6TYB
Isolation and Structure of an Antibody that Fully Neutralizes Isolate SIVmac239 Reveals Functional Similarity of SIV and HIV Glycan Shields
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | G | Envelope glycoprotein gp160 | polymer | 358 | 41117.3 | 1 | UniProt (E7CWP5) Pfam (PF00516) In PDB | Simian immunodeficiency virus (SIV) | |
| 2 | C | T-cell surface glycoprotein CD4 | polymer | 187 | 20582.3 | 1 | UniProt (F6XGD3) Pfam (PF00047) Pfam (PF05790) UniProt (by SIFTS) (P16003) In PDB | Macaca mulatta (Rhesus macaque) | |
| 3 | H | NEUTRALIZING ANTIBODY ITS90.03 FAB HEAVY CHAIN | polymer | 238 | 25868.8 | 1 | Macaca mulatta (Rhesus) | ||
| 4 | L | NEUTRALIZING ANTIBODY ITS90.03 FAB LIGHT CHAIN | polymer | 214 | 23490.1 | 1 | Macaca mulatta (Rhesus) | ||
| 5 | A, F, I | alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)-[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 | 1235.1 | 3 | In PDB GlyTouCan (G55220VL) | |||
| 6 | B | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 1 | In PDB GlyTouCan (G42666HT) | |||
| 7 | D | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 1 | In PDB GlyTouCan (G15407YE) | |||
| 8 | E | 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 | 1235.1 | 1 | In PDB GlyTouCan (G07617FP) | |||
| 9 | J, K | alpha-D-mannopyranose-(1-2)-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 | 1073.0 | 2 | In PDB GlyTouCan (G56014GC) | |||
| 10 | M | 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 | 1 | In PDB GlyTouCan (G22768VO) | |||
| 11 | G | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 2 | Chemie (NAG) | |||
| 12 | water | water | 18.0 | 397 | Chemie (HOH) |
Sequence modifications
G: 44 - 123 (UniProt: E7CWP5)
G: 199 - 299 (UniProt: E7CWP5)
G: 324 - 493 (UniProt: E7CWP5)
C: 1 - 178 (UniProt: F6XGD3)
G: 199 - 299 (UniProt: E7CWP5)
| PDB | External Database | Details |
|---|---|---|
| Gly 196 | - | linker |
| Ser 197 | - | linker |
| Gly 198 | - | linker |
| PDB | External Database | Details |
|---|---|---|
| Gly 300 | - | linker |
| Gly 301 | - | linker |
| Ser 302 | - | linker |
| Gly 320 | - | linker |
| Gly 321 | - | linker |
| Ser 322 | - | linker |
| Gly 323 | - | linker |
| Gly 494 | - | expression tag |
| Leu 495 | - | expression tag |
| Glu 496 | - | expression tag |
| Val 497 | - | expression tag |
| Leu 498 | - | expression tag |
| Phe 499 | - | expression tag |
| Gln 500 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Gln 66 | Cys 91 | conflict |
| Gly 179 | - | expression tag |
| Ser 180 | - | expression tag |
| Gly 181 | - | expression tag |
| Leu 182 | - | expression tag |
| Glu 183 | - | expression tag |
| Val 184 | - | expression tag |
| Leu 185 | - | expression tag |
| Phe 186 | - | expression tag |
| Gln 187 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 4 |
| Total formula weight | 111058.5 | |
| Branched | Number of molecules | 9 |
| Total formula weight | 9008.1 | |
| Non-Polymers* | Number of molecules | 2 |
| Total formula weight | 442.4 | |
| All* | Total formula weight | 120509.0 |
