9JMM
Cryo-EM structure of the SE-PangolinCoV (MjHKU4r-CoV-1) RBD in complex with human DPP4
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, B (A, C) | Dipeptidyl peptidase 4 soluble form | polymer | 758 | 87763.6 | 2 | UniProt (P27487) Pfam (PF00930) Pfam (PF00326) | Homo sapiens (human) | Dipeptidyl peptidase IV soluble form |
| 2 | C (B) | Spike glycoprotein,Isoform 1 of Immunoglobulin heavy constant gamma 1 | polymer | 505 | 56018.5 | 1 | UniProt (A0AAE8ZFM2) UniProt (P01857) Pfam (PF07654) | Pangolin coronavirus HKU4/P251T/pangolin/2018 | S glycoprotein,E2,Peplomer protein,Ig gamma-1 chain C region,Ig gamma-1 chain C region EU,Ig gamma-1 chain C region KOL,Ig gamma-1 chain C region NIE |
| 3 | D (D) | alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 910.8 | 1 | In PDB GlyTouCan (G42227JK) | |||
| 4 | E, F, G, H, I... (E, F, G, H, I...) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 7 | In PDB GlyTouCan (G42666HT) | |||
| 5 | L, M, N, O, P... (A, C) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 8 | Chemie (NAG) |
Sequence modifications
A, C: 39 - 766 (UniProt: P27487)
B: 375 - 614 (UniProt: A0AAE8ZFM2)
B: 629 - 860 (UniProt: P01857)
| PDB | External Database | Details |
|---|---|---|
| Met 15 | - | initiating methionine |
| Pro 16 | - | expression tag |
| Met 17 | - | expression tag |
| Gly 18 | - | expression tag |
| Ser 19 | - | expression tag |
| Leu 20 | - | expression tag |
| Gln 21 | - | expression tag |
| Pro 22 | - | expression tag |
| Leu 23 | - | expression tag |
| Ala 24 | - | expression tag |
| Thr 25 | - | expression tag |
| Leu 26 | - | expression tag |
| Tyr 27 | - | expression tag |
| Leu 28 | - | expression tag |
| Leu 29 | - | expression tag |
| Gly 30 | - | expression tag |
| Met 31 | - | expression tag |
| Leu 32 | - | expression tag |
| Val 33 | - | expression tag |
| Ala 34 | - | expression tag |
| Ser 35 | - | expression tag |
| Val 36 | - | expression tag |
| Leu 37 | - | expression tag |
| Ala 38 | - | expression tag |
| His 767 | - | expression tag |
| His 768 | - | expression tag |
| His 769 | - | expression tag |
| His 770 | - | expression tag |
| His 771 | - | expression tag |
| His 772 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Met 356 | - | initiating methionine |
| Thr 357 | - | expression tag |
| Cys 358 | - | expression tag |
| Leu 359 | - | expression tag |
| Thr 360 | - | expression tag |
| Cys 361 | - | expression tag |
| Leu 362 | - | expression tag |
| Leu 363 | - | expression tag |
| Met 364 | - | expression tag |
| Phe 365 | - | expression tag |
| Leu 366 | - | expression tag |
| Leu 367 | - | expression tag |
| Met 368 | - | expression tag |
| Phe 369 | - | expression tag |
| Val 370 | - | expression tag |
| Lys 371 | - | expression tag |
| Asp 372 | - | expression tag |
| Cys 373 | - | expression tag |
| Asp 374 | - | expression tag |
| Ala 482 | Ser 482 | conflict |
| Glu 544 | Val 544 | conflict |
| Asp 615 | - | linker |
| Pro 616 | - | linker |
| Leu 617 | - | linker |
| Val 618 | - | linker |
| Pro 619 | - | linker |
| Arg 620 | - | linker |
| Gly 621 | - | linker |
| Ser 622 | - | linker |
| Gly 623 | - | linker |
| Gly 624 | - | linker |
| Gly 625 | - | linker |
| Gly 626 | - | linker |
| Asp 627 | - | linker |
| Pro 628 | - | linker |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 3 |
| Total formula weight | 231545.6 | |
| Branched | Number of molecules | 8 |
| Total formula weight | 3881.6 | |
| Non-Polymers* | Number of molecules | 8 |
| Total formula weight | 1769.7 | |
| All* | Total formula weight | 237196.9 |
