6UTK
Crystal structure of 438-B11 Fab in complex with an uncleaved prefusion optimized (UFO) soluble BG505 trimer and Fab 35O22 at 3.80 Angstrom
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (D) | 35O22 Fab Heavy Chain | polymer | 243 | 26171.5 | 1 | Homo sapiens (Human) | ||
| 2 | B (E) | 35O22 Fab Light Chain | polymer | 216 | 23318.8 | 1 | Homo sapiens (Human) | ||
| 3 | C (L) | B11 Fab Light Chain | polymer | 213 | 23212.7 | 1 | Homo sapiens (Human) | ||
| 4 | D (G) | Envelope glycoprotein gp120 | polymer | 485 | 53737.6 | 1 | UniProt (Q2N0S6) Pfam (PF00516) | Human immunodeficiency virus 1 (HIV-1) | |
| 5 | E (T) | Envelope glycoprotein gp41 | polymer | 140 | 15702.7 | 1 | UniProt (Q2N0S9) Pfam (PF00517) | Human immunodeficiency virus 1 (HIV-1) | |
| 6 | F (H) | B11 Fab Heavy chain | polymer | 233 | 25029.4 | 1 | Homo sapiens (Human) | ||
| 7 | G, K, Q, R, U (A, I, P, Q, U) | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 5 | In PDB GlyTouCan (G15407YE) | |||
| 8 | H (B) | alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 1721.5 | 1 | In PDB GlyTouCan (G15494PG) | |||
| 9 | I, J, P (C, F, O) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 3 | In PDB GlyTouCan (G42666HT) | |||
| 10 | L, N (J, M) | 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 | 748.7 | 2 | In PDB GlyTouCan (G81315DD) | |||
| 11 | M (K) | alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-6)]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 | 1883.7 | 1 | In PDB GlyTouCan (G60230HH) | |||
| 12 | O (N) | alpha-D-mannopyranose-(1-3)-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 | 1073.0 | 1 | In PDB GlyTouCan (G09724ZC) | |||
| 13 | S (R) | 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 | 1 | In PDB GlyTouCan (G55220VL) | |||
| 14 | T (S) | 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) | |||
| 15 | V (V) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 1 | In PDB GlyTouCan (G79924RM) | |||
| 16 | AA, BA, CA, DA, W... (G, T) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 8 | Chemie (NAG) |
Sequence modifications
G: 31 - 506 (UniProt: Q2N0S6)
T: 512 - 547 (UniProt: Q2N0S9)
T: 569 - 664 (UniProt: Q2N0S9)
| PDB | External Database | Details |
|---|---|---|
| Asp 62 | Glu 61 | conflict |
| Asn 332 | Thr 330 | conflict |
| Cys 501 | Ala 498 | conflict |
| Gly 507 | - | expression tag |
| Gly 508 | - | expression tag |
| Gly 509 | - | expression tag |
| Gly 510 | - | expression tag |
| Gly 511 | - | expression tag |
| Ser 512 | - | expression tag |
| Gly 513 | - | expression tag |
| Gly 514 | - | expression tag |
| Gly 515 | - | expression tag |
| Gly 516 | - | expression tag |
| Ser 517 | - | expression tag |
T: 569 - 664 (UniProt: Q2N0S9)
| PDB | External Database | Details |
|---|---|---|
| Asn 547 | - | linker |
| Pro 547 | - | linker |
| Asp 547 | - | linker |
| Trp 547 | - | linker |
| Leu 547 | - | linker |
| Pro 547 | - | linker |
| Asp 547 | - | linker |
| Met 547 | - | linker |
| Cys 605 | Thr 604 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 6 |
| Total formula weight | 167172.8 | |
| Branched | Number of molecules | 16 |
| Total formula weight | 12951.8 | |
| Non-Polymers* | Number of molecules | 8 |
| Total formula weight | 1769.7 | |
| All* | Total formula weight | 181894.3 |
