5OOM
Structure of a native assembly intermediate of the human mitochondrial ribosome with unfolded interfacial rRNA
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (A) | 16S ribosomal RNA | polymer | 1559 | 500019.6 | 1 | GenBank (1025814679) | Homo sapiens (Human) | |
| 2 | B (B) | mitochondrial tRNAVal | polymer | 69 | 22022.1 | 1 | GenBank (1215733170) | Homo sapiens (Human) | |
| 3 | C (D) | 39S ribosomal protein L2, mitochondrial | polymer | 305 | 33355.9 | 1 | UniProt (Q5T653) Pfam (PF03947) Pfam (PF00181) | Homo sapiens (Human) | MRP-L2,Mitochondrial large ribosomal subunit protein uL2m |
| 4 | D (E) | 39S ribosomal protein L3, mitochondrial | polymer | 348 | 38689.6 | 1 | UniProt (P09001) Pfam (PF00297) | Homo sapiens (Human) | MRP-L3,Mitochondrial large ribosomal subunit protein uL3m |
| 5 | E (F) | 39S ribosomal protein L4, mitochondrial | polymer | 311 | 34970.2 | 1 | UniProt (Q9BYD3) Pfam (PF00573) | Homo sapiens (Human) | MRP-L4,Mitochondrial large ribosomal subunit protein uL4m |
| 6 | F (H) | 39S ribosomal protein L9, mitochondrial | polymer | 267 | 30296.4 | 1 | UniProt (Q9BYD2) Pfam (PF01281) Pfam (PF22078) | Homo sapiens (Human) | MRP-L9,Mitochondrial large ribosomal subunit protein bL9m |
| 7 | G (I) | 39S ribosomal protein L10, mitochondrial | polymer | 261 | 29322.5 | 1 | UniProt (Q7Z7H8) Pfam (PF00466) | Homo sapiens (Human) | MRP-L10,39S ribosomal protein L8,mitochondrial,MRP-L8,Mitochondrial large ribosomal subunit protein uL10m |
| 8 | H (J) | 39S ribosomal protein L11, mitochondrial | polymer | 192 | 20716.2 | 1 | UniProt (Q9Y3B7) Pfam (PF03946) Pfam (PF00298) | Homo sapiens (Human) | MRP-L11,Mitochondrial large ribosomal subunit protein uL11m |
| 9 | I (K) | 39S ribosomal protein L13, mitochondrial | polymer | 178 | 20723.0 | 1 | UniProt (Q9BYD1) Pfam (PF00572) | Homo sapiens (Human) | MRP-L13,Mitochondrial large ribosomal subunit protein uL13m |
| 10 | J (L) | 39S ribosomal protein L14, mitochondrial | polymer | 145 | 15973.7 | 1 | UniProt (Q6P1L8) Pfam (PF00238) | Homo sapiens (Human) | MRP-L14,39S ribosomal protein L32,mitochondrial,MRP-L32,Mitochondrial large ribosomal subunit protein uL14m |
| 11 | K (M) | 39S ribosomal protein L15, mitochondrial | polymer | 296 | 33473.8 | 1 | UniProt (Q9P015) Pfam (PF00828) | Homo sapiens (Human) | MRP-L15,Mitochondrial large ribosomal subunit protein uL15m |
| 12 | L (N) | 39S ribosomal protein L16, mitochondrial | polymer | 251 | 28496.3 | 1 | UniProt (Q9NX20) Pfam (PF00252) | Homo sapiens (Human) | MRP-L16,Mitochondrial large ribosomal subunit protein uL16m |
| 13 | M (O) | 39S ribosomal protein L17, mitochondrial | polymer | 175 | 20083.3 | 1 | UniProt (Q9NRX2) Pfam (PF01196) | Homo sapiens (Human) | MRP-L17,LYST-interacting protein 2,Mitochondrial large ribosomal subunit protein bL17m |
| 14 | N (P) | 39S ribosomal protein L18, mitochondrial | polymer | 180 | 20607.6 | 1 | UniProt (Q9H0U6) Pfam (PF00861) | Homo sapiens (Human) | MRP-L18,Mitochondrial large ribosomal subunit protein uL18m |
| 15 | O (Q) | 39S ribosomal protein L19, mitochondrial | polymer | 292 | 33585.0 | 1 | UniProt (P49406) Pfam (PF01245) | Homo sapiens (Human) | MRP-L19,39S ribosomal protein L15,mitochondrial,MRP-L15,Mitochondrial large ribosomal subunit protein bL19m |
| 16 | P (R) | 39S ribosomal protein L20, mitochondrial | polymer | 149 | 17479.7 | 1 | UniProt (Q9BYC9) Pfam (PF00453) | Homo sapiens (Human) | MRP-L20,Mitochondrial large ribosomal subunit protein bL20m |
| 17 | Q (S) | 39S ribosomal protein L21, mitochondrial | polymer | 205 | 22847.7 | 1 | UniProt (Q7Z2W9) Pfam (PF00829) | Homo sapiens (Human) | MRP-L21,Mitochondrial large ribosomal subunit protein bL21m |
| 18 | R (T) | 39S ribosomal protein L22, mitochondrial | polymer | 206 | 23683.7 | 1 | UniProt (Q9NWU5) Pfam (PF00237) | Homo sapiens (Human) | MRP-L22,39S ribosomal protein L25,mitochondrial,MRP-L25,Mitochondrial large ribosomal subunit protein uL22m |
| 19 | S (U) | 39S ribosomal protein L23, mitochondrial | polymer | 153 | 17807.2 | 1 | UniProt (Q16540) Pfam (PF00276) | Homo sapiens (Human) | MRP-L23,L23 mitochondrial-related protein,Mitochondrial large ribosomal subunit protein uL23m,Ribosomal protein L23-like |
| 20 | T (V) | 39S ribosomal protein L24, mitochondrial | polymer | 216 | 24953.9 | 1 | UniProt (Q96A35) Pfam (PF00467) Pfam (PF17136) | Homo sapiens (Human) | MRP-L24,Mitochondrial large ribosomal subunit protein uL24m |
| 21 | U (W) | 39S ribosomal protein L27, mitochondrial | polymer | 148 | 16102.9 | 1 | UniProt (Q9P0M9) Pfam (PF01016) | Homo sapiens (Human) | MRP-L27,Mitochondrial large ribosomal subunit protein bL27m |
| 22 | V (X) | 39S ribosomal protein L28, mitochondrial | polymer | 256 | 30202.9 | 1 | UniProt (Q13084) Pfam (PF00830) | Homo sapiens (Human) | MRP-L28,Melanoma antigen p15,Melanoma-associated antigen recognized by T-lymphocytes,Mitochondrial large ribosomal subunit protein bL28m |
| 23 | W (Y) | 39S ribosomal protein L47, mitochondrial | polymer | 250 | 29508.5 | 1 | UniProt (Q9HD33) Pfam (PF06984) | Homo sapiens (Human) | MRP-L47,Mitochondrial large ribosomal subunit protein uL29m,Nasopharyngeal carcinoma metastasis-related protein 1 |
| 24 | X (Z) | 39S ribosomal protein L30, mitochondrial | polymer | 161 | 18582.8 | 1 | UniProt (Q8TCC3) Pfam (PF00327) | Homo sapiens (Human) | MRP-L30,39S ribosomal protein L28,mitochondrial,MRP-L28,Mitochondrial large ribosomal subunit protein uL30m |
| 25 | Y (0) | 39S ribosomal protein L32, mitochondrial | polymer | 188 | 21437.8 | 1 | UniProt (Q9BYC8) Pfam (PF01783) | Homo sapiens (Human) | MRP-L32,Mitochondrial large ribosomal subunit protein bL32m |
| 26 | Z (1) | 39S ribosomal protein L33, mitochondrial | polymer | 65 | 7635.2 | 1 | UniProt (O75394) Pfam (PF00471) | Homo sapiens (Human) | MRP-L33,Mitochondrial large ribosomal subunit protein bL33m |
| 27 | AA (2) | 39S ribosomal protein L34, mitochondrial | polymer | 92 | 10183.9 | 1 | UniProt (Q9BQ48) Pfam (PF00468) | Homo sapiens (Human) | MRP-L34,Mitochondrial large ribosomal subunit protein bL34m |
| 28 | BA (3) | 39S ribosomal protein L35, mitochondrial | polymer | 188 | 21558.5 | 1 | UniProt (Q9NZE8) Pfam (PF01632) | Homo sapiens (Human) | MRP-L35,Mitochondrial large ribosomal subunit protein bL35m |
| 29 | CA (5) | 39S ribosomal protein L37, mitochondrial | polymer | 423 | 48183.3 | 1 | UniProt (Q9BZE1) Pfam (PF07147) | Homo sapiens (Human) | MRP-L37,39S ribosomal protein L2,mitochondrial,MRP-L2,Mitochondrial large ribosomal subunit protein mL37 |
| 30 | DA (6) | 39S ribosomal protein L38, mitochondrial | polymer | 380 | 44659.4 | 1 | UniProt (Q96DV4) Pfam (PF01161) | Homo sapiens (Human) | MRP-L38,Mitochondrial large ribosomal subunit protein mL38 |
| 31 | EA (7) | 39S ribosomal protein L39, mitochondrial | polymer | 338 | 38764.8 | 1 | UniProt (Q9NYK5) | Homo sapiens (Human) | MRP-L39,39S ribosomal protein L5,mitochondrial,MRP-L5,Mitochondrial large ribosomal subunit protein mL39 |
| 32 | FA (8) | 39S ribosomal protein L40, mitochondrial | polymer | 206 | 24534.4 | 1 | UniProt (Q9NQ50) Pfam (PF09812) | Homo sapiens (Human) | MRP-L40,Mitochondrial large ribosomal subunit protein mL40,Nuclear localization signal-containing protein deleted in velocardiofacial syndrome,Up-regulated in metastasis |
| 33 | GA (9) | 39S ribosomal protein L41, mitochondrial | polymer | 137 | 15404.7 | 1 | UniProt (Q8IXM3) Pfam (PF09809) | Homo sapiens (Human) | MRP-L41,39S ribosomal protein L27 homolog,Bcl-2-interacting mitochondrial ribosomal protein L41,Cell proliferation-inducing gene 3 protein,MRP-L27 homolog,Mitochondrial large ribosomal subunit protein mL41 |
| 34 | HA (a) | 39S ribosomal protein L42, mitochondrial | polymer | 142 | 16691.2 | 1 | UniProt (Q9Y6G3) Pfam (PF10210) | Homo sapiens (Human) | MRP-L42,39S ribosomal protein L31,mitochondrial,MRP-L31,Mitochondrial large ribosomal subunit protein mL42 |
| 35 | IA (b) | 39S ribosomal protein L43, mitochondrial | polymer | 215 | 23457.8 | 1 | UniProt (Q8N983) Pfam (PF05047) | Homo sapiens (Human) | MRP-L43,Mitochondrial large ribosomal subunit protein mL43,Mitochondrial ribosomal protein bMRP36a |
| 36 | JA (c) | 39S ribosomal protein L44, mitochondrial | polymer | 332 | 37583.3 | 1 | UniProt (Q9H9J2) Pfam (PF22935) Pfam (PF22892) | Homo sapiens (Human) | MRP-L44,Mitochondrial large ribosomal subunit protein mL44 |
| 37 | KA (d) | 39S ribosomal protein L45, mitochondrial | polymer | 306 | 35402.9 | 1 | UniProt (Q9BRJ2) Pfam (PF04280) | Homo sapiens (Human) | MRP-L45,Mitochondrial large ribosomal subunit protein mL45 |
| 38 | LA (e) | 39S ribosomal protein L46, mitochondrial | polymer | 279 | 31748.1 | 1 | UniProt (Q9H2W6) Pfam (PF11788) | Homo sapiens (Human) | MRP-L46,Mitochondrial large ribosomal subunit protein mL46,P2ECSL |
| 39 | MA (f) | 39S ribosomal protein L48, mitochondrial | polymer | 212 | 23970.8 | 1 | UniProt (Q96GC5) Pfam (PF00338) | Homo sapiens (Human) | MRP-L48,Mitochondrial large ribosomal subunit protein mL48 |
| 40 | NA (g) | 39S ribosomal protein L49, mitochondrial | polymer | 166 | 19225.0 | 1 | UniProt (Q13405) Pfam (PF05046) | Homo sapiens (Human) | MRP-L49,Mitochondrial large ribosomal subunit protein mL49,Neighbor of FAU,NOF,Protein NOF1 |
| 41 | OA (h) | 39S ribosomal protein L50, mitochondrial | polymer | 158 | 18349.9 | 1 | UniProt (Q8N5N7) Pfam (PF10501) | Homo sapiens (Human) | MRP-L50,Mitochondrial large ribosomal subunit protein mL50 |
| 42 | PA (i) | 39S ribosomal protein L51, mitochondrial | polymer | 128 | 15125.9 | 1 | UniProt (Q4U2R6) Pfam (PF10244) | Homo sapiens (Human) | MRP-L51,Mitochondrial large ribosomal subunit protein mL51,bMRP-64,bMRP64 |
| 43 | QA (j) | 39S ribosomal protein L52, mitochondrial | polymer | 123 | 13682.7 | 1 | UniProt (Q86TS9) Pfam (PF18699) | Homo sapiens (Human) | MRP-L52,Mitochondrial large ribosomal subunit protein mL52 |
| 44 | RA (k) | 39S ribosomal protein L53, mitochondrial | polymer | 112 | 12125.9 | 1 | UniProt (Q96EL3) Pfam (PF10780) | Homo sapiens (Human) | MRP-L53,Mitochondrial large ribosomal subunit protein mL53 |
| 45 | SA (l) | 39S ribosomal protein L54, mitochondrial | polymer | 138 | 15844.2 | 1 | UniProt (Q6P161) Pfam (PF08561) | Homo sapiens (Human) | MRP-L54,Mitochondrial large ribosomal subunit protein mL54 |
| 46 | TA (m) | 39S ribosomal protein L55, mitochondrial | polymer | 128 | 15160.4 | 1 | UniProt (Q7Z7F7) Pfam (PF09776) | Homo sapiens (Human) | MRP-L55,Mitochondrial large ribosomal subunit protein bL31m,Mitochondrial large ribosomal subunit protein mL55 |
| 47 | UA (o) | Ribosomal protein 63, mitochondrial | polymer | 102 | 12292.3 | 1 | UniProt (Q9BQC6) Pfam (PF14978) | Homo sapiens (Human) | hMRP63,Mitochondrial large ribosomal subunit protein mL63,Mitochondrial ribosomal protein 63,Mitochondrial ribosomal protein L57 |
| 48 | VA (p) | Peptidyl-tRNA hydrolase ICT1, mitochondrial | 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,Mitochondrial large ribosomal subunit protein mL62 |
| 49 | WA (q) | Growth arrest and DNA damage-inducible proteins-interacting protein 1 | 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,Mitochondrial large ribosomal subunit protein mL64,Papillomavirus L2-interacting nuclear protein 1,PLINP-1,p53-responsive gene 6 protein |
| 50 | XA (r) | 39S ribosomal protein S18a, mitochondrial | polymer | 196 | 22224.1 | 1 | UniProt (Q9NVS2) Pfam (PF01084) | Homo sapiens (Human) | S18mt-a,39S ribosomal protein S18-3,mitochondrial,MRP-S18-3,Mitochondrial large ribosomal subunit protein bS18a,Mitochondrial large ribosomal subunit protein mL66 |
| 51 | YA (s) | 39S ribosomal protein S30, mitochondrial | polymer | 439 | 50429.6 | 1 | UniProt (Q9NP92) Pfam (PF07147) | Homo sapiens (Human) | S30mt,Mitochondrial large ribosomal subunit protein mL65,Mitochondrial large ribosomal subunit protein mS30,Programmed cell death protein 9 |
| 52 | ZA (t) | Unknown protein or protein extension | polymer | 28 | 2401.0 | 1 | Homo sapiens (Human) | ||
| 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) | MIEF1 upstream open reading frame protein | polymer | 70 | 8460.8 | 1 | UniProt (L0R8F8) Pfam (PF05347) | Homo sapiens (Human) | |
| 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, BC, BD, CC, DB... (A, g, W) | MAGNESIUM ION | non-polymer | 24.3 | 49 | Chemie (MG) | |||
| 57 | AD, YC (0, I) | ZINC ION | non-polymer | 65.4 | 2 | Chemie (ZN) | |||
| 58 | CD (v) | 4'-PHOSPHOPANTETHEINE | non-polymer | 358.3 | 1 | Chemie (PNS) |
Sequence modifications
A: 1671 - 3229 (GenBank: 1025814679)
| PDB | External Database | Details |
|---|---|---|
| U 3107 | Unk 3109 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 55 |
| Total formula weight | 1782780.8 | |
| Non-Polymers* | Number of molecules | 52 |
| Total formula weight | 1680.1 | |
| All* | Total formula weight | 1784460.9 |
