6FTJ
Cryo-EM Structure of the Mammalian Oligosaccharyltransferase Bound to Sec61 and the Non-programmed 80S Ribosome
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 (A) | uL2 | polymer | 244 | 26570.1 | 1 | UniProt (G1TT27) Pfam (PF00181) Pfam (PF03947) | Oryctolagus cuniculus (Rabbit) | |
| 2 | B (B) | uL3 | polymer | 394 | 45119.8 | 1 | UniProt (G1TL06) Pfam (PF00297) | Oryctolagus cuniculus (Rabbit) | |
| 3 | C (C) | Ribosomal protein L4 | polymer | 362 | 41115.5 | 1 | UniProt (G1SVW5) Pfam (PF00573) Pfam (PF14374) | Oryctolagus cuniculus (Rabbit) | |
| 4 | D (D) | 60S ribosomal protein L5 | polymer | 292 | 34006.3 | 1 | UniProt (G1SYJ6) UniProt (by SIFTS) (P19949) | Oryctolagus cuniculus (Rabbit) | |
| 5 | E (E) | 60S ribosomal protein L6 | polymer | 248 | 28529.8 | 1 | UniProt (G1TG04) Pfam (PF01159) Pfam (PF03868) | Oryctolagus cuniculus (Rabbit) | |
| 6 | F (F) | Ul30 | polymer | 225 | 26662.8 | 1 | UniProt (G1SV32) Pfam (PF08079) Pfam (PF00327) | Oryctolagus cuniculus (Rabbit) | |
| 7 | G (G) | uL8 | polymer | 241 | 27480.6 | 1 | UniProt (G1STW0) Pfam (PF01248) | Oryctolagus cuniculus (Rabbit) | |
| 8 | H (H) | uL6 | polymer | 190 | 21627.2 | 1 | UniProt (G1TX33) Pfam (PF00347) UniProt (by SIFTS) (G1SWI6) | Oryctolagus cuniculus (Rabbit) | |
| 9 | I (I) | Ribosomal protein L10 (Predicted) | polymer | 213 | 24511.9 | 1 | UniProt (B7NZQ2) Pfam (PF00252) | Oryctolagus cuniculus (Rabbit) | |
| 10 | J (J) | Ribosomal protein L11 | polymer | 169 | 19270.3 | 1 | UniProt (G1TUB8) Pfam (PF00281) Pfam (PF00673) | Oryctolagus cuniculus (Rabbit) | |
| 11 | K (L) | eL13 | polymer | 210 | 24216.5 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 12 | L (M) | Ribosomal protein L14 | polymer | 138 | 16217.4 | 1 | UniProt (U3KNW6) Pfam (PF01929) UniProt (by SIFTS) (G1SZ12) | Oryctolagus cuniculus (Rabbit) | |
| 13 | M (N) | Ribosomal protein L15 | polymer | 203 | 24076.1 | 1 | UniProt (G1T0C1) Pfam (PF00827) | Oryctolagus cuniculus (Rabbit) | |
| 14 | N (O) | uL13 | polymer | 199 | 23248.9 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 15 | O (P) | uL22 | polymer | 153 | 17757.6 | 1 | UniProt (G1TVT6) Pfam (PF00237) UniProt (by SIFTS) (G1SCJ6) | Oryctolagus cuniculus (Rabbit) | |
| 16 | P (Q) | uL14 | polymer | 187 | 21457.4 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 17 | Q (R) | eL19 | polymer | 180 | 21613.0 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 18 | R (S) | eL20 | polymer | 175 | 20696.4 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 19 | S (T) | eL21 | polymer | 159 | 18478.8 | 1 | UniProt (G1SHQ2) Pfam (PF01157) | Oryctolagus cuniculus (Rabbit) | |
| 20 | T (U) | Ribosomal protein L22 | polymer | 99 | 11481.2 | 1 | UniProt (G1TSG1) Pfam (PF01776) | Oryctolagus cuniculus (Rabbit) | |
| 21 | U (V) | uL14 | polymer | 131 | 13972.4 | 1 | UniProt (G1T6D1) Pfam (PF00238) | Oryctolagus cuniculus (Rabbit) | |
| 22 | V (W) | Ribosomal protein L24 | polymer | 63 | 7512.8 | 1 | UniProt (G1SE28) Pfam (PF01246) | Oryctolagus cuniculus (Rabbit) | |
| 23 | W (X) | uL23 | polymer | 119 | 13856.4 | 1 | UniProt (G1SE76) Pfam (PF03939) Pfam (PF00276) | Oryctolagus cuniculus (Rabbit) | |
| 24 | X (Y) | Ribosomal protein L26 | polymer | 134 | 15891.8 | 1 | UniProt (G1SQH0) Pfam (PF16906) Pfam (PF00467) | Oryctolagus cuniculus (Rabbit) | |
| 25 | Y (Z) | 60S ribosomal protein L27 | polymer | 135 | 15704.6 | 1 | UniProt (G1TXF6) Pfam (PF00467) Pfam (PF01777) | Oryctolagus cuniculus (Rabbit) | |
| 26 | Z (a) | uL15 | polymer | 147 | 16489.4 | 1 | UniProt (G1SNY0) Pfam (PF00828) | Oryctolagus cuniculus (Rabbit) | |
| 27 | AA (b) | 60S ribosomal protein L29 | polymer | 75 | 8706.3 | 1 | UniProt (G1TN82) Pfam (PF01779) UniProt (by SIFTS) (G1SGR6) | Oryctolagus cuniculus (Rabbit) | |
| 28 | BA (c) | eL30 | polymer | 94 | 10496.4 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 29 | CA (d) | eL31 | polymer | 107 | 12635.7 | 1 | UniProt (G1SHG0) Pfam (PF01198) | Oryctolagus cuniculus (Rabbit) | |
| 30 | DA (e) | eL32 | polymer | 128 | 15022.0 | 1 | UniProt (G1TUN8) Pfam (PF01655) | Oryctolagus cuniculus (Rabbit) | |
| 31 | EA (f) | eL33 | polymer | 109 | 12449.6 | 1 | UniProt (G1SF08) Pfam (PF01247) | Oryctolagus cuniculus (Rabbit) | |
| 32 | FA (g) | eL34 | polymer | 114 | 12994.6 | 1 | UniProt (G1U945) Pfam (PF01199) UniProt (by SIFTS) (G1TXG5) | Oryctolagus cuniculus (Rabbit) | |
| 33 | GA (h) | uL29 | polymer | 122 | 14435.4 | 1 | UniProt (G1SIT5) Pfam (PF00831) | Oryctolagus cuniculus (Rabbit) | |
| 34 | HA (i) | 60S ribosomal protein L36 | polymer | 102 | 11888.4 | 1 | UniProt (G1TTQ5) Pfam (PF01158) | Oryctolagus cuniculus (Rabbit) | |
| 35 | IA (j) | Ribosomal protein L37 | polymer | 86 | 10090.9 | 1 | UniProt (U3KPD5) Pfam (PF01907) | Oryctolagus cuniculus (Rabbit) | |
| 36 | JA (k) | eL38 | polymer | 69 | 8107.8 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 37 | KA (l) | eL39 | polymer | 50 | 6295.6 | 1 | UniProt (G1SYU7) Pfam (PF00832) | Oryctolagus cuniculus (Rabbit) | |
| 38 | LA (m) | eL40 | polymer | 52 | 6199.6 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 39 | MA (n) | 60s ribosomal protein l41 | polymer | 23 | 3213.1 | 1 | UniProt (A0A087WNH4) Pfam (PF05162) | Oryctolagus cuniculus (Rabbit) | |
| 40 | NA (o) | eL42 | polymer | 104 | 12198.6 | 1 | UniProt (G1T040) Pfam (PF00935) | Oryctolagus cuniculus (Rabbit) | |
| 41 | OA (p) | Ribosomal protein L37a | polymer | 91 | 10168.2 | 1 | UniProt (G1SY53) Pfam (PF01780) | Oryctolagus cuniculus (Rabbit) | |
| 42 | PA (r) | eL28 | polymer | 136 | 15652.4 | 1 | UniProt (G1U7L1) Pfam (PF01778) | Oryctolagus cuniculus (Rabbit) | |
| 43 | QA (s) | 60S acidic ribosomal protein P0 | polymer | 198 | 21747.3 | 1 | UniProt (G1U6N2) | Oryctolagus cuniculus (Rabbit) | |
| 44 | RA (t) | Ribosomal protein L12 | polymer | 163 | 17689.5 | 1 | UniProt (G1SMR7) Pfam (PF03946) Pfam (PF00298) | Oryctolagus cuniculus (Rabbit) | |
| 45 | SA (u) | 28S rRNA | polymer | 3662 | 1186579.5 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 46 | TA (v) | 5S ribosomal RNA | polymer | 120 | 38691.9 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 47 | UA (w) | 5.8S ribosomal RNA | polymer | 156 | 50143.6 | 1 | Oryctolagus cuniculus (Rabbit) | ||
| 48 | VA (x) | Protein transport protein Sec61 subunit alpha isoform 1 | polymer | 426 | 47239.7 | 1 | UniProt (P38377) Pfam (PF10559) Pfam (PF00344) | Canis lupus familiaris (Dog) | Sec61 alpha-1 |
| 49 | WA (y) | Protein transport protein Sec61 subunit gamma | polymer | 62 | 7019.5 | 1 | UniProt (P60058) Pfam (PF00584) | Canis lupus familiaris (Dog) | |
| 50 | XA (z) | Protein transport protein Sec61 subunit beta | polymer | 29 | 3265.0 | 1 | UniProt (P60467) Pfam (PF03911) | Canis lupus familiaris (Dog) | |
| 51 | YA (1) | Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 1,RPN1 | polymer | 162 | 17642.6 | 1 | UniProt (E2RQ08) | Canis lupus familiaris (Dog) | Ribophorin I,RPN-I,Ribophorin-1 |
| 52 | ZA (2) | TMEM258 | polymer | 60 | 5124.3 | 1 | Canis lupus familiaris (Dog) | ||
| 53 | AB (3) | Oligosaccharyltransferase complex subunit OSTC | polymer | 120 | 13375.9 | 1 | UniProt (P86218) Pfam (PF04756) | Canis lupus familiaris (Dog) | |
| 54 | BB (4) | OST4 | polymer | 34 | 3809.6 | 1 | Canis lupus familiaris (Dog) | ||
| 55 | CB (5) | Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit STT3A | polymer | 696 | 79642.3 | 1 | UniProt (F1PJP5) Pfam (PF02516) Pfam (PF22627) | Canis lupus familiaris (Dog) | STT3-A |
| 56 | DB (6) | DAD1 | polymer | 97 | 8273.2 | 1 | Canis lupus familiaris (Dog) | ||
| 57 | EB (7) | OST48 | polymer | 25 | 2145.6 | 1 | Canis lupus familiaris (Dog) | ||
| 58 | FB (8) | RPN2 | polymer | 80 | 6826.4 | 1 | Canis lupus familiaris (Dog) | ||
| 59 | GB (K) | alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 1397.2 | 1 | In PDB GlyTouCan (G83582BK) | |||
| 60 | AC, AD, AE, AF, AG... (u, B, I, v, P...) | MAGNESIUM ION | non-polymer | 24.3 | 159 | Chemie (MG) | |||
| 61 | NB, PB, QB, RB, SB (g, j, m, o, p) | ZINC ION | non-polymer | 65.4 | 5 | Chemie (ZN) | |||
| 62 | PH (5) | [(2~{S},3~{R},4~{R},5~{S},6~{R})-3-acetamido-6-(hydroxymethyl)-4,5-bis(oxidanyl)oxan-2-yl]methyl-[oxidanyl-[(2~{Z},6~{Z},10~{Z})-3,7,11,15-tetramethylhexadeca-2,6,10,14-tetraenoxy]phosphoryl]oxy-phosphinic acid | non-polymer | 651.7 | 1 | Chemie (9UB) |
Sequence modifications
C: 2 - 363 (UniProt: G1SVW5)
F: 26 - 250 (UniProt: G1SV32)
G: 26 - 266 (UniProt: G1STW0)
P: 2 - 154 (UniProt: G1TVT6)
U: 17 - 115 (UniProt: G1TSG1)
x: 5 - 465 (UniProt: P38377)
1: 438 - 573 (UniProt: E2RQ08)
1: 582 - 607 (PDB: 6FTJ)
5: 1 - 696 (UniProt: F1PJP5)
| PDB | External Database | Details |
|---|---|---|
| Lys 362 | Ser 376 | conflict |
| Ser 363 | Asp 377 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Ala 175 | Thr 174 | conflict |
| Gly 185 | Asn 184 | conflict |
| Arg 202 | His 201 | conflict |
| Glu 233 | Gly 232 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Gly 191 | Cys 167 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Gln 54 | Lys 57 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Gly 32 | Arg 32 | conflict |
| Ala 36 | Glu 36 | conflict |
| Phe 39 | Ser 39 | conflict |
| Gly 54 | Arg 54 | conflict |
| Val 60 | Ala 60 | conflict |
| Arg 97 | His 97 | conflict |
| PDB | External Database | Details |
|---|---|---|
| - | Thr 134 | deletion |
| - | Gly 135 | deletion |
| - | Met 136 | deletion |
| - | Tyr 137 | deletion |
| - | Gly 138 | deletion |
| - | Asp 139 | deletion |
| - | Pro 140 | deletion |
| - | Ser 141 | deletion |
| - | Glu 142 | deletion |
| - | Met 143 | deletion |
| - | Gly 144 | deletion |
| Ser 145 | Ala 145 | conflict |
| - | Ser 313 | deletion |
| - | Gly 314 | deletion |
| - | Asn 315 | deletion |
| - | Leu 316 | deletion |
| - | Leu 317 | deletion |
| - | Val 318 | deletion |
| - | Ser 319 | deletion |
| - | Leu 320 | deletion |
| - | Leu 321 | deletion |
| - | Gly 322 | deletion |
| - | Thr 323 | deletion |
| - | Trp 324 | deletion |
| - | Ser 325 | deletion |
| - | Asp 326 | deletion |
| - | Thr 327 | deletion |
| - | Ser 328 | deletion |
| - | Ser 329 | deletion |
| - | Gly 330 | deletion |
| - | Gly 331 | deletion |
| - | Pro 332 | deletion |
| - | Ala 333 | deletion |
| - | Arg 334 | deletion |
| - | Ala 335 | deletion |
| - | Tyr 336 | deletion |
1: 582 - 607 (PDB: 6FTJ)
5: 1 - 696 (UniProt: F1PJP5)
| PDB | External Database | Details |
|---|---|---|
| Leu 88 | Ile 88 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 58 |
| Total formula weight | 2257335.3 | |
| Branched | Number of molecules | 1 |
| Total formula weight | 1397.2 | |
| Non-Polymers* | Number of molecules | 165 |
| Total formula weight | 4843.2 | |
| All* | Total formula weight | 2263575.7 |
