6R7Q
Structure of XBP1u-paused ribosome nascent chain complex with Sec61.
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 | AA | 40S ribosomal protein S30 | polymer | 55 | 6317.5 | 1 | UniProt (G1T8A2) Pfam (PF04758) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 2 | BB | 40S ribosomal protein S7 | polymer | 189 | 21629.3 | 1 | UniProt (G1SVB0) Pfam (PF01251) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 3 | CC | 40S ribosomal protein S8 | polymer | 206 | 24003.0 | 1 | UniProt (G1TJW1) Pfam (PF01201) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 4 | DD | Ribosomal protein S9 (Predicted) | polymer | 185 | 21649.6 | 1 | UniProt (B7NZS8) Pfam (PF00163) Pfam (PF01479) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 5 | EE | Ribosomal protein S11 | polymer | 151 | 17586.8 | 1 | UniProt (G1TRM4) Pfam (PF16205) Pfam (PF00366) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 6 | FF | Ribosomal protein S28 | polymer | 62 | 7007.1 | 1 | UniProt (G1TIB4) Pfam (PF01200) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 7 | GG | uS10 | polymer | 100 | 11395.5 | 1 | Oryctolagus cuniculus | ||
| 8 | HH | eS21 | polymer | 83 | 9124.4 | 1 | Oryctolagus cuniculus | ||
| 9 | II | uS13 | polymer | 144 | 16898.6 | 1 | UniProt (G1SZI5) Pfam (PF00416) UniProt (by SIFTS) (G1TPG3) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 10 | JJ | 40S ribosomal protein S27 | polymer | 83 | 9349.0 | 1 | UniProt (G1TZ76) Pfam (PF01667) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 11 | KK | eS17 | polymer | 132 | 15250.7 | 1 | UniProt (G1TU13) Pfam (PF00833) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 12 | LL | eS26 | polymer | 101 | 11645.8 | 1 | Oryctolagus cuniculus | ||
| 13 | MM | uS11 | polymer | 136 | 14544.7 | 1 | Oryctolagus cuniculus | ||
| 14 | 0 | eS31 | polymer | 68 | 7986.4 | 1 | UniProt (G1SK22) Pfam (PF01599) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 15 | 1 | X-box-binding protein 1 | polymer | 24 | 2895.4 | 1 | UniProt (P17861) In PDB | Homo sapiens (Human) | XBP-1,Tax-responsive element-binding protein 5,TREB-5 |
| 16 | 2 | P-tRNA | polymer | 75 | 24108.3 | 1 | Saccharomyces cerevisiae | ||
| 17 | 3 | E-tRNA | polymer | 75 | 24148.4 | 1 | Saccharomyces cerevisiae | ||
| 18 | 4 | messenger RNA | polymer | 6 | 1877.2 | 1 | Homo sapiens | ||
| 19 | 5 | 28S ribosomal RNA | polymer | 3544 | 1148460.6 | 1 | Oryctolagus cuniculus | ||
| 20 | 6 | ribosomal protein RACK1 | polymer | 313 | 34669.1 | 1 | UniProt (G1SJB4) Pfam (PF00400) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 21 | 7 | 5S ribosomal RNA | polymer | 120 | 38691.9 | 1 | Oryctolagus cuniculus | ||
| 22 | 8 | 5.8S ribosomal RNA | polymer | 151 | 48545.7 | 1 | Oryctolagus cuniculus | ||
| 23 | 9 | uS14 | polymer | 55 | 6559.6 | 1 | UniProt (G1U7M4) Pfam (PF00253) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 24 | NN | eS24 | polymer | 124 | 14432.1 | 1 | Oryctolagus cuniculus | ||
| 25 | OO | ribosomal protein eS25 | polymer | 75 | 8526.1 | 1 | UniProt (G1TDB3) Pfam (PF03297) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 26 | PP | eS19 | polymer | 141 | 15611.0 | 1 | UniProt (G1TN62) Pfam (PF01090) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 27 | ribosomal protein uS15 | polymer | 149 | 17057.1 | 1 | UniProt (G1SP51) Pfam (PF08069) Pfam (PF00312) In PDB | Oryctolagus cuniculus (Rabbit) | ||
| 28 | RR | 40S ribosomal protein S12 | polymer | 117 | 13048.2 | 1 | UniProt (G1SFR8) Pfam (PF01248) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 29 | A | uL2 | polymer | 248 | 26998.6 | 1 | UniProt (G1TT27) Pfam (PF00181) Pfam (PF03947) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 30 | B | uL3 | polymer | 394 | 45119.8 | 1 | UniProt (G1TL06) Pfam (PF00297) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 31 | C | uL4 | polymer | 362 | 41101.4 | 1 | UniProt (G1SVW5) Pfam (PF00573) Pfam (PF14374) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 32 | D | 60S ribosomal protein L5 | polymer | 293 | 34077.4 | 1 | UniProt (G1SYJ6) Pfam (PF17144) Pfam (PF14204) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 33 | E | 60S ribosomal protein L6 | polymer | 251 | 28818.3 | 1 | UniProt (G1SKF7) Pfam (PF03868) Pfam (PF01159) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 34 | F | uL30 | polymer | 225 | 26658.8 | 1 | UniProt (G1SV32) Pfam (PF08079) Pfam (PF00327) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 35 | G | eL8 | polymer | 240 | 27351.4 | 1 | UniProt (G1STW0) Pfam (PF01248) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 36 | H | uL6 | polymer | 190 | 21627.2 | 1 | UniProt (G1TX33) Pfam (PF00347) UniProt (by SIFTS) (G1SWI6) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 37 | I | Ribosomal protein L10 (Predicted) | polymer | 213 | 24511.9 | 1 | UniProt (B7NZQ2) Pfam (PF00252) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 38 | J | Ribosomal protein L11 | polymer | 170 | 19399.5 | 1 | UniProt (G1TUB8) Pfam (PF00281) Pfam (PF00673) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 39 | K | 18S ribosomal RNA | polymer | 1698 | 548040.2 | 1 | Oryctolagus cuniculus | ||
| 40 | L | 60S ribosomal protein L13 | polymer | 210 | 24200.5 | 1 | UniProt (G1TPV0) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 41 | M | Ribosomal protein L14 | polymer | 138 | 16217.4 | 1 | UniProt (U3KNW6) Pfam (PF01929) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 42 | N | Ribosomal protein L15 | polymer | 203 | 24076.1 | 1 | UniProt (G1T0C1) Pfam (PF00827) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 43 | O | uL13 | polymer | 199 | 23144.9 | 1 | Oryctolagus cuniculus | ||
| 44 | P | uL22 | polymer | 153 | 17758.7 | 1 | UniProt (G1TVT6) Pfam (PF00237) UniProt (by SIFTS) (G1SCJ6) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 45 | Q | eL18 | polymer | 187 | 21568.5 | 1 | UniProt (G1TX70) Pfam (PF17135) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 46 | R | eL19 | polymer | 180 | 21613.0 | 1 | Oryctolagus cuniculus | ||
| 47 | S | eL20 | polymer | 176 | 20827.6 | 1 | Oryctolagus cuniculus | ||
| 48 | T | eL21 | polymer | 159 | 18478.8 | 1 | UniProt (G1SHQ2) Pfam (PF01157) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 49 | U | eL22 | polymer | 99 | 11495.3 | 1 | Oryctolagus cuniculus | ||
| 50 | V | eL14 | polymer | 131 | 13972.4 | 1 | UniProt (G1T6D1) Pfam (PF00238) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 51 | W | Ribosomal protein L24 | polymer | 121 | 14131.5 | 1 | UniProt (G1SE28) Pfam (PF01246) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 52 | X | uL23 | polymer | 118 | 13727.2 | 1 | UniProt (G1SE76) Pfam (PF03939) Pfam (PF00276) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 53 | Y | Ribosomal protein L26 | polymer | 134 | 15891.8 | 1 | UniProt (G1SQH0) Pfam (PF16906) Pfam (PF00467) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 54 | Z | 60S ribosomal protein L27 | polymer | 135 | 15704.6 | 1 | UniProt (G1TXF6) Pfam (PF00467) Pfam (PF01777) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 55 | SS | eS10 | polymer | 96 | 11529.7 | 1 | UniProt (G1TPV3) Pfam (PF03501) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 56 | a | uL15 | polymer | 147 | 16489.4 | 1 | UniProt (G1SNY0) Pfam (PF00828) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 57 | b | eL29 | polymer | 116 | 13401.0 | 1 | UniProt (G1SGR6) Pfam (PF01779) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 58 | c | eL30 | polymer | 98 | 10914.8 | 1 | UniProt (G1TDL2) Pfam (PF01248) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 59 | d | eL31 | polymer | 107 | 12635.7 | 1 | UniProt (G1SHG0) Pfam (PF01198) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 60 | e | eL32 | polymer | 128 | 15022.0 | 1 | UniProt (G1TUN8) Pfam (PF01655) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 61 | f | eL33 | polymer | 109 | 12449.6 | 1 | UniProt (G1SF08) Pfam (PF01247) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 62 | g | eL34 | polymer | 114 | 12994.6 | 1 | UniProt (G1U945) Pfam (PF01199) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 63 | h | uL29 | polymer | 122 | 14435.4 | 1 | UniProt (G1SIT5) Pfam (PF00831) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 64 | i | 60S ribosomal protein L36 | polymer | 102 | 11888.4 | 1 | UniProt (G1TTQ5) Pfam (PF01158) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 65 | j | Ribosomal protein L37 | polymer | 86 | 10090.9 | 1 | UniProt (U3KPD5) Pfam (PF01907) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 66 | k | eL38 | polymer | 69 | 8107.8 | 1 | Oryctolagus cuniculus | ||
| 67 | l | eL39 | polymer | 50 | 6324.6 | 1 | UniProt (G1TTN1) Pfam (PF00832) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 68 | m | eL40 | polymer | 52 | 6199.6 | 1 | Oryctolagus cuniculus | ||
| 69 | n | 60s ribosomal protein l41 | polymer | 25 | 3473.5 | 1 | UniProt (A0A087WNH4) Pfam (PF05162) In PDB | Oryctolagus cuniculus (Rabbit) | eL41 |
| 70 | o | eL42 | polymer | 104 | 12198.6 | 1 | UniProt (G1T040) Pfam (PF00935) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 71 | p | ribosomal protein eL43 | polymer | 91 | 10168.2 | 1 | UniProt (G1SY53) Pfam (PF01780) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 72 | q | uS2 | polymer | 217 | 24361.9 | 1 | Oryctolagus cuniculus | ||
| 73 | r | eL28 | polymer | 124 | 14220.7 | 1 | UniProt (G1U7L1) Pfam (PF01778) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 74 | s | 60S acidic ribosomal protein P0 | polymer | 196 | 21521.1 | 1 | UniProt (G1U6N2) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 75 | t | uL11 | polymer | 153 | 16561.1 | 1 | UniProt (G1SMR7) Pfam (PF03946) Pfam (PF00298) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 76 | u | 40S ribosomal protein S3a | polymer | 213 | 24759.1 | 1 | UniProt (G1SS70) Pfam (PF01015) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 77 | v | uS5 | polymer | 221 | 24441.8 | 1 | Oryctolagus cuniculus | ||
| 78 | w | Ribosomal protein S3 | polymer | 228 | 25215.6 | 1 | UniProt (G1TNM3) Pfam (PF07650) Pfam (PF00189) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 79 | x | 40S ribosomal protein S4 | polymer | 262 | 29523.7 | 1 | UniProt (G1TK17) Pfam (PF08071) Pfam (PF00900) Pfam (PF00467) Pfam (PF16121) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 80 | y | Ribosomal protein S5 | polymer | 191 | 21525.9 | 1 | UniProt (G1TFM5) Pfam (PF00177) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 81 | z | 40S ribosomal protein S6 | polymer | 237 | 27471.5 | 1 | UniProt (G1TM55) Pfam (PF01092) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 82 | TT | Ribosomal protein S15a | polymer | 129 | 14734.4 | 1 | UniProt (G1TG89) Pfam (PF00410) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 83 | UU | Ribosomal protein S16 | polymer | 142 | 16032.8 | 1 | UniProt (G1SGX4) Pfam (PF00380) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 84 | VV | Ribosomal protein S23 | polymer | 141 | 15626.4 | 1 | UniProt (G1SZ47) Pfam (PF00164) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 85 | WW | uS19 | polymer | 120 | 14246.9 | 1 | UniProt (G1U0Q2) Pfam (PF00203) In PDB | Oryctolagus cuniculus (Rabbit) | |
| 86 | XX | Protein transport protein Sec61 subunit alpha isoform 1 | polymer | 461 | 50728.5 | 1 | UniProt (P38377) Pfam (PF10559) Pfam (PF00344) In PDB | Canis lupus familiaris (Dog) | Sec61 alpha-1 |
| 87 | YY | Protein transport protein Sec61 subunit gamma | polymer | 62 | 7019.5 | 1 | UniProt (P60058) Pfam (PF00584) In PDB | Canis lupus familiaris (Dog) | |
| 88 | ZZ | Protein transport protein Sec61 subunit beta | polymer | 29 | 3265.0 | 1 | UniProt (P60467) Pfam (PF03911) In PDB | Canis lupus familiaris (Dog) | |
| 89 | o, p, LL, g, j... | ZINC ION | non-polymer | 65.4 | 6 | Chemie (ZN) | |||
| 90 | 5, K, y, 7, 8... | MAGNESIUM ION | non-polymer | 24.3 | 299 | Chemie (MG) |
Sequence modifications
CC: 2 - 207 (UniProt: G1TJW1)
1: 237 - 260 (UniProt: P17861)
PP: 3 - 143 (UniProt: G1TN62)
G: 80 - 319 (UniProt: G1STW0)
L: 2 - 211 (UniProt: G1TPV0)
Q: 2 - 188 (UniProt: G1TX70)
x: 2 - 263 (UniProt: G1TK17)
XX: 5 - 465 (UniProt: P38377)
| PDB | External Database | Details |
|---|---|---|
| Arg 47 | Gly 47 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Ala 255 | Ser 255 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Gly 119 | Trp 119 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Gly 244 | Cys 167 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Ala 47 | - | insertion |
| Pro 48 | - | insertion |
| Arg 49 | - | insertion |
| Pro 50 | - | insertion |
| Ala 51 | - | insertion |
| Ala 52 | - | insertion |
| Gly 53 | - | insertion |
| Pro 54 | - | insertion |
| Ile 55 | - | insertion |
| PDB | External Database | Details |
|---|---|---|
| Arg 6 | Leu 6 | conflict |
| Arg 14 | Trp 14 | conflict |
| Ile 23 | Met 23 | conflict |
| Tyr 24 | Cys 24 | conflict |
| Arg 38 | His 38 | conflict |
| Asn 57 | Lys 57 | conflict |
| Met 66 | Val 66 | conflict |
| Gly 74 | Asp 74 | conflict |
| Arg 75 | Pro 75 | conflict |
| Val 86 | Ile 86 | conflict |
| Arg 110 | His 110 | conflict |
| Gly 117 | Glu 117 | conflict |
| Asp 124 | His 124 | conflict |
| Arg 150 | Gln 150 | conflict |
| Arg 172 | Gly 172 | conflict |
| Arg 184 | Trp 184 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Gly 25 | Ser 25 | conflict |
| Arg 51 | Lys 51 | conflict |
| Thr 78 | Ala 78 | conflict |
| Val 156 | Met 156 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Ser 145 | Thr 134 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 88 |
| Total formula weight | 3249111.2 | |
| Non-Polymers* | Number of molecules | 305 |
| Total formula weight | 7659.6 | |
| All* | Total formula weight | 3256770.9 |
