8AGZ
Yeast RQC complex in state with the RING domain of Ltn1 in the OUT position
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 | 60S ribosomal protein L15-A | polymer | 204 | 24482.4 | 1 | UniProt (P05748) Pfam (PF00827) In PDB | Saccharomyces cerevisiae (baker's yeast) | L13,Large ribosomal subunit protein eL15-A,RP15R,YL10,YP18 |
| 2 | B | 60S ribosomal protein L16-A | polymer | 199 | 22247.2 | 1 | UniProt (P26784) Pfam (PF00572) In PDB | Saccharomyces cerevisiae (baker's yeast) | L13a,L21,Large ribosomal subunit protein uL13-A,RP22,YL15 |
| 3 | C | 60S ribosomal protein L17-A | polymer | 184 | 20589.5 | 1 | UniProt (P05740) Pfam (PF00237) In PDB | Saccharomyces cerevisiae (baker's yeast) | L20A,Large ribosomal subunit protein uL22-A,YL17 |
| 4 | D | 60S ribosomal protein L18-A | polymer | 186 | 20609.3 | 1 | UniProt (P0CX49) Pfam (PF17135) In PDB | Saccharomyces cerevisiae (baker's yeast) | Large ribosomal subunit protein eL18-A,RP28 |
| 5 | E | 60S ribosomal protein L19-A | polymer | 189 | 21762.3 | 1 | UniProt (P0CX82) Pfam (PF01280) In PDB | Saccharomyces cerevisiae (baker's yeast) | L23,Large ribosomal subunit protein eL19-A,RP15L,RP33,YL14 |
| 6 | F | 60S ribosomal protein L20-A | polymer | 172 | 20478.9 | 1 | UniProt (P0CX23) Pfam (PF01775) In PDB | Saccharomyces cerevisiae (baker's yeast) | L18a,Large ribosomal subunit protein eL20-A |
| 7 | G | 60S ribosomal protein L21-A | polymer | 160 | 18279.3 | 1 | UniProt (Q02753) Pfam (PF01157) In PDB | Saccharomyces cerevisiae (baker's yeast) | Large ribosomal subunit protein eL21-A |
| 8 | H | 60S ribosomal protein L22-A | polymer | 121 | 13711.4 | 1 | UniProt (P05749) Pfam (PF01776) In PDB | Saccharomyces cerevisiae (baker's yeast) | L1c,Large ribosomal subunit protein eL22-A,RP4,YL31 |
| 9 | I | 60S ribosomal protein L23-A | polymer | 137 | 14494.0 | 1 | UniProt (P0CX41) Pfam (PF00238) In PDB | Saccharomyces cerevisiae (baker's yeast) | L17a,Large ribosomal subunit protein uL14-A,YL32 |
| 10 | J | 60S ribosomal protein L24-A | polymer | 155 | 17661.7 | 1 | UniProt (P04449) Pfam (PF01246) In PDB | Saccharomyces cerevisiae (baker's yeast) | L30,Large ribosomal subunit protein eL24-A,RP29,YL21 |
| 11 | K | 60S ribosomal protein L25 | polymer | 142 | 15787.6 | 1 | UniProt (P04456) Pfam (PF03939) Pfam (PF00276) In PDB | Saccharomyces cerevisiae (baker's yeast) | Large ribosomal subunit protein uL23,RP16L,YL25,YP42' |
| 12 | L | 60S ribosomal protein L26-A | polymer | 127 | 14265.8 | 1 | UniProt (P05743) Pfam (PF16906) Pfam (PF00467) In PDB | Saccharomyces cerevisiae (baker's yeast) | L33,Large ribosomal subunit protein uL24-A,YL33 |
| 13 | M | 60S ribosomal protein L27-A | polymer | 136 | 15568.4 | 1 | UniProt (P0C2H6) Pfam (PF01777) In PDB | Saccharomyces cerevisiae (baker's yeast) | Large ribosomal subunit protein eL27-A |
| 14 | N | 60S ribosomal protein L28 | polymer | 149 | 16761.7 | 1 | UniProt (P02406) Pfam (PF00828) In PDB | Saccharomyces cerevisiae (baker's yeast) | L27a,L29,Large ribosomal subunit protein uL15,RP44,RP62,YL24 |
| 15 | O | 60S ribosomal protein L29 | polymer | 59 | 6691.9 | 1 | UniProt (A0A6A5PWR1) Pfam (PF01779) UniProt (by SIFTS) (P05747) In PDB | Saccharomyces cerevisiae (baker's yeast) | |
| 16 | P | 60S ribosomal protein L30 | polymer | 105 | 11430.4 | 1 | UniProt (P14120) Pfam (PF01248) In PDB | Saccharomyces cerevisiae (baker's yeast) | L32,Large ribosomal subunit protein eL30,RP73,YL38 |
| 17 | Q | 60S ribosomal protein L31-A | polymer | 113 | 12980.2 | 1 | UniProt (P0C2H8) Pfam (PF01198) In PDB | Saccharomyces cerevisiae (baker's yeast) | L34,Large ribosomal subunit protein eL31-A,YL28 |
| 18 | R | 60S ribosomal protein L32 | polymer | 130 | 14809.4 | 1 | UniProt (P38061) Pfam (PF01655) In PDB | Saccharomyces cerevisiae (baker's yeast) | Large ribosomal subunit protein eL32 |
| 19 | S | 60S ribosomal protein L33-A | polymer | 107 | 12177.1 | 1 | UniProt (P05744) Pfam (PF01247) In PDB | Saccharomyces cerevisiae (baker's yeast) | L37,Large ribosomal subunit protein eL33-A,RP47,YL37 |
| 20 | T | 60S ribosomal protein L34-A | polymer | 121 | 13673.2 | 1 | UniProt (P87262) Pfam (PF01199) In PDB | Saccharomyces cerevisiae (baker's yeast) | Large ribosomal subunit protein eL34-A |
| 21 | U | 60S ribosomal protein L35-A | polymer | 120 | 13942.6 | 1 | UniProt (P0CX84) Pfam (PF00831) In PDB | Saccharomyces cerevisiae (baker's yeast) | Large ribosomal subunit protein uL29-A |
| 22 | V | 60S ribosomal protein L36-A | polymer | 100 | 11151.3 | 1 | UniProt (P05745) Pfam (PF01158) In PDB | Saccharomyces cerevisiae (baker's yeast) | L39,Large ribosomal subunit protein eL36-A,YL39 |
| 23 | W | 60S ribosomal protein L37-A | polymer | 88 | 9877.4 | 1 | UniProt (P49166) Pfam (PF01907) In PDB | Saccharomyces cerevisiae (baker's yeast) | L43,Large ribosomal subunit protein eL37-A,YL35,YP55 |
| 24 | X | 60S ribosomal protein L38 | polymer | 78 | 8845.6 | 1 | UniProt (P49167) Pfam (PF01781) In PDB | Saccharomyces cerevisiae (baker's yeast) | Large ribosomal subunit protein eL38 |
| 25 | Y | 60S ribosomal protein L39 | polymer | 51 | 6358.6 | 1 | UniProt (P04650) Pfam (PF00832) In PDB | Saccharomyces cerevisiae (baker's yeast) | L46,Large ribosomal subunit protein eL39,YL40 |
| 26 | Z | Ubiquitin-60S ribosomal protein L40 | polymer | 128 | 14583.1 | 1 | UniProt (P0CH08) Pfam (PF00240) Pfam (PF01020) In PDB | Saccharomyces cerevisiae (baker's yeast) | |
| 27 | b | 60S ribosomal protein L42-A | polymer | 106 | 12246.7 | 1 | UniProt (P0CX27) Pfam (PF00935) In PDB | Saccharomyces cerevisiae (baker's yeast) | L41,Large ribosomal subunit protein eL42-A,YL27,YP44 |
| 28 | c | 60S ribosomal protein L43-A | polymer | 92 | 10113.0 | 1 | UniProt (P0CX25) Pfam (PF01780) In PDB | Saccharomyces cerevisiae (baker's yeast) | L37a,Large ribosomal subunit protein eL43-A,YL35 |
| 29 | d | 60S ribosomal protein L41-A | polymer | 25 | 3354.2 | 1 | UniProt (P0CX86) Pfam (PF05162) In PDB | Saccharomyces cerevisiae (baker's yeast) | L47,Large ribosomal subunit protein eL41-A,YL41 |
| 30 | f | 25S rRNA | polymer | 3395 | 1097086.5 | 1 | Saccharomyces cerevisiae | ||
| 31 | h | 5S rRNA | polymer | 121 | 38951.1 | 1 | GenBank (1329886537) | Saccharomyces cerevisiae (baker's yeast) | |
| 32 | i | 5.8S rRNA | polymer | 158 | 50682.9 | 1 | GenBank (1331532632) | Saccharomyces cerevisiae (baker's yeast) | |
| 33 | j | 60S ribosomal protein L2-A | polymer | 254 | 27463.6 | 1 | UniProt (P0CX45) Pfam (PF00181) Pfam (PF03947) In PDB | Saccharomyces cerevisiae (baker's yeast) | L5,Large ribosomal subunit protein uL2-A,RP8,YL6 |
| 34 | k | 60S ribosomal protein L3 | polymer | 387 | 43850.8 | 1 | UniProt (A0A6A5Q627) Pfam (PF00297) UniProt (by SIFTS) (P14126) In PDB | Saccharomyces cerevisiae (baker's yeast) | BJ4_G0035580.mRNA.1.CDS.1,BJ4_G0049970.mRNA.1.CDS.1,EM14S01-3B_G0027500.mRNA.1.CDS.1,HN1_G0038260.mRNA.1.CDS.1,JXXY16_1_G0027670.mRNA.1.CDS.1,XXYS1_4_G0030010.mRNA.1.CDS.1,Y55_G0038280.mRNA.1.CDS.1 |
| 35 | l | 60S ribosomal protein L4-A | polymer | 362 | 39159.1 | 1 | UniProt (P10664) Pfam (PF00573) Pfam (PF14374) In PDB | Saccharomyces cerevisiae (baker's yeast) | L2,Large ribosomal subunit protein uL4-A,RP2,YL2 |
| 36 | m | 60S ribosomal protein L5 | polymer | 297 | 33764.8 | 1 | UniProt (A0A6A5Q0W8) Pfam (PF17144) Pfam (PF14204) UniProt (by SIFTS) (P26321) In PDB | Saccharomyces cerevisiae (baker's yeast) | BJ4_G0025610.mRNA.1.CDS.1,BJ4_G0054540.mRNA.1.CDS.1,HLJ1_G0022950.mRNA.1.CDS.1,Y55_G0018660.mRNA.1.CDS.1 |
| 37 | n | 60S ribosomal protein L6-B | polymer | 176 | 20024.5 | 1 | UniProt (P05739) Pfam (PF01159) In PDB | Saccharomyces cerevisiae (baker's yeast) | L17,Large ribosomal subunit protein eL6-B,RP18,YL16 |
| 38 | o | 60S ribosomal protein L7-A | polymer | 244 | 27686.3 | 1 | UniProt (P05737) Pfam (PF08079) Pfam (PF00327) In PDB | Saccharomyces cerevisiae (baker's yeast) | L6,Large ribosomal subunit protein uL30-A,RP11,YL8 |
| 39 | p | 60S ribosomal protein L8-A | polymer | 256 | 28175.8 | 1 | UniProt (P17076) Pfam (PF01248) In PDB | Saccharomyces cerevisiae (baker's yeast) | L4,L4-2,L7a-1,Large ribosomal subunit protein eL8-A,Maintenance of killer protein 7,RP6,YL5 |
| 40 | q | 60S ribosomal protein L9-A | polymer | 191 | 21605.1 | 1 | UniProt (P05738) Pfam (PF00347) In PDB | Saccharomyces cerevisiae (baker's yeast) | L8,Large ribosomal subunit protein uL6-A,RP24,YL11 |
| 41 | r | 60S ribosomal protein L10 | polymer | 221 | 25410.5 | 1 | UniProt (A0A6A5PUZ5) Pfam (PF00252) UniProt (by SIFTS) (P41805) In PDB | Saccharomyces cerevisiae (baker's yeast) | BJ4_G0029950.mRNA.1.CDS.1,BJ4_G0035810.mRNA.1.CDS.1,EM14S01-3B_G0037000.mRNA.1.CDS.1,HLJ1_G0027670.mRNA.1.CDS.1,HLJ1_G0035970.mRNA.1.CDS.1,HN1_G0027430.mRNA.1.CDS.1,JXXY16_1_G0037140.mRNA.1.CDS.1,SX2_G0027370.mRNA.1.CDS.1,XXYS1_4_G0039550.mRNA.1.CDS.1 |
| 42 | s | 60S ribosomal protein L11-A | polymer | 174 | 19755.7 | 1 | UniProt (P0C0W9) Pfam (PF00281) Pfam (PF00673) In PDB | Saccharomyces cerevisiae (baker's yeast) | L16,Large ribosomal subunit protein uL5-A,RP39,YL22 |
| 43 | t | 60S ribosomal protein L13-A | polymer | 199 | 22604.2 | 1 | UniProt (Q12690) Pfam (PF01294) In PDB | Saccharomyces cerevisiae (baker's yeast) | Large ribosomal subunit protein eL13-A |
| 44 | u | 60S ribosomal protein L14-A | polymer | 138 | 15195.1 | 1 | UniProt (P36105) Pfam (PF00467) Pfam (PF01929) In PDB | Saccharomyces cerevisiae (baker's yeast) | Large ribosomal subunit protein eL14-A |
| 45 | a | RQC2 isoform 1 | polymer | 1038 | 119250.2 | 1 | UniProt (A0A8H4F709) Pfam (PF05833) Pfam (PF05670) Pfam (PF11923) UniProt (by SIFTS) (Q12532) In PDB | Saccharomyces cerevisiae (baker's yeast) | |
| 46 | e | E3 ubiquitin-protein ligase listerin | polymer | 1562 | 180373.0 | 1 | UniProt (Q04781) Pfam (PF13639) In PDB | Saccharomyces cerevisiae (baker's yeast) | RING domain mutant killed by rtf1 deletion protein 1,RING-type E3 ubiquitin transferase listerin |
| 47 | g | Eukaryotic translation initiation factor 6 | polymer | 245 | 26476.6 | 1 | UniProt (Q12522) Pfam (PF01912) In PDB | Saccharomyces cerevisiae (baker's yeast) | eIF-6 |
| 48 | v | Eukaryotic translation initiation factor 5A-1 | polymer | 157 | 17222.4 | 1 | UniProt (P23301) Pfam (PF21485) Pfam (PF01287) In PDB | Saccharomyces cerevisiae (baker's yeast) | eIF-5A-1,Hypusine-containing protein HP2,eIF-4D |
| 49 | w | 60S ribosomal protein L1-A | polymer | 217 | 24524.8 | 1 | UniProt (P0CX43) Pfam (PF00687) In PDB | Saccharomyces cerevisiae (baker's yeast) | L10a,Large ribosomal subunit protein uL1-A |
| 50 | x, y | Ala tRNA | polymer | 76 | 24503.5 | 2 | Saccharomyces cerevisiae | ||
| 51 | z | 60S ribosomal protein L12-B | polymer | 165 | 17850.6 | 1 | UniProt (A0A6A5Q275) Pfam (PF03946) Pfam (PF00298) UniProt (by SIFTS) (P0CX53) In PDB | Saccharomyces cerevisiae (baker's yeast) | BJ4_G0002860.mRNA.1.CDS.1,BJ4_G0014050.mRNA.1.CDS.1,EM14S01-3B_G0000190.mRNA.1.CDS.1,HLJ1_G0000220.mRNA.1.CDS.1,HLJ1_G0013810.mRNA.1.CDS.1,HN1_G0000200.mRNA.1.CDS.1,JXXY16_1_G0000240.mRNA.1.CDS.1,XXYS1_4_G0003040.mRNA.1.CDS.1,Y55_G0000220.mRNA.1.CDS.1 |
| 52 | 0 | 60S acidic ribosomal protein P0 | polymer | 312 | 33749.1 | 1 | UniProt (P05317) Pfam (PF00466) Pfam (PF17777) Pfam (PF00428) In PDB | Saccharomyces cerevisiae (baker's yeast) | A0,L10e,Large ribosomal subunit protein uL10 |
| 53 | 1 | CAT-tailed nascent chain | polymer | 18 | 1549.9 | 1 | Saccharomyces cerevisiae | ||
| 54 | A, C, E, I, R... | MAGNESIUM ION | non-polymer | 24.3 | 13 | Chemie (MG) | |||
| 55 | T, W, Z, b, c... | ZINC ION | non-polymer | 65.4 | 7 | Chemie (ZN) | |||
| 56 | f | SPERMIDINE | non-polymer | 145.2 | 1 | Chemie (SPD) |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 54 |
| Total formula weight | 2400353.4 | |
| Non-Polymers* | Number of molecules | 21 |
| Total formula weight | 919.1 | |
| All* | Total formula weight | 2401272.4 |
