8PIE
Crystal structure of the human nucleoside diphosphate kinase B domain in complex with the product AT-8500 formed by catalysis of compound AT-9010
Entity
Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
1 | A, B, C, D, E... | Nucleoside diphosphate kinase B | polymer | 171 | 19547.2 | 6 | UniProt (P22392) Pfam (PF00334) In PDB | Homo sapiens (human) | NDK B,NDP kinase B,C-myc purine-binding transcription factor PUF,Histidine protein kinase NDKB,nm23-H2 |
2 | A, B, C, D, E... | [(2~{R},3~{R},4~{R},5~{R})-5-(2-azanyl-6-oxidanylidene-1~{H}-purin-9-yl)-4-fluoranyl-4-methyl-3-oxidanyl-oxolan-2-yl]methyl phosphono hydrogen phosphate | non-polymer | 459.2 | 6 | Chemie (7QT) | |||
3 | A | GLYCEROL | non-polymer | 92.1 | 1 | Chemie (GOL) | |||
4 | water | water | 18.0 | 402 | Chemie (HOH) |
Sequence modifications
A, B, C, D, E, F: 6 - 156 (UniProt: P22392)
PDB | External Database | Details |
---|---|---|
Met -14 | - | initiating methionine |
Gly -13 | - | expression tag |
Ser -12 | - | expression tag |
Ser -11 | - | expression tag |
His -10 | - | expression tag |
His -9 | - | expression tag |
His -8 | - | expression tag |
His -7 | - | expression tag |
His -6 | - | expression tag |
His -5 | - | expression tag |
Ser -4 | - | expression tag |
Ser -3 | - | expression tag |
Gly -2 | - | expression tag |
Glu -1 | - | expression tag |
Asn 0 | - | expression tag |
Leu 1 | - | expression tag |
Tyr 2 | - | expression tag |
Phe 3 | - | expression tag |
Gln 4 | - | expression tag |
Gly 5 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
Polymers | Number of chains | 6 |
Total formula weight | 117283.4 | |
Non-Polymers* | Number of molecules | 7 |
Total formula weight | 2847.4 | |
All* | Total formula weight | 120130.8 |