7OF3
Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with MTERF4-NSUN4 (dataset2).
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 | 0 | 39S ribosomal protein L32, mitochondrial | polymer | 188 | 21437.8 | 1 | UniProt (Q9BYC8) Pfam (PF01783) In PDB | Homo sapiens (Human) | MRP-L32,Mitochondrial large ribosomal subunit protein bL32m |
2 | 1 | 39S ribosomal protein L33, mitochondrial | polymer | 65 | 7635.2 | 1 | UniProt (O75394) Pfam (PF00471) In PDB | Homo sapiens (Human) | MRP-L33,Mitochondrial large ribosomal subunit protein bL33m |
3 | 2 | 39S ribosomal protein L34, mitochondrial | polymer | 92 | 10183.9 | 1 | UniProt (Q9BQ48) Pfam (PF00468) In PDB | Homo sapiens (Human) | MRP-L34,Mitochondrial large ribosomal subunit protein bL34m |
4 | 3 | 39S ribosomal protein L35, mitochondrial | polymer | 188 | 21558.5 | 1 | UniProt (Q9NZE8) Pfam (PF01632) In PDB | Homo sapiens (Human) | MRP-L35,Mitochondrial large ribosomal subunit protein bL35m |
5 | 4 | 39S ribosomal protein L36, mitochondrial | polymer | 103 | 11809.3 | 1 | UniProt (Q9P0J6) Pfam (PF00444) In PDB | Homo sapiens (Human) | MRP-L36,BRCA1-interacting protein 1,Mitochondrial large ribosomal subunit protein bL36m |
6 | 5 | 39S ribosomal protein L37, mitochondrial | polymer | 423 | 48183.3 | 1 | UniProt (Q9BZE1) Pfam (PF07147) In PDB | Homo sapiens (Human) | MRP-L37,39S ribosomal protein L2,mitochondrial,MRP-L2,Mitochondrial large ribosomal subunit protein mL37 |
7 | 6 | 39S ribosomal protein L38, mitochondrial | polymer | 380 | 44659.4 | 1 | UniProt (Q96DV4) Pfam (PF01161) In PDB | Homo sapiens (Human) | MRP-L38,Mitochondrial large ribosomal subunit protein mL38 |
8 | 7 | 39S ribosomal protein L39, mitochondrial | polymer | 338 | 38764.8 | 1 | UniProt (Q9NYK5) In PDB | Homo sapiens (Human) | MRP-L39,39S ribosomal protein L5,mitochondrial,MRP-L5,Mitochondrial large ribosomal subunit protein mL39 |
9 | 8 | 39S ribosomal protein L40, mitochondrial | polymer | 206 | 24534.4 | 1 | UniProt (Q9NQ50) Pfam (PF09812) In PDB | Homo sapiens (Human) | MRP-L40,Mitochondrial large ribosomal subunit protein mL40,Nuclear localization signal-containing protein deleted in velocardiofacial syndrome,Up-regulated in metastasis |
10 | 9 | 39S ribosomal protein L41, mitochondrial | polymer | 137 | 15404.7 | 1 | UniProt (Q8IXM3) Pfam (PF09809) In PDB | 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 |
11 | A | 16S ribosomal RNA | polymer | 1559 | 500019.6 | 1 | GenBank (1025814679) | Homo sapiens (Human) | |
12 | B | Mitochondrial tRNAVal | polymer | 69 | 22022.1 | 1 | GenBank (1485738021) | Homo sapiens | |
13 | C | 5-methylcytosine rRNA methyltransferase NSUN4 | polymer | 384 | 43140.5 | 1 | UniProt (Q96CB9) Pfam (PF01189) In PDB | Homo sapiens (Human) | NOL1/NOP2/Sun domain family member 4 |
14 | D | 39S ribosomal protein L2, mitochondrial | polymer | 305 | 33355.9 | 1 | UniProt (Q5T653) Pfam (PF00181) Pfam (PF03947) In PDB | Homo sapiens (Human) | MRP-L2,Mitochondrial large ribosomal subunit protein uL2m |
15 | E | 39S ribosomal protein L3, mitochondrial | polymer | 348 | 38689.6 | 1 | UniProt (P09001) Pfam (PF00297) In PDB | Homo sapiens (Human) | MRP-L3,Mitochondrial large ribosomal subunit protein uL3m |
16 | F | 39S ribosomal protein L4, mitochondrial | polymer | 311 | 34970.2 | 1 | UniProt (Q9BYD3) Pfam (PF00573) In PDB | Homo sapiens (Human) | MRP-L4,Mitochondrial large ribosomal subunit protein uL4m |
17 | G | Transcription termination factor 4, mitochondrial | polymer | 381 | 44012.5 | 1 | UniProt (Q7Z6M4) Pfam (PF02536) In PDB | Homo sapiens (Human) | Mitochondrial transcription termination factor 4,mTERF domain-containing protein 2 |
18 | H | 39S ribosomal protein L9, mitochondrial | polymer | 267 | 30296.4 | 1 | UniProt (Q9BYD2) Pfam (PF01281) Pfam (PF22078) In PDB | Homo sapiens (Human) | MRP-L9,Mitochondrial large ribosomal subunit protein bL9m |
19 | I | 39S ribosomal protein L10, mitochondrial | polymer | 261 | 29322.5 | 1 | UniProt (Q7Z7H8) Pfam (PF00466) In PDB | Homo sapiens (Human) | MRP-L10,39S ribosomal protein L8,mitochondrial,MRP-L8,Mitochondrial large ribosomal subunit protein uL10m |
20 | J | 39S ribosomal protein L11, mitochondrial | polymer | 192 | 20716.2 | 1 | UniProt (Q9Y3B7) Pfam (PF03946) Pfam (PF00298) In PDB | Homo sapiens (Human) | MRP-L11,Mitochondrial large ribosomal subunit protein uL11m |
21 | K | 39S ribosomal protein L13, mitochondrial | polymer | 178 | 20723.0 | 1 | UniProt (Q9BYD1) Pfam (PF00572) In PDB | Homo sapiens (Human) | MRP-L13,Mitochondrial large ribosomal subunit protein uL13m |
22 | L | 39S ribosomal protein L14, mitochondrial | polymer | 145 | 15973.7 | 1 | UniProt (Q6P1L8) Pfam (PF00238) In PDB | Homo sapiens (Human) | MRP-L14,39S ribosomal protein L32,mitochondrial,MRP-L32,Mitochondrial large ribosomal subunit protein uL14m |
23 | M | 39S ribosomal protein L15, mitochondrial | polymer | 296 | 33473.8 | 1 | UniProt (Q9P015) Pfam (PF00828) In PDB | Homo sapiens (Human) | MRP-L15,Mitochondrial large ribosomal subunit protein uL15m |
24 | N | 39S ribosomal protein L16, mitochondrial | polymer | 251 | 28496.3 | 1 | UniProt (Q9NX20) Pfam (PF00252) In PDB | Homo sapiens (Human) | MRP-L16,Mitochondrial large ribosomal subunit protein uL16m |
25 | O | 39S ribosomal protein L17, mitochondrial | polymer | 175 | 20083.3 | 1 | UniProt (Q9NRX2) Pfam (PF01196) In PDB | Homo sapiens (Human) | MRP-L17,LYST-interacting protein 2,Mitochondrial large ribosomal subunit protein bL17m |
26 | P | 39S ribosomal protein L18, mitochondrial | polymer | 180 | 20607.6 | 1 | UniProt (Q9H0U6) Pfam (PF00861) In PDB | Homo sapiens (Human) | MRP-L18,Mitochondrial large ribosomal subunit protein uL18m |
27 | Q | 39S ribosomal protein L19, mitochondrial | polymer | 292 | 33585.0 | 1 | UniProt (P49406) Pfam (PF01245) In PDB | Homo sapiens (Human) | MRP-L19,39S ribosomal protein L15,mitochondrial,MRP-L15,Mitochondrial large ribosomal subunit protein bL19m |
28 | R | 39S ribosomal protein L20, mitochondrial | polymer | 149 | 17479.7 | 1 | UniProt (Q9BYC9) Pfam (PF00453) In PDB | Homo sapiens (Human) | MRP-L20,Mitochondrial large ribosomal subunit protein bL20m |
29 | S | 39S ribosomal protein L21, mitochondrial | polymer | 205 | 22847.7 | 1 | UniProt (Q7Z2W9) Pfam (PF00829) In PDB | Homo sapiens (Human) | MRP-L21,Mitochondrial large ribosomal subunit protein bL21m |
30 | T | 39S ribosomal protein L22, mitochondrial | polymer | 206 | 23683.7 | 1 | UniProt (Q9NWU5) Pfam (PF00237) In PDB | Homo sapiens (Human) | MRP-L22,39S ribosomal protein L25,mitochondrial,MRP-L25,Mitochondrial large ribosomal subunit protein uL22m |
31 | U | 39S ribosomal protein L23, mitochondrial | polymer | 153 | 17807.2 | 1 | UniProt (Q16540) Pfam (PF00276) In PDB | Homo sapiens (Human) | MRP-L23,L23 mitochondrial-related protein,Mitochondrial large ribosomal subunit protein uL23m,Ribosomal protein L23-like |
32 | V | 39S ribosomal protein L24, mitochondrial | polymer | 216 | 24953.9 | 1 | UniProt (Q96A35) Pfam (PF00467) Pfam (PF17136) In PDB | Homo sapiens (Human) | MRP-L24,Mitochondrial large ribosomal subunit protein uL24m |
33 | W | 39S ribosomal protein L27, mitochondrial | polymer | 148 | 16102.9 | 1 | UniProt (Q9P0M9) Pfam (PF01016) In PDB | Homo sapiens (Human) | MRP-L27,Mitochondrial large ribosomal subunit protein bL27m |
34 | X | 39S ribosomal protein L28, mitochondrial | polymer | 256 | 30202.9 | 1 | UniProt (Q13084) Pfam (PF00830) In PDB | Homo sapiens (Human) | MRP-L28,Melanoma antigen p15,Melanoma-associated antigen recognized by T-lymphocytes,Mitochondrial large ribosomal subunit protein bL28m |
35 | Y | 39S ribosomal protein L47, mitochondrial | polymer | 250 | 29508.5 | 1 | UniProt (Q9HD33) Pfam (PF06984) In PDB | Homo sapiens (Human) | MRP-L47,Mitochondrial large ribosomal subunit protein uL29m,Nasopharyngeal carcinoma metastasis-related protein 1 |
36 | Z | 39S ribosomal protein L30, mitochondrial | polymer | 161 | 18582.8 | 1 | UniProt (Q8TCC3) Pfam (PF00327) In PDB | Homo sapiens (Human) | MRP-L30,39S ribosomal protein L28,mitochondrial,MRP-L28,Mitochondrial large ribosomal subunit protein uL30m |
37 | a | 39S ribosomal protein L42, mitochondrial | polymer | 142 | 16691.2 | 1 | UniProt (Q9Y6G3) Pfam (PF10210) In PDB | Homo sapiens (Human) | MRP-L42,39S ribosomal protein L31,mitochondrial,MRP-L31,Mitochondrial large ribosomal subunit protein mL42 |
38 | b | 39S ribosomal protein L43, mitochondrial | polymer | 215 | 23457.8 | 1 | UniProt (Q8N983) Pfam (PF05047) In PDB | Homo sapiens (Human) | MRP-L43,Mitochondrial large ribosomal subunit protein mL43,Mitochondrial ribosomal protein bMRP36a |
39 | c | 39S ribosomal protein L44, mitochondrial | polymer | 332 | 37583.3 | 1 | UniProt (Q9H9J2) Pfam (PF22935) Pfam (PF22892) In PDB | Homo sapiens (Human) | MRP-L44,Mitochondrial large ribosomal subunit protein mL44 |
40 | d | 39S ribosomal protein L45, mitochondrial | polymer | 306 | 35402.9 | 1 | UniProt (Q9BRJ2) Pfam (PF04280) In PDB | Homo sapiens (Human) | MRP-L45,Mitochondrial large ribosomal subunit protein mL45 |
41 | e | 39S ribosomal protein L46, mitochondrial | polymer | 279 | 31748.1 | 1 | UniProt (Q9H2W6) Pfam (PF11788) In PDB | Homo sapiens (Human) | MRP-L46,Mitochondrial large ribosomal subunit protein mL46,P2ECSL |
42 | f | 39S ribosomal protein L48, mitochondrial | polymer | 212 | 23970.8 | 1 | UniProt (Q96GC5) Pfam (PF00338) In PDB | Homo sapiens (Human) | MRP-L48,Mitochondrial large ribosomal subunit protein mL48 |
43 | g | 39S ribosomal protein L49, mitochondrial | polymer | 166 | 19225.0 | 1 | UniProt (Q13405) Pfam (PF05046) In PDB | Homo sapiens (Human) | MRP-L49,Mitochondrial large ribosomal subunit protein mL49,Neighbor of FAU,NOF,Protein NOF1 |
44 | h | 39S ribosomal protein L50, mitochondrial | polymer | 158 | 18349.9 | 1 | UniProt (Q8N5N7) Pfam (PF10501) In PDB | Homo sapiens (Human) | MRP-L50,Mitochondrial large ribosomal subunit protein mL50 |
45 | i | 39S ribosomal protein L51, mitochondrial | polymer | 128 | 15125.9 | 1 | UniProt (Q4U2R6) Pfam (PF10244) In PDB | Homo sapiens (Human) | MRP-L51,Mitochondrial large ribosomal subunit protein mL51,bMRP-64,bMRP64 |
46 | j | 39S ribosomal protein L52, mitochondrial | polymer | 123 | 13682.7 | 1 | UniProt (Q86TS9) Pfam (PF18699) In PDB | Homo sapiens (Human) | MRP-L52,Mitochondrial large ribosomal subunit protein mL52 |
47 | k | 39S ribosomal protein L53, mitochondrial | polymer | 112 | 12125.9 | 1 | UniProt (Q96EL3) Pfam (PF10780) In PDB | Homo sapiens (Human) | MRP-L53,Mitochondrial large ribosomal subunit protein mL53 |
48 | m | 39S ribosomal protein L55, mitochondrial | polymer | 128 | 15160.4 | 1 | UniProt (Q7Z7F7) Pfam (PF09776) In PDB | Homo sapiens (Human) | MRP-L55,Mitochondrial large ribosomal subunit protein bL31m,Mitochondrial large ribosomal subunit protein mL55 |
49 | o | Ribosomal protein 63, mitochondrial | polymer | 102 | 12292.3 | 1 | UniProt (Q9BQC6) Pfam (PF14978) In PDB | Homo sapiens (Human) | hMRP63,Mitochondrial large ribosomal subunit protein mL63,Mitochondrial ribosomal protein 63,Mitochondrial ribosomal protein L57 |
50 | p | Peptidyl-tRNA hydrolase ICT1, mitochondrial | polymer | 206 | 23674.2 | 1 | UniProt (Q14197) Pfam (PF00472) In PDB | 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 |
51 | q | Growth arrest and DNA damage-inducible proteins-interacting protein 1 | polymer | 222 | 25426.9 | 1 | UniProt (Q8TAE8) Pfam (PF10147) In PDB | 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 |
52 | r | 39S ribosomal protein S18a, mitochondrial | polymer | 196 | 22224.1 | 1 | UniProt (Q9NVS2) Pfam (PF01084) In PDB | 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 |
53 | s | 39S ribosomal protein S30, mitochondrial | polymer | 439 | 50429.6 | 1 | UniProt (Q9NP92) Pfam (PF07147) In PDB | Homo sapiens (Human) | S30mt,Mitochondrial large ribosomal subunit protein mL65,Mitochondrial large ribosomal subunit protein mS30,Programmed cell death protein 9 |
54 | u | Mitochondrial assembly of ribosomal large subunit protein 1 | polymer | 234 | 26203.1 | 1 | UniProt (Q96EH3) Pfam (PF02410) In PDB | Homo sapiens (Human) | |
55 | v | MIEF1 upstream open reading frame protein | polymer | 70 | 8460.8 | 1 | UniProt (L0R8F8) Pfam (PF05347) In PDB | Homo sapiens (Human) | |
56 | w | Acyl carrier protein, mitochondrial | polymer | 156 | 17434.3 | 1 | UniProt (O14561) Pfam (PF00550) In PDB | Homo sapiens (Human) | ACP,CI-SDAP,NADH-ubiquinone oxidoreductase 9.6 kDa subunit |
57 | 0, 4, r | ZINC ION | non-polymer | 65.4 | 3 | Chemie (ZN) | |||
58 | A, g | MAGNESIUM ION | non-polymer | 24.3 | 58 | Chemie (MG) | |||
59 | A | GUANOSINE-5'-TRIPHOSPHATE | non-polymer | 523.2 | 2 | Chemie (GTP) |
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 | 56 |
Total formula weight | 1863497.9 | |
Non-Polymers* | Number of molecules | 63 |
Total formula weight | 2652.3 | |
All* | Total formula weight | 1866150.2 |