8PKO
The ERAD misfolded glycoprotein checkpoint complex from Chaetomium thermophilum (EDEM:PDI heterodimer).
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A | Green fluorescent protein,alpha-1,2-Mannosidase | polymer | 1284 | 142162.8 | 1 | UniProt (P42212) UniProt (G0SCX7) Pfam (PF01353) Pfam (PF01532) In PDB | Thermochaetoides thermophila | |
| 2 | B | Protein disulfide-isomerase | polymer | 507 | 55841.4 | 1 | UniProt (G0SGS2) Pfam (PF00085) Pfam (PF13848) In PDB | Thermochaetoides thermophila | |
| 3 | C, E | 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 | 910.8 | 2 | In PDB GlyTouCan (G22768VO) | |||
| 4 | D | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 1 | In PDB GlyTouCan (G42666HT) | |||
| 5 | A | CALCIUM ION | non-polymer | 40.1 | 1 | Chemie (CA) | |||
| 6 | A | THIOSULFATE | non-polymer | 112.1 | 1 | Chemie (THJ) | |||
| 7 | A, B | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 2 | Chemie (NAG) | |||
| 8 | A | alpha-D-mannopyranose | non-polymer | 180.2 | 1 | Chemie (MAN) | |||
| 9 | water | water | 18.0 | 3 | Chemie (HOH) |
Sequence modifications
A: -177 - 55 (UniProt: P42212)
A: null - 1092 (UniProt: G0SCX7)
B: 21 - 515 (UniProt: G0SGS2)
| PDB | External Database | Details |
|---|---|---|
| Met -182 | - | initiating methionine |
| Val -181 | - | expression tag |
| Ser -180 | - | expression tag |
| Lys -179 | - | expression tag |
| Gly -178 | - | expression tag |
| Leu -119 | Phe 64 | conflict |
| Thr -118 | Ser 65 | conflict |
| Leu 48 | His 231 | conflict |
| Leu 56 | - | linker |
| Glu 57 | - | linker |
| Val 58 | - | linker |
| Leu 59 | - | linker |
| Phe 60 | - | linker |
| Gln 61 | - | linker |
| Gly 62 | - | linker |
| PDB | External Database | Details |
|---|---|---|
| Gly 1093 | - | expression tag |
| Thr 1094 | - | expression tag |
| Lys 1095 | - | expression tag |
| His 1096 | - | expression tag |
| His 1097 | - | expression tag |
| His 1098 | - | expression tag |
| His 1099 | - | expression tag |
| His 1100 | - | expression tag |
| His 1101 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Glu 18 | - | expression tag |
| Thr 19 | - | expression tag |
| Gly 20 | - | expression tag |
| Gly 516 | - | expression tag |
| Thr 517 | - | expression tag |
| Lys 518 | - | expression tag |
| His 519 | - | expression tag |
| His 520 | - | expression tag |
| His 521 | - | expression tag |
| His 522 | - | expression tag |
| His 523 | - | expression tag |
| His 524 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 2 |
| Total formula weight | 198004.2 | |
| Branched | Number of molecules | 3 |
| Total formula weight | 2246.0 | |
| Non-Polymers* | Number of molecules | 5 |
| Total formula weight | 774.8 | |
| All* | Total formula weight | 201025.0 |
