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●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 594392 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.

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    # PDB
    (Resolution Å)     		Site # Ligand EC number GO terms UniProt PubMed Binding
    affinity
    90601 3j9x:z (3.8) BS02 dna ? GO:0003677 ... Q8V9P2 25999507
    90602 3j9y:0 (3.9) BS01 rna ? GO:0000027 ... P0A7N4 25870267
    90603 3j9y:1 (3.9) BS01 rna ? GO:0000027 ... P0A7N9 25870267
    90604 3j9y:2 (3.9) BS01 rna ? GO:0002181 ... P0A7P5 25870267
    90605 3j9y:3 (3.9) BS01 rna ? GO:0002181 ... P0A7Q1 25870267
    90606 3j9y:4 (3.9) BS01 rna ? GO:0002181 ... P0A7Q6 25870267
    90607 3j9y:5 (3.9) BS01 rna ? GO:0002181 ... P0A7J3 25870267
    90608 3j9y:6 (3.9) BS01 rna ? GO:0002181 ... P0A7M9 25870267
    90609 3j9y:C (3.9) BS01 rna ? GO:0000027 ... P60422 25870267
    90610 3j9y:D (3.9) BS01 rna ? GO:0000027 ... P60438 25870267
    90611 3j9y:E (3.9) BS01 rna ? GO:0001070 ... P60723 25870267
    90612 3j9y:F (3.9) BS01 rna ? GO:0000027 ... P62399 25870267
    90613 3j9y:F (3.9) BS02 rna ? GO:0000027 ... P62399 25870267
    90614 3j9y:F (3.9) BS03 rna ? GO:0000027 ... P62399 25870267
    90615 3j9y:G (3.9) BS01 rna ? GO:0000027 ... P0AG55 25870267
    90616 3j9y:H (3.9) BS01 rna ? GO:0002181 ... P0A7R1 25870267
    90617 3j9y:I (3.9) BS01 rna ? GO:0000027 ... P0A7J7 25870267
    90618 3j9y:J (3.9) BS01 rna ? GO:0002181 ... P0AA10 25870267
    90619 3j9y:K (3.9) BS01 rna ? GO:0002181 ... P0ADY3 25870267
    90620 3j9y:K (3.9) BS02 rna ? GO:0002181 ... P0ADY3 25870267
    90621 3j9y:L (3.9) BS01 rna ? GO:0002181 ... P02413 25870267
    90622 3j9y:M (3.9) BS01 rna ? GO:0000027 ... P0ADY7 25870267
    90623 3j9y:M (3.9) BS02 rna ? GO:0000027 ... P0ADY7 25870267
    90624 3j9y:N (3.9) BS01 rna ? GO:0000027 ... P0AG44 25870267
    90625 3j9y:O (3.9) BS01 rna ? GO:0002181 ... P0C018 25870267
    90626 3j9y:O (3.9) BS02 rna ? GO:0002181 ... P0C018 25870267
    90627 3j9y:P (3.9) BS01 rna ? GO:0000027 ... P0A7K6 25870267
    90628 3j9y:P (3.9) BS02 rna ? GO:0000027 ... P0A7K6 25870267
    90629 3j9y:Q (3.9) BS01 rna ? GO:0000027 ... P0A7L3 25870267
    90630 3j9y:R (3.9) BS01 rna ? GO:0002181 ... P0AG48 25870267
    90631 3j9y:S (3.9) BS01 rna ? GO:0002181 ... P61175 25870267
    90632 3j9y:T (3.9) BS01 rna ? GO:0000027 ... P0ADZ0 25870267
    90633 3j9y:U (3.9) BS01 rna ? GO:0000027 ... P60624 25870267
    90634 3j9y:V (3.9) BS01 rna ? GO:0000027 ... P68919 25870267
    90635 3j9y:W (3.9) BS01 rna ? GO:0000027 ... P0A7L8 25870267
    90636 3j9y:W (3.9) BS02 rna ? GO:0000027 ... P0A7L8 25870267
    90637 3j9y:X (3.9) BS01 rna ? GO:0000027 ... P0A7M2 25870267
    90638 3j9y:Y (3.9) BS01 rna ? GO:0000027 ... P0A7M6 25870267
    90639 3j9y:Z (3.9) BS01 rna ? GO:0000027 ... P0AG51 25870267
    90640 3j9y:Z (3.9) BS02 rna ? GO:0000027 ... P0AG51 25870267
    90641 3j9y:b (3.9) BS01 rna ? GO:0000028 ... P0A7V0 25870267
    90642 3j9y:c (3.9) BS01 rna ? GO:0000028 ... P0A7V3 25870267
    90643 3j9y:d (3.9) BS01 rna ? GO:0000028 ... P0A7V8 25870267
    90644 3j9y:e (3.9) BS01 rna ? GO:0000028 ... P0A7W1 25870267
    90645 3j9y:f (3.9) BS01 rna ? GO:0002181 ... P02358 25870267
    90646 3j9y:g (3.9) BS01 rna ? GO:0000028 ... P02359 25870267
    90647 3j9y:h (3.9) BS01 rna ? GO:0000028 ... P0A7W7 25870267
    90648 3j9y:i (3.9) BS01 rna ? GO:0000049 ... P0A7X3 25870267
    90649 3j9y:i (3.9) BS02 rna ? GO:0000049 ... P0A7X3 25870267
    90650 3j9y:j (3.9) BS01 rna ? GO:0000049 ... P0A7R5 25870267
    90651 3j9y:k (3.9) BS01 rna ? GO:0002181 ... P0A7R9 25870267
    90652 3j9y:l (3.9) BS01 rna ? GO:0000049 ... P0A7S3 25870267
    90653 3j9y:m (3.9) BS01 rna ? GO:0000049 ... P0A7S9 25870267
    90654 3j9y:n (3.9) BS01 rna ? GO:0003735 ... P0AG59 25870267
    90655 3j9y:o (3.9) BS01 rna ? GO:0000028 ... P0ADZ4 25870267
    90656 3j9y:o (3.9) BS02 rna ? GO:0000028 ... P0ADZ4 25870267
    90657 3j9y:p (3.9) BS01 rna ? GO:0000028 ... P0A7T3 25870267
    90658 3j9y:q (3.9) BS01 rna ? GO:0000028 ... P0AG63 25870267
    90659 3j9y:r (3.9) BS01 rna ? GO:0002181 ... P0A7T7 25870267
    90660 3j9y:s (3.9) BS01 rna ? GO:0000028 ... P0A7U3 25870267
    90661 3j9y:t (3.9) BS01 rna ? GO:0000028 ... P0A7U7 25870267
    90662 3j9y:u (3.9) BS01 rna ? GO:0000028 ... P68679 25870267
    90663 3j9z:L1 (3.6) BS01 rna ? GO:0000027 ... P0A7N4 26229983
    90664 3j9z:L2 (3.6) BS01 rna ? GO:0000027 ... P0A7N9 26229983
    90665 3j9z:L3 (3.6) BS01 rna ? GO:0002181 ... P0A7P5 26229983
    90666 3j9z:L4 (3.6) BS01 rna ? GO:0002181 ... P0A7Q1 26229983
    90667 3j9z:L5 (3.6) BS01 rna ? GO:0002181 ... P0A7Q6 26229983
    90668 3j9z:L6 (3.6) BS01 rna ? GO:0001070 ... P60723 26229983
    90669 3j9z:L7 (3.6) BS01 rna ? GO:0000027 ... P62399 26229983
    90670 3j9z:L7 (3.6) BS02 rna ? GO:0000027 ... P62399 26229983
    90671 3j9z:L7 (3.6) BS03 rna ? GO:0000027 ... P62399 26229983
    90672 3j9z:L8 (3.6) BS01 rna ? GO:0000027 ... P0AG55 26229983
    90673 3j9z:L9 (3.6) BS01 rna ? GO:0002181 ... P0A7R1 26229983
    90674 3j9z:LC (3.6) BS01 rna ? GO:0000027 ... P0A7L0 26229983
    90675 3j9z:LC (3.6) BS02 rna ? GO:0000027 ... P0A7L0 26229983
    90676 3j9z:LD (3.6) BS01 rna ? GO:0002181 ... P0A7J3 26229983
    90677 3j9z:LE (3.6) BS01 rna ? GO:0000027 ... P0A7J7 26229983
    90678 3j9z:LF (3.6) BS01 rna ? GO:0002181 ... P0AA10 26229983
    90679 3j9z:LG (3.6) BS01 rna ? GO:0002181 ... P0ADY3 26229983
    90680 3j9z:LG (3.6) BS02 rna ? GO:0002181 ... P0ADY3 26229983
    90681 3j9z:LH (3.6) BS01 rna ? GO:0002181 ... P02413 26229983
    90682 3j9z:LI (3.6) BS01 rna ? GO:0000027 ... P0ADY7 26229983
    90683 3j9z:LI (3.6) BS02 rna ? GO:0000027 ... P0ADY7 26229983
    90684 3j9z:LJ (3.6) BS01 rna ? GO:0000027 ... P0AG44 26229983
    90685 3j9z:LK (3.6) BS01 rna ? GO:0002181 ... P0C018 26229983
    90686 3j9z:LK (3.6) BS02 rna ? GO:0002181 ... P0C018 26229983
    90687 3j9z:LM (3.6) BS01 rna ? GO:0000027 ... P0A7K6 26229983
    90688 3j9z:LM (3.6) BS02 rna ? GO:0000027 ... P0A7K6 26229983
    90689 3j9z:LN (3.6) BS01 rna ? GO:0000027 ... P60422 26229983
    90690 3j9z:LN (3.6) BS02 rna ? GO:0000027 ... P60422 26229983
    90691 3j9z:LO (3.6) BS01 rna ? GO:0000027 ... P0A7L3 26229983
    90692 3j9z:LP (3.6) BS01 rna ? GO:0002181 ... P0AG48 26229983
    90693 3j9z:LQ (3.6) BS01 rna ? GO:0002181 ... P61175 26229983
    90694 3j9z:LR (3.6) BS01 rna ? GO:0000027 ... P0ADZ0 26229983
    90695 3j9z:LS (3.6) BS01 rna ? GO:0000027 ... P60624 26229983
    90696 3j9z:LT (3.6) BS01 rna ? GO:0000027 ... P68919 26229983
    90697 3j9z:LT (3.6) BS02 rna ? GO:0000027 ... P68919 26229983
    90698 3j9z:LU (3.6) BS01 rna ? GO:0000027 ... P0A7L8 26229983
    90699 3j9z:LU (3.6) BS02 rna ? GO:0000027 ... P0A7L8 26229983
    90700 3j9z:LV (3.6) BS01 rna ? GO:0000027 ... P0A7M2 26229983
    90701 3j9z:LW (3.6) BS01 rna ? GO:0000027 ... P0A7M6 26229983
    90702 3j9z:LX (3.6) BS01 rna ? GO:0000027 ... P60438 26229983
    90703 3j9z:LY (3.6) BS01 rna ? GO:0000027 ... P0AG51 26229983
    90704 3j9z:LY (3.6) BS02 rna ? GO:0000027 ... P0AG51 26229983
    90705 3j9z:LZ (3.6) BS01 rna ? GO:0002181 ... P0A7M9 26229983
    90706 3j9z:LZ (3.6) BS02 rna ? GO:0002181 ... P0A7M9 26229983
    90707 3j9z:S1 (3.6) BS01 rna 3.6.5.- GO:0003746 ... P0A6M8 26229983
    90708 3j9z:S1 (3.6) BS02 rna 3.6.5.- GO:0003746 ... P0A6M8 26229983
    90709 3j9z:S1 (3.6) BS03 rna 3.6.5.- GO:0003746 ... P0A6M8 26229983
    90710 3j9z:S1 (3.6) BS04 GTP 3.6.5.- GO:0003746 ... P0A6M8 26229983
    90711 3j9z:SB (3.6) BS01 rna ? GO:0000028 ... P0A7V0 26229983
    90712 3j9z:SC (3.6) BS01 rna ? GO:0000028 ... P0A7V3 26229983
    90713 3j9z:SD (3.6) BS01 rna ? GO:0000028 ... P0A7V8 26229983
    90714 3j9z:SE (3.6) BS01 rna ? GO:0000028 ... P0A7W1 26229983
    90715 3j9z:SF (3.6) BS01 rna ? GO:0002181 ... P02358 26229983
    90716 3j9z:SG (3.6) BS01 rna ? GO:0000028 ... P02359 26229983
    90717 3j9z:SG (3.6) BS02 rna ? GO:0000028 ... P02359 26229983
    90718 3j9z:SH (3.6) BS01 rna ? GO:0000028 ... P0A7W7 26229983
    90719 3j9z:SI (3.6) BS01 rna ? GO:0000049 ... P0A7X3 26229983
    90720 3j9z:SJ (3.6) BS01 rna ? GO:0000049 ... P0A7R5 26229983
    90721 3j9z:SK (3.6) BS01 rna ? GO:0002181 ... P0A7R9 26229983
    90722 3j9z:SK (3.6) BS02 rna ? GO:0002181 ... P0A7R9 26229983
    90723 3j9z:SL (3.6) BS01 rna ? GO:0000049 ... P0A7S3 26229983
    90724 3j9z:SM (3.6) BS01 rna ? GO:0000049 ... P0A7S9 26229983
    90725 3j9z:SN (3.6) BS01 rna ? GO:0000028 ... P0AG59 26229983
    90726 3j9z:SO (3.6) BS01 rna ? GO:0003735 ... Q8X9M2 26229983
    90727 3j9z:SO (3.6) BS02 rna ? GO:0003735 ... Q8X9M2 26229983
    90728 3j9z:SP (3.6) BS01 rna ? GO:0000028 ... P0A7T3 26229983
    90729 3j9z:SQ (3.6) BS01 rna ? GO:0000028 ... P0AG63 26229983
    90730 3j9z:SR (3.6) BS01 rna ? GO:0002181 ... P0A7T7 26229983
    90731 3j9z:SS (3.6) BS01 rna ? GO:0000028 ... P0A7U3 26229983
    90732 3j9z:SS (3.6) BS02 rna ? GO:0000028 ... P0A7U3 26229983
    90733 3j9z:ST (3.6) BS01 rna ? GO:0000028 ... P0A7U7 26229983
    90734 3j9z:SU (3.6) BS01 rna ? GO:0000028 ... P68679 26229983
    90735 3ja1:L0 (3.6) BS01 rna ? GO:0000027 ... P0A7M6 26229983
    90736 3ja1:L1 (3.6) BS01 rna ? GO:0000027 ... P0AG51 26229983
    90737 3ja1:L2 (3.6) BS01 rna ? GO:0002181 ... P0A7M9 26229983
    90738 3ja1:L2 (3.6) BS02 rna ? GO:0002181 ... P0A7M9 26229983
    90739 3ja1:L3 (3.6) BS01 rna ? GO:0000027 ... P0A7N4 26229983
    90740 3ja1:L4 (3.6) BS01 rna ? GO:0000027 ... P0A7N9 26229983
    90741 3ja1:L5 (3.6) BS01 rna ? GO:0002181 ... P0A7P5 26229983
    90742 3ja1:L6 (3.6) BS01 rna ? GO:0002181 ... P0A7Q1 26229983
    90743 3ja1:L7 (3.6) BS01 rna ? GO:0002181 ... P0A7Q6 26229983
    90744 3ja1:LC (3.6) BS01 rna ? GO:0000027 ... P0A7L0 26229983
    90745 3ja1:LC (3.6) BS02 rna ? GO:0000027 ... P0A7L0 26229983
    90746 3ja1:LD (3.6) BS01 rna ? GO:0000027 ... P60422 26229983
    90747 3ja1:LD (3.6) BS02 rna ? GO:0000027 ... P60422 26229983
    90748 3ja1:LE (3.6) BS01 rna ? GO:0000027 ... P60438 26229983
    90749 3ja1:LF (3.6) BS01 rna ? GO:0001070 ... P60723 26229983
    90750 3ja1:LG (3.6) BS01 rna ? GO:0000027 ... P62399 26229983
    90751 3ja1:LG (3.6) BS02 rna ? GO:0000027 ... P62399 26229983
    90752 3ja1:LH (3.6) BS01 rna ? GO:0000027 ... P0AG55 26229983
    90753 3ja1:LI (3.6) BS01 rna ? GO:0002181 ... P0A7R1 26229983
    90754 3ja1:LJ (3.6) BS01 rna ? GO:0002181 ... P0A7J3 26229983
    90755 3ja1:LK (3.6) BS01 rna ? GO:0000027 ... P0A7J7 26229983
    90756 3ja1:LL (3.6) BS01 rna ? GO:0002181 ... P0AA10 26229983
    90757 3ja1:LM (3.6) BS01 rna ? GO:0002181 ... P0ADY3 26229983
    90758 3ja1:LM (3.6) BS02 rna ? GO:0002181 ... P0ADY3 26229983
    90759 3ja1:LN (3.6) BS01 rna ? GO:0002181 ... P02413 26229983
    90760 3ja1:LO (3.6) BS01 rna ? GO:0000027 ... P0ADY7 26229983
    90761 3ja1:LO (3.6) BS02 rna ? GO:0000027 ... P0ADY7 26229983
    90762 3ja1:LP (3.6) BS01 rna ? GO:0000027 ... P0AG44 26229983
    90763 3ja1:LQ (3.6) BS01 rna ? GO:0002181 ... P0C018 26229983
    90764 3ja1:LQ (3.6) BS02 rna ? GO:0002181 ... P0C018 26229983
    90765 3ja1:LR (3.6) BS01 rna ? GO:0000027 ... P0A7K6 26229983
    90766 3ja1:LR (3.6) BS02 rna ? GO:0000027 ... P0A7K6 26229983
    90767 3ja1:LS (3.6) BS01 rna ? GO:0000027 ... P0A7L3 26229983
    90768 3ja1:LT (3.6) BS01 rna ? GO:0002181 ... P0AG48 26229983
    90769 3ja1:LU (3.6) BS01 rna ? GO:0002181 ... P61175 26229983
    90770 3ja1:LV (3.6) BS01 rna ? GO:0000027 ... P0ADZ0 26229983
    90771 3ja1:LW (3.6) BS01 rna ? GO:0000027 ... P60624 26229983
    90772 3ja1:LX (3.6) BS01 rna ? GO:0000027 ... P68919 26229983
    90773 3ja1:LY (3.6) BS01 rna ? GO:0000027 ... P0A7L8 26229983
    90774 3ja1:LY (3.6) BS02 rna ? GO:0000027 ... P0A7L8 26229983
    90775 3ja1:LZ (3.6) BS01 rna ? GO:0000027 ... P0A7M2 26229983
    90776 3ja1:S3 (3.6) BS01 rna 3.6.5.- GO:0003746 ... P0A6M8 26229983
    90777 3ja1:S3 (3.6) BS02 rna 3.6.5.- GO:0003746 ... P0A6M8 26229983
    90778 3ja1:S3 (3.6) BS03 GTP 3.6.5.- GO:0003746 ... P0A6M8 26229983
    90779 3ja1:SB (3.6) BS01 rna ? GO:0000028 ... P0A7V0 26229983
    90780 3ja1:SC (3.6) BS01 rna ? GO:0000028 ... P0A7V3 26229983
    90781 3ja1:SC (3.6) BS02 rna ? GO:0000028 ... P0A7V3 26229983
    90782 3ja1:SD (3.6) BS01 rna ? GO:0000028 ... P0A7V8 26229983
    90783 3ja1:SD (3.6) BS02 rna ? GO:0000028 ... P0A7V8 26229983
    90784 3ja1:SE (3.6) BS01 rna ? GO:0000028 ... P0A7W1 26229983
    90785 3ja1:SE (3.6) BS02 rna ? GO:0000028 ... P0A7W1 26229983
    90786 3ja1:SF (3.6) BS01 rna ? GO:0002181 ... P02358 26229983
    90787 3ja1:SF (3.6) BS02 rna ? GO:0002181 ... P02358 26229983
    90788 3ja1:SG (3.6) BS01 rna ? GO:0000028 ... P02359 26229983
    90789 3ja1:SG (3.6) BS02 rna ? GO:0000028 ... P02359 26229983
    90790 3ja1:SH (3.6) BS01 rna ? GO:0000028 ... P0A7W7 26229983
    90791 3ja1:SI (3.6) BS01 rna ? GO:0000049 ... P0A7X3 26229983
    90792 3ja1:SJ (3.6) BS01 rna ? GO:0000049 ... P0A7R5 26229983
    90793 3ja1:SK (3.6) BS01 rna ? GO:0002181 ... P0A7R9 26229983
    90794 3ja1:SK (3.6) BS02 rna ? GO:0002181 ... P0A7R9 26229983
    90795 3ja1:SK (3.6) BS03 rna ? GO:0002181 ... P0A7R9 26229983
    90796 3ja1:SL (3.6) BS01 rna ? GO:0000049 ... P0A7S3 26229983
    90797 3ja1:SM (3.6) BS01 rna ? GO:0000049 ... P0A7S9 26229983
    90798 3ja1:SN (3.6) BS01 rna ? GO:0000028 ... P0AG59 26229983
    90799 3ja1:SO (3.6) BS01 rna ? GO:0003735 ... Q8X9M2 26229983
    90800 3ja1:SO (3.6) BS02 rna ? GO:0003735 ... Q8X9M2 26229983
    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)(download the PDF file).
  • 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).

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