Structure of PDB 5jyg Chain N Binding Site BS01

Receptor Information
>5jyg Chain N (length=328) Species: 342108 (Paramagnetospirillum magneticum AMB-1) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
LGIDLGTSHTAVMSSRGKKFLLKSVVGYPKDVIGLKLLGRPYVVGDEAFE
MRSYLDIRYPLQDGVLSEISDRDIEVARHLLTHVVKSAEPGPNDEICAVI
GVPARASAANKALLLKMAQEVVHTALVVSEPFMVGYGLDKLINTIIVDIG
AGTTDICALKGTVPGPEDQVTLTKAGNYVDERLQNAILERHPELQMNVNV
ACAVKEQFSFVGTPTEVASFEFRAAGKPVRADVTEPVKIACEALMPDIIE
SIETLLRSFQPEYQATVLQNIVFAGGGSRIRGLAAYVKEKLRPFGDANVT
CVKDPTFDGCRGALRLAEELPPQYWRQL
Ligand information
Ligand IDADP
InChIInChI=1S/C10H15N5O10P2/c11-8-5-9(13-2-12-8)15(3-14-5)10-7(17)6(16)4(24-10)1-23-27(21,22)25-26(18,19)20/h2-4,6-7,10,16-17H,1H2,(H,21,22)(H2,11,12,13)(H2,18,19,20)/t4-,6-,7-,10-/m1/s1
InChIKeyXTWYTFMLZFPYCI-KQYNXXCUSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@](=O)(O)OP(=O)(O)O)O)O)N
CACTVS 3.341Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(O)=O)[CH](O)[CH]3O
ACDLabs 10.04O=P(O)(O)OP(=O)(O)OCC3OC(n2cnc1c(ncnc12)N)C(O)C3O
CACTVS 3.341Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P@@](O)(=O)O[P](O)(O)=O)[C@@H](O)[C@H]3O
OpenEye OEToolkits 1.5.0c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=O)(O)O)O)O)N
FormulaC10 H15 N5 O10 P2
NameADENOSINE-5'-DIPHOSPHATE
ChEMBLCHEMBL14830
DrugBankDB16833
ZINCZINC000012360703
PDB chain5jyg Chain N Residue 402 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB5jyg Structure of the magnetosome-associated actin-like MamK filament at subnanometer resolution.
Resolution6.5 Å
Binding residue
(original residue number in PDB)		G19 T20 S21 G163 A164 K218 E219 S222 R292
Binding residue
(residue number reindexed from 1)		G6 T7 S8 G150 A151 K205 E206 S209 R279
Annotation score5
Enzymatic activity
Enzyme Commision number 3.6.1.-
Gene Ontology
Molecular Function
GO:0005524 ATP binding
GO:0005525 GTP binding
GO:0016787 hydrolase activity
GO:0016887 ATP hydrolysis activity
GO:0046872 metal ion binding
Biological Process
GO:0140923 magnetosome assembly
Cellular Component
GO:0005737 cytoplasm
GO:0005856 cytoskeleton
GO:0016020 membrane
GO:0110143 magnetosome
GO:0110146 magnetosome membrane

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Molecular Function
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Biological Process
View graph for
Cellular Component
External links
PDB RCSB:5jyg, PDBe:5jyg, PDBj:5jyg
PDBsum5jyg
PubMed27391173
UniProtQ2W8Q6|MAMK_PARM1 Actin-like protein MamK (Gene Name=mamK)

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