Structure of PDB 3u11 Chain B Binding Site BS01

Receptor Information

>3u11 Chain B (length=202) Species: 9606 (Homo sapiens)

DSSRRQYQEKYKQVEQYMSFHKLPPDTRQRIHDYYEHRYQGKMFDEESIL
GELSEPLREEIINFNCRKLVASMPLFANADPNFVTSMLTKLRFEVFQPGD
YIIREGTIGKKMYFIQHGVVSVLTKGNKETKLADGSYFGEICLLTRGRRT
ASVRADTYCRLYSLSVDNFNEVLEEYPMMRRAFETVALDRLDRIGKKNSI
LL

Ligand information

• Ligand ID: CMP
• InChI: InChI=1S/C10H12N5O6P/c11-8-5-9(13-2-12-8)15(3-14-5)10-6(16)7-4(20-10)1-19-22(17,18)21-7/h2-4,6-7,10,16H,1H2,(H,17,18)(H2,11,12,13)/t4-,6-,7-,10-/m1/s1
• InChIKey: IVOMOUWHDPKRLL-KQYNXXCUSA-N
• SMILES:
  OpenEye OEToolkits 1.5.0: c1nc(c2c(n1)n(cn2)C3C(C4C(O3)COP(=O)(O4)O)O)N
  ACDLabs 10.04: O=P3(OCC4OC(n1c2ncnc(N)c2nc1)C(O)C4O3)O
  OpenEye OEToolkits 1.5.0: c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@H]4[C@H](O3)CO[P@](=O)(O4)O)O)N
  CACTVS 3.341: Nc1ncnc2n(cnc12)[CH]3O[CH]4CO[P](O)(=O)O[CH]4[CH]3O
  CACTVS 3.341: Nc1ncnc2n(cnc12)[C@@H]3O[C@@H]4CO[P@](O)(=O)O[C@H]4[C@H]3O
• Formula: C10 H12 N5 O6 P
• Name: ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE;
  CYCLIC AMP;
  CAMP
• ChEMBL: CHEMBL316966
• DrugBank: DB02527
• ZINC: ZINC000003873977
• PDB chain: 3u11 Chain B Residue 846

Receptor-Ligand Complex Structure

Structure summary

• PDB: 3u11 Tetramerization dynamics of C-terminal domain underlies isoform-specific cAMP gating in hyperpolarization-activated cyclic nucleotide-gated channels.
• Resolution: 2.5 Å
• Binding residue (original residue number in PDB): V642 F658 G659 E660 I661 C662 R669 T670 R710 I714
• Binding residue (residue number reindexed from 1): V122 F138 G139 E140 I141 C142 R149 T150 R190 I194
• Annotation score: 4
• Binding affinity: Manual survey: Kd=39.2nM (22006928)

External links

• PDB: RCSB:3u11, PDBe:3u11, PDBj:3u11
• PDBsum: 3u11
• PubMed: 22006928
• UniProt: Q9Y3Q4|HCN4_HUMAN Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 (Gene Name=HCN4)