Structure of PDB 5dkk Chain A Binding Site BS01

Receptor Information

>5dkk Chain A (length=134) Species: 2850 (Phaeodactylum tricornutum)

FSFIKALQTAQQNFVVTDPSLPDNPIVYASQGFLNLTGYSLDQILGRNCR
FLQGPETDPKAVERIRKAIEQGNDMSVCLLNYRVDGTTFWNQFFIAALRD
AGGNVTNFVGVQCKVSDQYAATVTKQQEEEEEAA

Ligand information

• Ligand ID: FMN
• InChI: InChI=1S/C17H21N4O9P/c1-7-3-9-10(4-8(7)2)21(15-13(18-9)16(25)20-17(26)19-15)5-11(22)14(24)12(23)6-30-31(27,28)29/h3-4,11-12,14,22-24H,5-6H2,1-2H3,(H,20,25,26)(H2,27,28,29)/t11-,12+,14-/m0/s1
• InChIKey: FVTCRASFADXXNN-SCRDCRAPSA-N
• SMILES:
  OpenEye OEToolkits 1.7.6: Cc1cc2c(cc1C)N(C3=NC(=O)NC(=O)C3=N2)CC(C(C(COP(=O)(O)O)O)O)O
  OpenEye OEToolkits 1.7.6: Cc1cc2c(cc1C)N(C3=NC(=O)NC(=O)C3=N2)C[C@@H]([C@@H]([C@@H](COP(=O)(O)O)O)O)O
  ACDLabs 12.01: N=2C(=O)NC(=O)C3=Nc1cc(C)c(C)cc1N(C=23)CC(O)C(O)C(O)COP(=O)(O)O
  CACTVS 3.385: Cc1cc2N=C3C(=O)NC(=O)N=C3N(C[CH](O)[CH](O)[CH](O)CO[P](O)(O)=O)c2cc1C
  CACTVS 3.385: Cc1cc2N=C3C(=O)NC(=O)N=C3N(C[C@H](O)[C@H](O)[C@H](O)CO[P](O)(O)=O)c2cc1C
• Formula: C17 H21 N4 O9 P
• Name: FLAVIN MONONUCLEOTIDE;
  RIBOFLAVIN MONOPHOSPHATE
• ChEMBL: CHEMBL1201794
• DrugBank: DB03247
• ZINC: ZINC000003831425
• PDB chain: 5dkk Chain A Residue 401

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5dkk Blue light-induced LOV domain dimerization enhances the affinity of Aureochrome 1a for its target DNA sequence.
• Resolution: 2.5 Å
• Binding residue (original residue number in PDB): T255 N286 C287 R288 L290 Q291 R304 I307 N319 F331 I333 F346 G348 Q350
• Binding residue (residue number reindexed from 1): T17 N48 C49 R50 L52 Q53 R66 I69 N81 F93 I95 F108 G110 Q112
• Annotation score: 4

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding

Cellular Component

• GO:0005634 nucleus

External links

• PDB: RCSB:5dkk, PDBe:5dkk, PDBj:5dkk
• PDBsum: 5dkk
• PubMed: 26754770
• UniProt: B7G9J2