9B4X
SARS CoV-2 full-length spike protein with Lys1269Ala and His1271Ala substitutions in the coatomer binding motif, 1RBD-up conformation (SPIKE-AXA)
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, B, C (A, B, C) | Spike glycoprotein | polymer | 1312 | 144726.9 | 3 | UniProt (P0DTC2) Pfam (PF16451) Pfam (PF09408) Pfam (PF19209) Pfam (PF01601) | Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2 2019-nCoV COVID-19 virus) | S glycoprotein,E2,Peplomer protein |
| 2 | AA, BA, D, E, EA... (a, b, D, E, e...) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 12 | In PDB GlyTouCan (G42666HT) | |||
| 3 | CA, DA, FA, G, GA... (c, d, f, G, g...) | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 16 | In PDB GlyTouCan (G15407YE) | |||
| 4 | O (O) | alpha-D-mannopyranose-(1-3)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 1098.0 | 1 | In PDB | |||
| 5 | U (U) | 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 | 748.7 | 1 | In PDB GlyTouCan (G22573RC) | |||
| 6 | HA, W (h, W) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 570.5 | 2 | In PDB GlyTouCan (G21290RB) | |||
| 7 | JA (j) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(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 | 951.9 | 1 | In PDB GlyTouCan (G10133VD) | |||
| 8 | AB, BB, KA, LA, MA... (C, A, B) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 18 | Chemie (NAG) |
Sequence modifications
A, B, C: -38 - 1273 (UniProt: P0DTC2)
| PDB | External Database | Details |
|---|---|---|
| Ser -20 | - | insertion |
| Ala -19 | - | insertion |
| Trp -18 | - | insertion |
| Ser -17 | - | insertion |
| His -16 | - | insertion |
| Pro -15 | - | insertion |
| Gln -14 | - | insertion |
| Phe -13 | - | insertion |
| Glu -12 | - | insertion |
| Lys -11 | - | insertion |
| Gly -10 | - | insertion |
| Gly -9 | - | insertion |
| Gly -8 | - | insertion |
| Ser -7 | - | insertion |
| Gly -6 | - | insertion |
| Gly -5 | - | insertion |
| Gly -4 | - | insertion |
| Ser -3 | - | insertion |
| Gly -2 | - | insertion |
| Gly -1 | - | insertion |
| Ser 0 | - | insertion |
| Ser 1 | - | insertion |
| Ala 2 | - | insertion |
| Trp 3 | - | insertion |
| Ser 4 | - | insertion |
| His 5 | - | insertion |
| Pro 6 | - | insertion |
| Gln 7 | - | insertion |
| Phe 8 | - | insertion |
| Glu 9 | - | insertion |
| Lys 10 | - | insertion |
| Ser 11 | - | insertion |
| Ala 12 | - | insertion |
| Leu 13 | - | insertion |
| Val 14 | - | insertion |
| Pro 15 | - | insertion |
| Arg 16 | - | insertion |
| Gly 17 | - | insertion |
| Ser 18 | - | insertion |
| Gly 614 | Asp 614 | variant |
| Gly 682 | Arg 682 | engineered mutation |
| Ser 683 | Arg 683 | engineered mutation |
| Ser 685 | Arg 685 | engineered mutation |
| Pro 986 | Lys 986 | engineered mutation |
| Pro 987 | Val 987 | engineered mutation |
| Ala 1269 | Lys 1269 | engineered mutation |
| Ala 1271 | His 1271 | engineered mutation |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 3 |
| Total formula weight | 434180.6 | |
| Branched | Number of molecules | 33 |
| Total formula weight | 18417.1 | |
| Non-Polymers* | Number of molecules | 18 |
| Total formula weight | 3981.7 | |
| All* | Total formula weight | 456579.5 |
