Structure of PDB 2qtz Chain A Binding Site BS02

Receptor Information

>2qtz Chain A (length=447) Species: 9606 (Homo sapiens)

SNVVIEDFESSLTRSVPPLSQASLNIPGLPPEYLQVHLQESPVFQVPISK
AVQLTTNDAIKTTLLVELDISNTDFSYQPGDAFSVICPNSDSEVQSLLQR
LQLEDKREHCVLLKIKADTKKKGATLPQHIPAGCSLQFIFTWCLEIRAIP
KKAFLRALVDYTSDSAEKRRLQELCSKQGAADYSRFVRDACACLLDLLLA
FPSCQPPLSLLLEHLPKLQPRPYSCASSSLFHPGKLHFVFNIVEFLSTAT
TEVLRKGVCTGWLALLVASVLAPKISIFPRTTNSFHLPDDPSIPIIMVGP
GTGIAPFIGFLQHREKLQEQHPDGNFGAMWLFFGCRHKDRDYLFRKELRH
FLKHGILTHLKVSFSRDAPPAKYVQDNIQLHGQQVARILLQENGHIYVCG
DAKNMAKDVHDALVQIISKEVGVEKLEAMKTLATLKEEKRYLQDIWS

Ligand information

• Ligand ID: NAP
• InChI: InChI=1S/C21H28N7O17P3/c22-17-12-19(25-7-24-17)28(8-26-12)21-16(44-46(33,34)35)14(30)11(43-21)6-41-48(38,39)45-47(36,37)40-5-10-13(29)15(31)20(42-10)27-3-1-2-9(4-27)18(23)32/h1-4,7-8,10-11,13-16,20-21,29-31H,5-6H2,(H7-,22,23,24,25,32,33,34,35,36,37,38,39)/t10-,11-,13-,14-,15-,16-,20-,21-/m1/s1
• InChIKey: XJLXINKUBYWONI-NNYOXOHSSA-N
• SMILES:
  OpenEye OEToolkits 1.5.0: c1cc(c[n+](c1)C2C(C(C(O2)COP(=O)([O-])OP(=O)(O)OCC3C(C(C(O3)n4cnc5c4ncnc5N)OP(=O)(O)O)O)O)O)C(=O)N
  CACTVS 3.341: NC(=O)c1ccc[n+](c1)[CH]2O[CH](CO[P]([O-])(=O)O[P](O)(=O)OC[CH]3O[CH]([CH](O[P](O)(O)=O)[CH]3O)n4cnc5c(N)ncnc45)[CH](O)[CH]2O
  CACTVS 3.341: NC(=O)c1ccc[n+](c1)[C@@H]2O[C@H](CO[P]([O-])(=O)O[P@@](O)(=O)OC[C@H]3O[C@H]([C@H](O[P](O)(O)=O)[C@@H]3O)n4cnc5c(N)ncnc45)[C@@H](O)[C@H]2O
  OpenEye OEToolkits 1.5.0: c1cc(c[n+](c1)[C@H]2[C@@H]([C@@H]([C@H](O2)CO[P@@](=O)([O-])O[P@](=O)(O)OC[C@@H]3[C@H]([C@H]([C@@H](O3)n4cnc5c4ncnc5N)OP(=O)(O)O)O)O)O)C(=O)N
• Formula: C21 H28 N7 O17 P3
• Name: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE;
  2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE
• ChEMBL: CHEMBL295069
• DrugBank: DB03461
• PDB chain: 2qtz Chain A Residue 701

Receptor-Ligand Complex Structure

Structure summary

• PDB: 2qtz Mechanism of Coenzyme Binding to Human Methionine Synthase Reductase Revealed through the Crystal Structure of the FNR-like Module and Isothermal Titration Calorimetry
• Resolution: 1.9 Å
• Binding residue (original residue number in PDB): K291 C580 R581 S610 R611 Y624 Q626 D652 M656 D659
• Binding residue (residue number reindexed from 1): K61 C335 R336 S365 R366 Y373 Q375 D401 M405 D408
• Annotation score: 4
• Binding affinity: MOAD: Kd=35.1uM

Enzymatic activity

• Catalytic site (original residue number in PDB): Y453 S454 C650 D695 W697
• Catalytic site (residue number reindexed from 1): Y223 S224 C399 D444 W446
• Enzyme Commision number: 1.16.1.8: [methionine synthase] reductase.

Gene Ontology

Molecular Function

• GO:0016491 oxidoreductase activity

External links

• PDB: RCSB:2qtz, PDBe:2qtz, PDBj:2qtz
• PDBsum: 2qtz
• PubMed: 17892308
• UniProt: Q9UBK8|MTRR_HUMAN Methionine synthase reductase (Gene Name=MTRR)