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 80 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 7d5s:3C (4.6) BS01 rna 2.1.1.- GO:0000451 ... P15646 N/A
    2 7d5s:3D (4.6) BS01 rna ? GO:0000154 ... Q12460 N/A
    3 7d5s:3D (4.6) BS02 rna ? GO:0000154 ... Q12460 N/A
    4 7d5s:3E (4.6) BS01 rna ? GO:0000447 ... Q12499 N/A
    5 7d5s:3E (4.6) BS02 rna ? GO:0000447 ... Q12499 N/A
    6 7d5s:3F (4.6) BS01 rna ? GO:0000447 ... Q06506 N/A
    7 7d5s:3G (4.6) BS01 rna ? GO:0000245 ... P39990 N/A
    8 7d5s:3H (4.6) BS01 rna ? GO:0000245 ... P39990 N/A
    9 7d5s:5B (4.6) BS01 rna ? GO:0000447 ... Q08492 N/A
    10 7d5s:5C (4.6) BS01 rna ? GO:0000447 ... P40055 N/A
    11 7d5s:5C (4.6) BS02 rna ? GO:0000447 ... P40055 N/A
    12 7d5s:5C (4.6) BS03 rna ? GO:0000447 ... P40055 N/A
    13 7d5s:5D (4.6) BS01 rna ? GO:0000447 ... P34247 N/A
    14 7d5s:5D (4.6) BS02 rna ? GO:0000447 ... P34247 N/A
    15 7d5s:5D (4.6) BS03 rna ? GO:0000447 ... P34247 N/A
    16 7d5s:5E (4.6) BS01 rna ? GO:0000447 ... P47083 N/A
    17 7d5s:5F (4.6) BS01 rna ? GO:0003723 ... P32899 N/A
    18 7d5s:5F (4.6) BS02 rna ? GO:0003723 ... P32899 N/A
    19 7d5s:5G (4.6) BS01 rna ? GO:0005515 ... P53941 N/A
    20 7d5s:5G (4.6) BS02 rna ? GO:0005515 ... P53941 N/A
    21 7d5s:5H (4.6) BS01 rna ? GO:0000447 ... Q12136 N/A
    22 7d5s:5I (4.6) BS01 rna ? GO:0000462 ... P33750 N/A
    23 7d5s:5I (4.6) BS02 rna ? GO:0000462 ... P33750 N/A
    24 7d5s:5I (4.6) BS03 rna ? GO:0000462 ... P33750 N/A
    25 7d5s:5J (4.6) BS01 rna ? GO:0000447 ... Q12035 N/A
    26 7d5s:5J (4.6) BS02 rna ? GO:0000447 ... Q12035 N/A
    27 7d5s:5K (4.6) BS01 rna ? GO:0000447 ... Q05498 N/A
    28 7d5s:5K (4.6) BS02 rna ? GO:0000447 ... Q05498 N/A
    29 7d5s:5K (4.6) BS03 rna ? GO:0000447 ... Q05498 N/A
    30 7d5s:5K (4.6) BS04 ZN ? GO:0000447 ... Q05498 N/A
    31 7d5s:A4 (4.6) BS01 rna ? GO:0000462 ... Q06679 N/A
    32 7d5s:A5 (4.6) BS01 rna ? GO:0000462 ... Q04177 N/A
    33 7d5s:A9 (4.6) BS01 rna ? GO:0000049 ... P38882 N/A
    34 7d5s:AE (4.6) BS01 rna ? GO:0000447 ... P42945 N/A
    35 7d5s:AE (4.6) BS02 rna ? GO:0000447 ... P42945 N/A
    36 7d5s:AF (4.6) BS01 rna ? GO:0000462 ... Q04305 N/A
    37 7d5s:AF (4.6) BS02 rna ? GO:0000462 ... Q04305 N/A
    38 7d5s:AG (4.6) BS01 rna ? GO:0000462 ... Q02931 N/A
    39 7d5s:AG (4.6) BS02 rna ? GO:0000462 ... Q02931 N/A
    40 7d5s:B1 (4.6) BS01 rna ? GO:0000028 ... P25635 N/A
    41 7d5s:B1 (4.6) BS02 rna ? GO:0000028 ... P25635 N/A
    42 7d5s:B1 (4.6) BS03 rna ? GO:0000028 ... P25635 N/A
    43 7d5s:B2 (4.6) BS01 rna ? GO:0000447 ... Q12220 N/A
    44 7d5s:B3 (4.6) BS01 rna ? GO:0000447 ... Q05946 N/A
    45 7d5s:B6 (4.6) BS01 rna ? GO:0000447 ... Q02354 N/A
    46 7d5s:B8 (4.6) BS01 rna ? GO:0000292 ... P40362 N/A
    47 7d5s:B8 (4.6) BS02 rna ? GO:0000292 ... P40362 N/A
    48 7d5s:BE (4.6) BS01 rna ? GO:0003674 ... Q06078 N/A
    49 7d5s:BE (4.6) BS02 rna ? GO:0003674 ... Q06078 N/A
    50 7d5s:RC (4.6) BS01 rna ? GO:0000447 ... P25586 N/A
    51 7d5s:RD (4.6) BS01 rna ? GO:0000447 ... Q05022 N/A
    52 7d5s:RE (4.6) BS01 rna ? GO:0000028 ... P53254 N/A
    53 7d5s:RG (4.6) BS01 rna 2.1.1.260 GO:0000447 ... Q06287 N/A
    54 7d5s:RH (4.6) BS01 rna 2.1.1.260 GO:0000447 ... Q06287 N/A
    55 7d5s:RI (4.6) BS01 rna ? GO:0000462 ... P36144 N/A
    56 7d5s:RI (4.6) BS02 rna ? GO:0000462 ... P36144 N/A
    57 7d5s:RJ (4.6) BS01 rna ? GO:0000462 ... Q08965 N/A
    58 7d5s:RJ (4.6) BS02 rna ? GO:0000462 ... Q08965 N/A
    59 7d5s:RJ (4.6) BS03 rna ? GO:0000462 ... Q08965 N/A
    60 7d5s:RJ (4.6) BS04 GTP ? GO:0000462 ... Q08965 N/A
    61 7d5s:RJ (4.6) BS05 MG ? GO:0000462 ... Q08965 N/A
    62 7d5s:RK (4.6) BS01 rna ? GO:0000447 ... Q08096 N/A
    63 7d5s:RN (4.6) BS01 rna ? GO:0000028 ... Q99207 N/A
    64 7d5s:RN (4.6) BS02 rna ? GO:0000028 ... Q99207 N/A
    65 7d5s:RO (4.6) BS01 rna ? GO:0000028 ... Q06512 N/A
    66 7d5s:RQ (4.6) BS01 rna ? GO:0000447 ... Q04500 N/A
    67 7d5s:RQ (4.6) BS02 rna ? GO:0000447 ... Q04500 N/A
    68 7d5s:RS (4.6) BS01 rna ? GO:0000447 ... P38333 N/A
    69 7d5s:RT (4.6) BS01 rna N/A GO:0003723 ... N/A N/A
    70 7d5s:RW (4.6) BS01 rna ? GO:0003674 ... P40470 N/A
    71 7d5s:SG (4.6) BS01 rna ? GO:0000028 ... P26783 N/A
    72 7d5s:SK (4.6) BS01 rna ? GO:0000462 ... O13516 N/A
    73 7d5s:SN (4.6) BS01 rna ? GO:0000028 ... P48589 N/A
    74 7d5s:SO (4.6) BS01 rna ? GO:0000462 ... P05756 N/A
    75 7d5s:SP (4.6) BS01 rna ? GO:0000028 ... P06367 N/A
    76 7d5s:SR (4.6) BS01 rna ? GO:0000462 ... P0CX51 N/A
    77 7d5s:SR (4.6) BS02 rna ? GO:0000462 ... P0CX51 N/A
    78 7d5s:ST (4.6) BS01 rna ? GO:0000054 ... P0CX55 N/A
    79 7d5s:SY (4.6) BS01 rna ? GO:0000462 ... P0CX29 N/A
    80 7d5s:Sd (4.6) BS01 rna ? GO:0000028 ... Q3E7X9 N/A
    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