7UR6
Cryo-EM structure of SHIV-elicited, FP-directed Rhesus Fab RM6561.DH1021.14 in complex with stabilized HIV-1 Env Ce1176 DS-SOSIP.664
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | G, A, F | gp120 | polymer | 477 | 53648.9 | 3 | UniProt (C6G0D7) Pfam (PF00516) In PDB | Human immunodeficiency virus 1 | Env polyprotein |
| 2 | B, C, I | gp41 | polymer | 153 | 17240.5 | 3 | UniProt (C6G0E7) Pfam (PF00517) In PDB | Human immunodeficiency virus 1 | Env polyprotein |
| 3 | H, D, J | Heavy Chain | polymer | 130 | 14505.5 | 3 | Macaca mulatta | ||
| 4 | L, E, K | Light Chain | polymer | 110 | 11679.9 | 3 | Macaca mulatta | ||
| 5 | a, b, 1, f, g... | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 27 | In PDB GlyTouCan (G42666HT) | |||
| 6 | 0, c, m, O, q... | 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 | 6 | In PDB GlyTouCan (G22768VO) | |||
| 7 | d, P, r | alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]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-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 1559.4 | 3 | In PDB GlyTouCan (G83161QT) | |||
| 8 | e, Q, s | 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 | 3 | In PDB GlyTouCan (G56014GC) | |||
| 9 | l, X, z | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 3 | In PDB GlyTouCan (G15407YE) | |||
| 10 | A, C, G, F, B... | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 42 | Chemie (NAG) |
Sequence modifications
G, A, F: 33 - 508 (UniProt: C6G0D7)
B, C, I: 512 - 664 (UniProt: C6G0E7)
| PDB | External Database | Details |
|---|---|---|
| Gly 29 | - | expression tag |
| Pro 30 | - | expression tag |
| Ala 31 | - | expression tag |
| Glu 32 | - | expression tag |
| Asn 130 | Thr 129 | conflict |
| Cys 201 | Ile 196 | conflict |
| Thr 202 | Ala 197 | conflict |
| Ile 204 | Ala 199 | conflict |
| Val 286 | Ile 281 | conflict |
| Leu 288 | Phe 283 | conflict |
| Met 302 | Asn 297 | conflict |
| Leu 320 | Thr 313 | conflict |
| Pro 329 | Ala 323 | conflict |
| Ile 333 | Val 327 | conflict |
| Cys 433 | Ala 424 | conflict |
| Asn 448 | Thr 439 | conflict |
| Ser 481 | Asn 472 | conflict |
| Cys 501 | Ala 492 | conflict |
| Arg 509 | - | expression tag |
| Arg 510 | - | expression tag |
| Arg 511 | - | expression tag |
| Arg 512 | - | expression tag |
| Arg 513 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Asn 535 | Ile 526 | conflict |
| Pro 559 | Ile 550 | conflict |
| Gly 569 | Thr 560 | conflict |
| Phe 573 | Ile 564 | conflict |
| Glu 588 | Lys 579 | conflict |
| Val 589 | Asp 580 | conflict |
| Cys 605 | Thr 596 | conflict |
| Thr 613 | Ser 604 | conflict |
| Thr 618 | Ser 609 | conflict |
| Gly 636 | Asp 627 | conflict |
| Phe 651 | Ile 642 | conflict |
| Ile 655 | Lys 646 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 12 |
| Total formula weight | 291224.2 | |
| Branched | Number of molecules | 42 |
| Total formula weight | 26580.4 | |
| Non-Polymers* | Number of molecules | 42 |
| Total formula weight | 9290.7 | |
| All* | Total formula weight | 327095.4 |
