2NVU
Structure of APPBP1-UBA3~NEDD8-NEDD8-MgATP-Ubc12(C111A), a trapped ubiquitin-like protein activation complex
Entity
Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
1 | A | NEDD8-activating enzyme E1 regulatory subunit | polymer | 536 | 60459.2 | 1 | UniProt (Q13564) Pfam (PF00899) In PDB | Homo sapiens (human) | Amyloid protein-binding protein 1, Amyloid beta precursor protein-binding protein 1, 59 kDa, APP-BP1, Protooncogene protein 1, HPP1 |
2 | B | Maltose binding protein/NEDD8-activating enzyme E1 catalytic subunit chimera | polymer | 805 | 89332.8 | 1 | UniProt (Q8TBC4) Pfam (PF00899) Pfam (PF08825) In PDB | Homo sapiens (human) | MBP, Ubiquitin-activating enzyme 3, NEDD8-activating enzyme E1C, Ubiquitin-activating enzyme E1C |
3 | C | NEDD8-conjugating enzyme Ubc12 | polymer | 180 | 20665.7 | 1 | UniProt (P61081) Pfam (PF00179) In PDB | Homo sapiens (human) | Ubiquitin-conjugating enzyme E2 M, NEDD8 protein ligase, NEDD8 carrier protein |
4 | I, J | NEDD8 | polymer | 81 | 8919.3 | 2 | UniProt (Q15843) Pfam (PF00240) In PDB | Homo sapiens (human) | Ubiquitin-like protein Nedd8, Neddylin |
5 | B | MAGNESIUM ION | non-polymer | 24.3 | 1 | Chemie (MG) | |||
6 | B | ZINC ION | non-polymer | 65.4 | 1 | Chemie (ZN) | |||
7 | B | ADENOSINE-5'-TRIPHOSPHATE | non-polymer | 507.2 | 1 | Chemie (ATP) | |||
8 | water | water | 18.0 | 45 | Chemie (HOH) |
Sequence modifications
A: 1 - 534 (UniProt: Q13564)
B: 2012 - 2442 (UniProt: Q8TBC4)
C: 1 - 178 (UniProt: P61081)
I, J: 1 - 76 (UniProt: Q15843)
PDB | External Database | Details |
---|---|---|
Gly -1 | - | cloning artifact |
Ser 0 | - | cloning artifact |
PDB | External Database | Details |
---|---|---|
Met 998 | - | SEE REMARK 999 |
Lys 999 | - | SEE REMARK 999 |
Leu 1000 | - | SEE REMARK 999 |
Met 1001 | - | SEE REMARK 999 |
Ala 1371 | - | SEE REMARK 999 |
PDB | External Database | Details |
---|---|---|
Gly -1 | - | cloning artifact |
Ser 0 | - | cloning artifact |
- | Ser 16 | deletion |
- | Ala 17 | deletion |
- | Gly 18 | deletion |
- | Gly 19 | deletion |
- | Thr 20 | deletion |
Ala 111 | Cys 111 | engineered mutation |
PDB | External Database | Details |
---|---|---|
Gly -4 | - | cloning artifact |
Ser -3 | - | cloning artifact |
Gly -2 | - | cloning artifact |
Gly -1 | - | cloning artifact |
Ser 0 | - | cloning artifact |
Sequence viewer
Contents of the asymmetric unit
Polymers | Number of chains | 5 |
Total formula weight | 188296.2 | |
Non-Polymers* | Number of molecules | 3 |
Total formula weight | 596.9 | |
All* | Total formula weight | 188893.1 |