfam (PF00573) | Homo sapiens (human) | 39S ribosomal protein L4,mitochondrial,L4mt,MRP-L4 |
| 6 | F (LI) | Large ribosomal subunit protein bL9m | polymer | 267 | 30296.4 | 1 | UniProt (Q9BYD2) Pfam (PF01281) Pfam (PF22078) | Homo sapiens (human) | 39S ribosomal protein L9,mitochondrial,L9mt,MRP-L9 |
| 7 | G (LJ) | Large ribosomal subunit protein uL10m | polymer | 261 | 29322.5 | 1 | UniProt (Q7Z7H8) Pfam (PF00466) | Homo sapiens (human) | 39S ribosomal protein L10,mitochondrial,L10mt,MRP-L10,39S ribosomal protein L8,L8mt,MRP-L8 |
| 8 | H (LK) | Large ribosomal subunit protein uL11m | polymer | 192 | 20716.2 | 1 | UniProt (Q9Y3B7) Pfam (PF03946) Pfam (PF00298) | Homo sapiens (human) | 39S ribosomal protein L11,mitochondrial,L11mt,MRP-L11 |
| 9 | I (LM) | Large ribosomal subunit protein uL13m | polymer | 178 | 20723.0 | 1 | UniProt (Q9BYD1) Pfam (PF00572) | Homo sapiens (human) | 39S ribosomal protein L13,mitochondrial,L13mt,MRP-L13 |
| 10 | J (LN) | Large ribosomal subunit protein uL14m | polymer | 145 | 15973.7 | 1 | UniProt (Q6P1L8) Pfam (PF00238) | Homo sapiens (human) | 39S ribosomal protein L14,mitochondrial,L14mt,MRP-L14,39S ribosomal protein L32,L32mt,MRP-L32 |
| 11 | K (LO) | Large ribosomal subunit protein uL15m | polymer | 296 | 33473.8 | 1 | UniProt (Q9P015) Pfam (PF00828) | Homo sapiens (human) | 39S ribosomal protein L15,mitochondrial,L15mt,MRP-L15 |
| 12 | L (LP) | Large ribosomal subunit protein uL16m | polymer | 251 | 28496.3 | 1 | UniProt (Q9NX20) Pfam (PF00252) | Homo sapiens (human) | 39S ribosomal protein L16,mitochondrial,L16mt,MRP-L16 |
| 13 | M (LQ) | Large ribosomal subunit protein bL17m | polymer | 175 | 20083.3 | 1 | UniProt (Q9NRX2) Pfam (PF01196) | Homo sapiens (human) | 39S ribosomal protein L17,mitochondrial,L17mt,MRP-L17,LYST-interacting protein 2 |
| 14 | N (LR) | Mitochondrial ribosomal protein L18, isoform CRA_b | polymer | 179 | 20465.3 | 1 | UniProt (A8K9D2) Pfam (PF00861) UniProt (by SIFTS) (Q9H0U6) | Homo sapiens (human) | cDNA FLJ76688,highly similar to Homo sapiens HSPC071 mRNA |
| 15 | O (LS) | Large ribosomal subunit protein bL19m | polymer | 292 | 33585.0 | 1 | UniProt (P49406) Pfam (PF01245) | Homo sapiens (human) | 39S ribosomal protein L15,mitochondrial,L15mt,MRP-L15,39S ribosomal protein L19,L19mt,MRP-L19 |
| 16 | P (LT) | Large ribosomal subunit protein bL20m | polymer | 149 | 17479.7 | 1 | UniProt (Q9BYC9) Pfam (PF00453) | Homo sapiens (human) | 39S ribosomal protein L20,mitochondrial,L20mt,MRP-L20 |
| 17 | Q (LU) | Large ribosomal subunit protein bL21m | polymer | 205 | 22847.7 | 1 | UniProt (Q7Z2W9) Pfam (PF00829) | Homo sapiens (human) | 39S ribosomal protein L21,mitochondrial,L21mt,MRP-L21 |
| 18 | R (LV) | 39S ribosomal protein L22, mitochondrial | polymer | 212 | 24369.5 | 1 | UniProt (E7ESL0) Pfam (PF00237) UniProt (by SIFTS) (Q9NWU5) | Homo sapiens (human) | |
| 19 | S (LW) | Large ribosomal subunit protein uL23m | polymer | 153 | 17807.2 | 1 | UniProt (Q16540) Pfam (PF00276) | Homo sapiens (human) | 39S ribosomal protein L23,mitochondrial,L23mt,MRP-L23,L23 mitochondrial-related protein,Ribosomal protein L23-like |
| 20 | T (LX) | Large ribosomal subunit protein uL24m | polymer | 216 | 24953.9 | 1 | UniProt (Q96A35) Pfam (PF00467) Pfam (PF17136) | Homo sapiens (human) | 39S ribosomal protein L24,mitochondrial,L24mt,MRP-L24 |
| 21 | U (La) | Large ribosomal subunit protein bL27m | polymer | 148 | 16102.9 | 1 | UniProt (Q9P0M9) Pfam (PF01016) | Homo sapiens (human) | 39S ribosomal protein L27,mitochondrial,L27mt,MRP-L27 |
| 22 | V (Lb) | Large ribosomal subunit protein bL28m | polymer | 256 | 30202.9 | 1 | UniProt (Q13084) Pfam (PF00830) | Homo sapiens (human) | 39S ribosomal protein L28,mitochondrial,L28mt,MRP-L28,Melanoma antigen p15,Melanoma-associated antigen recognized by T-lymphocytes |
| 23 | W (Lu) | Large ribosomal subunit protein uL29m | polymer | 250 | 29508.5 | 1 | UniProt (Q9HD33) Pfam (PF06984) | Homo sapiens (human) | 39S ribosomal protein L47,mitochondrial,L47mt,MRP-L47,Nasopharyngeal carcinoma metastasis-related protein 1 |
| 24 | X (Ld) | Large ribosomal subunit protein uL30m | polymer | 161 | 18582.8 | 1 | UniProt (Q8TCC3) Pfam (PF00327) | Homo sapiens (human) | 39S ribosomal protein L28,mitochondrial,L28mt,MRP-L28,39S ribosomal protein L30,L30mt,MRP-L30 |
| 25 | Y (Lf) | Large ribosomal subunit protein bL32m | polymer | 188 | 21437.8 | 1 | UniProt (Q9BYC8) Pfam (PF01783) | Homo sapiens (human) | 39S ribosomal protein L32,mitochondrial,L32mt,MRP-L32 |
| 26 | Z (Lg) | Large ribosomal subunit protein bL33m | polymer | 65 | 7635.2 | 1 | UniProt (O75394) Pfam (PF00471) | Homo sapiens (human) | 39S ribosomal protein L33,mitochondrial,L33mt,MRP-L33 |
| 27 | AA (Lh) | Large ribosomal subunit protein bL34m | polymer | 92 | 10183.9 | 1 | UniProt (Q9BQ48) Pfam (PF00468) | Homo sapiens (human) | 39S ribosomal protein L34,mitochondrial,L34mt,MRP-L34 |
| 28 | BA (Li) | Large ribosomal subunit protein bL35m | polymer | 188 | 21558.5 | 1 | UniProt (Q9NZE8) Pfam (PF01632) | Homo sapiens (human) | 39S ribosomal protein L35,mitochondrial,L35mt,MRP-L35 |
| 29 | CA (Lj) | Large ribosomal subunit protein bL36m | polymer | 103 | 11809.3 | 1 | UniProt (Q9P0J6) Pfam (PF00444) | Homo sapiens (human) | 39S ribosomal protein L36,mitochondrial,L36mt,MRP-L36,BRCA1-interacting protein 1 |
| 30 | DA (Lk) | Large ribosomal subunit protein mL37 | polymer | 423 | 48183.3 | 1 | UniProt (Q9BZE1) Pfam (PF07147) | Homo sapiens (human) | 39S ribosomal protein L2,mitochondrial,L2mt,MRP-L2,39S ribosomal protein L37,L37mt,MRP-L37 |
| 31 | EA (Ll) | Large ribosomal subunit protein mL38 | polymer | 380 | 44659.4 | 1 | UniProt (Q96DV4) Pfam (PF01161) | Homo sapiens (human) | 39S ribosomal protein L38,mitochondrial,L38mt,MRP-L38 |
| 32 | FA (Lm) | Large ribosomal subunit protein mL39 | polymer | 338 | 38764.8 | 1 | UniProt (Q9NYK5) | Homo sapiens (human) | 39S ribosomal protein L39,mitochondrial,L39mt,MRP-L39,39S ribosomal protein L5,L5mt,MRP-L5 |
| 33 | GA (Ln) | Large ribosomal subunit protein mL40 | polymer | 206 | 24534.4 | 1 | UniProt (Q9NQ50) Pfam (PF09812) | Homo sapiens (human) | 39S ribosomal protein L40,mitochondrial,L40mt,MRP-L40,Nuclear localization signal-containing protein deleted in velocardiofacial syndrome,Up-regulated in metastasis |
| 34 | HA (Lo) | Large ribosomal subunit protein mL41 | polymer | 137 | 15404.7 | 1 | UniProt (Q8IXM3) Pfam (PF09809) | Homo sapiens (human) | 39S ribosomal protein L41,mitochondrial,L41mt,MRP-L41,Bcl-2-interacting mitochondrial ribosomal protein L41,Cell proliferation-inducing gene 3 protein,MRP-L27 homolog |
| 35 | IA (Lp) | Large ribosomal subunit protein mL42 | polymer | 142 | 16691.2 | 1 | UniProt (Q9Y6G3) Pfam (PF10210) | Homo sapiens (human) | 39S ribosomal protein L31,mitochondrial,L31mt,MRP-L31,39S ribosomal protein L42,L42mt,MRP-L42 |
| 36 | JA (Lq) | Large ribosomal subunit protein mL43 | polymer | 215 | 23457.8 | 1 | UniProt (Q8N983) Pfam (PF05047) | Homo sapiens (human) | 39S ribosomal protein L43,mitochondrial,L43mt,MRP-L43,Mitochondrial ribosomal protein bMRP36a |
| 37 | KA (Lr) | Large ribosomal subunit protein mL44 | polymer | 332 | 37583.3 | 1 | UniProt (Q9H9J2) Pfam (PF22935) Pfam (PF22892) | Homo sapiens (human) | 39S ribosomal protein L44,mitochondrial,L44mt,MRP-L44 |
| 38 | LA (Ls) | Large ribosomal subunit protein mL45 | polymer | 306 | 35402.9 | 1 | UniProt (Q9BRJ2) Pfam (PF04280) | Homo sapiens (human) | 39S ribosomal protein L45,mitochondrial,L45mt,MRP-L45 |
| 39 | MA (Lt) | Large ribosomal subunit protein mL46 | polymer | 279 | 31748.1 | 1 | UniProt (Q9H2W6) Pfam (PF11788) | Homo sapiens (human) | 39S ribosomal protein L46,mitochondrial,L46mt,MRP-L46,P2ECSL |
| 40 | NA (Lv) | Large ribosomal subunit protein mL48 | polymer | 212 | 23970.8 | 1 | UniProt (Q96GC5) Pfam (PF00338) | Homo sapiens (human) | 39S ribosomal protein L48,mitochondrial,L48mt,MRP-L48 |
| 41 | OA (Lw) | Large ribosomal subunit protein mL49 | polymer | 166 | 19225.0 | 1 | UniProt (Q13405) Pfam (PF05046) | Homo sapiens (human) | 39S ribosomal protein L49,mitochondrial,L49mt,MRP-L49,Neighbor of FAU,NOF,Protein NOF1 |
| 42 | PA (Lx) | Large ribosomal subunit protein mL50 | polymer | 158 | 18349.9 | 1 | UniProt (Q8N5N7) Pfam (PF10501) | Homo sapiens (human) | 39S ribosomal protein L50,mitochondrial,L50mt,MRP-L50 |
| 43 | QA (Ly) | Large ribosomal subunit protein mL51 | polymer | 128 | 15125.9 | 1 | UniProt (Q4U2R6) Pfam (PF10244) | Homo sapiens (human) | 39S ribosomal protein L51,mitochondrial,L51mt,MRP-L51,bMRP-64,bMRP64 |
| 44 | RA (Lz) | 39S ribosomal protein L52, mitochondrial | polymer | 123 | 13696.7 | 1 | UniProt (A8K7J6) Pfam (PF18699) | Homo sapiens (human) | |
| 45 | SA (L3) | Large ribosomal subunit protein mL53 | polymer | 112 | 12125.9 | 1 | UniProt (Q96EL3) Pfam (PF10780) | Homo sapiens (human) | 39S ribosomal protein L53,mitochondrial,L53mt,MRP-L53 |
| 46 | TA (L4) | Large ribosomal subunit protein mL54 | polymer | 138 | 15844.2 | 1 | UniProt (Q6P161) Pfam (PF08561) | Homo sapiens (human) | 39S ribosomal protein L54,mitochondrial,L54mt,MRP-L54 |
| 47 | UA (L5) | Large ribosomal subunit protein mL55 | polymer | 128 | 15160.4 | 1 | UniProt (Q7Z7F7) Pfam (PF09776) | Homo sapiens (human) | 39S ribosomal protein L55,mitochondrial,L55mt,MRP-L55,Mitochondrial large ribosomal subunit protein bL31m |
| 48 | VA (L6) | Large ribosomal subunit protein mL63 | polymer | 102 | 12292.3 | 1 | UniProt (Q9BQC6) Pfam (PF14978) | Homo sapiens (human) | Mitochondrial ribosomal protein 63,Mitochondrial ribosomal protein L57,Ribosomal protein 63,mitochondrial,hMRP63 |
| 49 | WA (L7) | Large ribosomal subunit protein mL62 | polymer | 206 | 23674.2 | 1 | UniProt (Q14197) Pfam (PF00472) | Homo sapiens (human) | 39S ribosomal protein L58,mitochondrial,MRP-L58,Digestion substraction 1,DS-1,Immature colon carcinoma transcript 1 protein,Peptidyl-tRNA hydrolase ICT1 |
| 50 | XA (L8) | Large ribosomal subunit protein mL64 | polymer | 222 | 25426.9 | 1 | UniProt (Q8TAE8) Pfam (PF10147) | Homo sapiens (human) | 39S ribosomal protein L59,mitochondrial,MRP-L59,CKII beta-associating protein,CR6-interacting factor 1,CRIF1,Growth arrest and DNA damage-inducible proteins-interacting protein 1,Papillomavirus L2-interacting nuclear protein 1,PLINP,PLINP-1,p53-responsive gene 6 protein |
| 51 | YA (SR) | Large ribosomal subunit protein mL66 | polymer | 196 | 22224.1 | 1 | UniProt (Q9NVS2) Pfam (PF01084) | Homo sapiens (human) | 39S ribosomal protein S18-3,mitochondrial,MRP-S18-3,39S ribosomal protein S18a,MRP-S18-a,Mrps18a,S18mt-a,Large ribosomal subunit protein bS18a |
| 52 | ZA (Sf) | Large ribosomal subunit protein mL65 | polymer | 439 | 50429.6 | 1 | UniProt (Q9NP92) Pfam (PF07147) | Homo sapiens (human) | 39S ribosomal protein S30,mitochondrial,MRP-S30,S30mt,Large ribosomal subunit protein mS30,Programmed cell death protein 9 |
| 53 | AB (u) | Mitochondrial assembly of ribosomal large subunit protein 1 | polymer | 234 | 26203.1 | 1 | UniProt (Q96EH3) Pfam (PF02410) | Homo sapiens (human) | |
| 54 | BB (v) | Mitochondrial ribosome and complex I assembly factor AltMIEF1 | polymer | 70 | 8460.8 | 1 | UniProt (L0R8F8) Pfam (PF05347) | Homo sapiens (human) | Alternative MIEF1 protein,AltMIEF1,MIEF1 microprotein,MIEF1-MP,alternative transcript upstream of MiD51,AltMiD51 |
| 55 | CB (w) | Acyl carrier protein, mitochondrial | polymer | 156 | 17434.3 | 1 | UniProt (O14561) Pfam (PF00550) | Homo sapiens (human) | ACP,CI-SDAP,NADH-ubiquinone oxidoreductase 9.6 kDa subunit |
| 56 | AC, AD, AE, BC, BD... (L1, LB, Lw) | MAGNESIUM ION | non-polymer | 24.3 | 95 | Chemie (MG) | |||
| 57 | QE (L1) | TIGECYCLINE | non-polymer | 587.7 | 1 | Chemie (T1C) | |||
| 58 | UE, VE, XE (Lf, Lj, SR) | ZINC ION | non-polymer | 65.4 | 3 | Chemie (ZN) | |||
| 59 | YE (v) | 4'-PHOSPHOPANTETHEINE | non-polymer | 358.3 | 1 | Chemie (PNS) |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 55 |
| Total formula weight | 1792746.7 | |
| Non-Polymers* | Number of molecules | 100 |
| Total formula weight | 3451.2 | |
| All* | Total formula weight | 1796197.9 |
