Structure of PDB 5zfk Chain A Binding Site BS01

Receptor Information

>5zfk Chain A (length=354) Species: 1140 (Synechococcus elongatus PCC 7942 = FACHB-805)

TAHRFLFVSTPVGPLGSGRGGGVELTLPNLAKALTQRGHQVSVLAPAGSV
LPDLPLETVPGTWQSTAQSHGRATPAEIPAESVLARLWDRAHQQQADFDL
ILNFAYDWLPLYLTPFFKTPVAHLISMGSLSEVMDQAIATSLDRYPGSIA
VHSLAQAATFPFGDRCLCIGNALDLAAYGFNPEPEPVLGWVGRIAPEKGL
EDAIQAAQQAGLPLRVWGALTEPDYWQRLQQQFGDRAVSYQGFVSTDELQ
RGLGRCQGLLMTPKWVEAFGNVAIEALACGLPVIAYARGGPLEIIEQGKS
GWLVEPDQQAALVNAIGQLSSLDRAYCRAQAEARFSLAAMGQRLEAWLLP
LLSR

Ligand information

• Ligand ID: UDP
• InChI: InChI=1S/C9H14N2O12P2/c12-5-1-2-11(9(15)10-5)8-7(14)6(13)4(22-8)3-21-25(19,20)23-24(16,17)18/h1-2,4,6-8,13-14H,3H2,(H,19,20)(H,10,12,15)(H2,16,17,18)/t4-,6-,7-,8-/m1/s1
• InChIKey: XCCTYIAWTASOJW-XVFCMESISA-N
• SMILES:
  OpenEye OEToolkits 1.7.0: C1=CN(C(=O)NC1=O)[C@H]2[C@@H]([C@@H]([C@H](O2)CO[P@@](=O)(O)OP(=O)(O)O)O)O
  CACTVS 3.370: O[CH]1[CH](O)[CH](O[CH]1CO[P](O)(=O)O[P](O)(O)=O)N2C=CC(=O)NC2=O
  CACTVS 3.370: O[C@H]1[C@@H](O)[C@@H](O[C@@H]1CO[P](O)(=O)O[P](O)(O)=O)N2C=CC(=O)NC2=O
  OpenEye OEToolkits 1.7.0: C1=CN(C(=O)NC1=O)C2C(C(C(O2)COP(=O)(O)OP(=O)(O)O)O)O
  ACDLabs 12.01: O=P(O)(O)OP(=O)(O)OCC2OC(N1C(=O)NC(=O)C=C1)C(O)C2O
• Formula: C9 H14 N2 O12 P2
• Name: URIDINE-5'-DIPHOSPHATE
• ChEMBL: CHEMBL130266
• DrugBank: DB03435
• ZINC: ZINC000004490939
• PDB chain: 5zfk Chain A Residue 401

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5zfk UDP Glucose alpha tetrahydrobiopterin glycosyltransferase from Synechococcus species PCC 7942 - apo form
• Resolution: 1.75 Å
• Binding residue (original residue number in PDB): G22 G23 L26 V192 R194 K199 F244 V245 N272 V273 E276
• Binding residue (residue number reindexed from 1): G21 G22 L25 V191 R193 K198 F243 V244 N271 V272 E275
• Annotation score: 4

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0016757 glycosyltransferase activity

External links

• PDB: RCSB:5zfk, PDBe:5zfk, PDBj:5zfk
• PDBsum: 5zfk
• UniProt: Q31LX1