Home Research COVID-19 Services Publications People Teaching Job Opening News Forum --> -->
Online Services

●I-TASSER ●I-TASSER-MTD ●C-I-TASSER ●CR-I-TASSER ●QUARK ●C-QUARK ●LOMETS ●MUSTER ●CEthreader ●SEGMER ●DeepFold ●DeepFoldRNA ●FoldDesign ●COFACTOR ●COACH ●MetaGO ●TripletGO ●IonCom ●FG-MD ●ModRefiner ●REMO ●DEMO ●DEMO-EM ●DMFold ●SPRING ●COTH ●Threpp ●PEPPI ●BSpred ●ANGLOR ●EDock ●BSP-SLIM ●SAXSTER ●FUpred ●ThreaDom ●ThreaDomEx ●EvoDesign ●BindProf ●BindProfX ●SSIPe ●GPCR-I-TASSER ●MAGELLAN ●ResQ ●STRUM ●DAMpred

●TM-score ●TM-align ●US-align ●MM-align ●RNA-align ●NW-align ●LS-align ●EDTSurf ●MVP ●MVP-Fit ●SPICKER ●HAAD ●PSSpred ●3DRobot ●MR-REX ●I-TASSER-MR ●SVMSEQ ●NeBcon ●ResPRE ●TripletRes ●DeepPotential ●WDL-RF ●ATPbind ●DockRMSD ●DeepMSA ●FASPR ●EM-Refiner ●GPU-I-TASSER

●BioLiP ●E. coli ●GLASS ●GPCR-HGmod ●GPCR-RD ●GPCR-EXP ●Tara-3D ●TM-fold ●DECOYS ●POTENTIAL ●RW/RWplus ●EvoEF ●HPSF ●THE-DB ●ADDRESS ●Alpaca-Antibody ●CASP7 ●CASP8 ●CASP9 ●CASP10 ●CASP11 ●CASP12 ●CASP13 ●CASP14

BioLiP
Download all results in tab-seperated text for 19 receptor-ligand interactions, whose format is explained at readme.txt.
  • Hover over PDB to view the title of the structure. Click PDB to view the structure at the RCSB PDB database. Resolution -1.00 means the resolution is unavailable, e.g., for NMR structures.
  • Click Site # to view the binding site structure. Hover over Site # to view the binding residues.
  • Hover over Ligand to view the full ligand name. Click Ligand to view the 2D diagram and other detail information of the ligand.
  • Hover over EC number to view the full name of enzymatic activity.
  • Hover over GO terms to view all GO terms.
  • Hover over UniProt to view the protein name.

    • Sort results by
    << < 1 > >>
    Go to page

    # PDB
    (Resolution Å)     		Site # Ligand EC number GO terms UniProt PubMed Binding
    affinity
    1 1db1:A (1.8) BS01 VDX ? GO:0003677 ... P11473 10678179 MOAD: Kd=0.55nM
    PDBbind: -logKd/Ki=9.26, Kd=0.55nM
    BindingDB: EC50=10nM, IC50=1.1nM, Kd=0.065nM
    2 1ie9:A (1.4) BS01 VDX ? GO:0003677 ... P11473 11344298 PDBbind: -logKd/Ki=10.19, Kd=0.065nM
    BindingDB: EC50=10nM, IC50=1.1nM, Kd=0.065nM
    3 1rk3:A (2.2) BS02 VDX ? GO:0003677 ... P13053 15065852 MOAD: Kd=0.37nM
    BindingDB: Ki=0.1nM, EC50=0.2nM
    4 2hc4:A (2.2) BS02 VDX ? GO:0003677 ... Q9PTN2 17218092 BindingDB: Kd=1200nM, EC50=5.5nM
    5 2zbz:A (1.9) BS02 VDX 1.14.15.22 GO:0004497 ... P18326 18314962
    6 2zlc:A (2.0) BS02 VDX ? GO:0003677 ... P13053 18539034 BindingDB: Ki=0.1nM, EC50=0.2nM
    7 3cv9:A (1.7) BS02 VDX 1.14.15.22 GO:0004497 ... P18326 18937506
    8 3m7r:A (1.8) BS01 VDX ? GO:0003677 ... P11473 20403435 BindingDB: EC50=10nM, IC50=1.1nM, Kd=0.065nM
    9 3vt3:A (1.7) BS02 VDX ? GO:0003677 ... P13053 23944708 BindingDB: Ki=0.1nM, EC50=0.2nM
    10 3vt7:A (1.65) BS02 VDX ? GO:0003677 ... P13053 23944708 BindingDB: Ki=0.1nM, EC50=0.2nM
    11 4ruj:A (2.352) BS02 VDX ? GO:0003677 ... Q9PTN2 25620699 BindingDB: Kd=1200nM, EC50=5.5nM
    12 5h1e:A (2.6) BS02 VDX ? GO:0003677 ... P13053 27890450 BindingDB: Ki=0.1nM, EC50=0.2nM
    13 6xzh:A (2.372) BS02 VDX ? GO:0003677 ... Q9PTN2 32935897 BindingDB: Kd=1200nM, EC50=5.5nM
    14 6xzi:A (2.1) BS02 VDX ? GO:0003677 ... Q9PTN2 32935897 BindingDB: Kd=1200nM, EC50=5.5nM
    15 6xzj:A (2.1) BS02 VDX ? GO:0003677 ... Q9PTN2 32935897 BindingDB: Kd=1200nM, EC50=5.5nM
    16 6xzk:A (2.0) BS02 VDX ? GO:0003677 ... Q9PTN2 32935897 BindingDB: Kd=1200nM, EC50=5.5nM
    17 6xzv:A (2.3) BS02 VDX ? GO:0003677 ... Q9PTN2 32935897 BindingDB: Kd=1200nM, EC50=5.5nM
    18 7qpi:A (2.5) BS02 VDX ? N/A S4R4S2 35302785
    19 7qpp:A (1.52) BS01 VDX ? GO:0003677 ... P11473 35302785
    Reference:
  • Chengxin Zhang, Xi Zhang, Peter L Freddolino, and Yang Zhang. BioLiP2: an updated structure database for biologically relevent ligand-protein interactions, Nucleic Acids Research, gkad630 (2023).
  • Jianyi Yang, Ambrish Roy, and Yang Zhang. BioLiP: a semi-manually curated database for biologically relevant ligand-protein interactions, Nucleic Acids Research, 41: D1096-D1103 (2013) (download the PDF file).

    • yangzhanglabumich.edu | (734) 647-1549 | 100 Washtenaw Avenue, Ann Arbor, MI 48109-2218