6YJV
Crystal structure of unliganded MGAT5 (alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase V) luminal domain with a Lys329-Ile345 loop truncation, in complex with UDP-2-deoxy-2-fluoroglucose and biantennary pentasaccharide M592
This is a non-PDB format compatible entry.
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, B (AAA, BBB) | Alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase A | polymer | 515 | 58996.9 | 2 | UniProt (Q09328) Pfam (PF15024) | Homo sapiens (Human) | Alpha-mannoside beta-1,6-N-acetylglucosaminyltransferase V,GlcNAc-T V,GNT-V,Mannoside acetylglucosaminyltransferase 5,N-acetylglucosaminyl-transferase V |
| 2 | C (A) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]alpha-D-mannopyranose | branched | 707.6 | 1 | In PDB GlyTouCan (G75407YI) | |||
| 3 | D (B) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose | branched | 383.3 | 1 | In PDB GlyTouCan (G85856KC) | |||
| 4 | E, J (AAA, BBB) | 1,2-ETHANEDIOL | non-polymer | 62.1 | 2 | Chemie (EDO) | |||
| 5 | F, K (AAA, BBB) | URIDINE-5'-DIPHOSPHATE-2-DEOXY-2-FLUORO-ALPHA-D-GLUCOSE | non-polymer | 568.3 | 2 | Chemie (U2F) | |||
| 6 | G, H, I, L, M... (AAA, BBB) | SULFATE ION | non-polymer | 96.1 | 6 | Chemie (SO4) | |||
| 7 | O, P (AAA, BBB) | water | water | 18.0 | 509 | Chemie (HOH) |
Sequence modifications
AAA, BBB: 214 - 728 (UniProt: Q09328)
| PDB | External Database | Details |
|---|---|---|
| - | Lys 329 | deletion |
| - | Lys 330 | deletion |
| - | Val 331 | deletion |
| - | Val 332 | deletion |
| - | Gly 333 | deletion |
| - | Asn 334 | deletion |
| - | Arg 335 | deletion |
| - | Ser 336 | deletion |
| - | Gly 337 | deletion |
| - | Cys 338 | deletion |
| - | Pro 339 | deletion |
| - | Thr 340 | deletion |
| - | Val 341 | deletion |
| Gly 330 | Asp 343 | conflict |
| Gly 331 | Arg 344 | conflict |
| Gly 332 | Ile 345 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 2 |
| Total formula weight | 117993.8 | |
| Branched | Number of molecules | 2 |
| Total formula weight | 1091.0 | |
| Non-Polymers* | Number of molecules | 10 |
| Total formula weight | 1837.1 | |
| All* | Total formula weight | 120921.9 |
