7LY3
Crystal structure of SARS-CoV-2 S NTD bound to S2M28 Fab
Entity
Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
1 | A, B | Spike protein S1 | polymer | 335 | 37705.7 | 2 | UniProt (P0DTC2) Pfam (PF16451) In PDB | Severe acute respiratory syndrome coronavirus 2 (2019-nCoV SARS-CoV-2) | |
2 | D, F | S2M28 Fab Heavy Chain | polymer | 221 | 23778.6 | 2 | Homo sapiens (Human) | ||
3 | C, E | S2M28 Fab Light Chain | polymer | 212 | 22620.0 | 2 | Homo sapiens (Human) | ||
4 | G, I, M | 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 | 732.7 | 3 | In PDB GlyTouCan (G32152BH) | |||
5 | H, J, N, O | alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 367.3 | 4 | In PDB GlyTouCan (G86851RC) | |||
6 | K, L | alpha-D-mannopyranose-(1-6)-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 | 894.8 | 2 | In PDB GlyTouCan (G00395TQ) | |||
7 | A, B | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 5 | Chemie (NAG) | |||
8 | A, B | UNKNOWN ATOM OR ION | non-polymer | 35.5 | 2 | Chemie (UNX) | |||
9 | A, B | Xylitol | non-polymer | 152.1 | 2 | Chemie (XYL) | |||
10 | D, F | SULFATE ION | non-polymer | 96.1 | 2 | Chemie (SO4) |
Sequence modifications
A, B: 14 - 307 (UniProt: P0DTC2)
PDB | External Database | Details |
---|---|---|
Met -18 | - | initiating methionine |
Gly -17 | - | expression tag |
Ile -16 | - | expression tag |
Leu -15 | - | expression tag |
Pro -14 | - | expression tag |
Ser -13 | - | expression tag |
Pro -12 | - | expression tag |
Gly -11 | - | expression tag |
Met -10 | - | expression tag |
Pro -9 | - | expression tag |
Ala -8 | - | expression tag |
Leu -7 | - | expression tag |
Leu -6 | - | expression tag |
Ser -5 | - | expression tag |
Leu -4 | - | expression tag |
Val -3 | - | expression tag |
Ser -2 | - | expression tag |
Leu -1 | - | expression tag |
Leu 0 | - | expression tag |
Ser 1 | - | expression tag |
Val 2 | - | expression tag |
Leu 3 | - | expression tag |
Leu 4 | - | expression tag |
Met 5 | - | expression tag |
Gly 6 | - | expression tag |
Cys 7 | - | expression tag |
Val 8 | - | expression tag |
Ala 9 | - | expression tag |
Glu 10 | - | expression tag |
Thr 11 | - | expression tag |
Gly 12 | - | expression tag |
Thr 13 | - | expression tag |
Ala 303 | Leu 303 | conflict |
Ala 308 | - | expression tag |
His 309 | - | expression tag |
His 310 | - | expression tag |
His 311 | - | expression tag |
His 312 | - | expression tag |
His 313 | - | expression tag |
His 314 | - | expression tag |
His 315 | - | expression tag |
His 316 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
Polymers | Number of chains | 6 |
Total formula weight | 168208.6 | |
Branched | Number of molecules | 9 |
Total formula weight | 5457.1 | |
Non-Polymers* | Number of molecules | 11 |
Total formula weight | 1673.4 | |
All* | Total formula weight | 175339.0 |