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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.
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    # PDB
    (Resolution Å)
    Site # Ligand EC number GO terms UniProt PubMed Binding
    affinity
    20601 1mhd:B (2.8) BS01 dna ? GO:0005667 ... P84022 9741623 PDBbind: Kd=114nM
    20602 1mhd:B (2.8) BS02 dna ? GO:0005667 ... P84022 9741623 PDBbind: Kd=114nM
    20603 1mhi:B (-1.00) BS01 peptide ? GO:0005179 ... P01308 1433291
    20604 1mho:A (2.0) BS01 CA ? GO:0005509 ... P02638 9519413
    20605 1mho:A (2.0) BS02 CA ? GO:0005509 ... P02638 9519413
    20606 1mi3:A (1.8) BS01 NAD 1.1.1.307 GO:0004032 ... O74237 12733986
    20607 1mi3:B (1.8) BS01 NAD 1.1.1.307 GO:0004032 ... O74237 12733986
    20608 1mi3:C (1.8) BS01 NAD 1.1.1.307 GO:0004032 ... O74237 12733986
    20609 1mi3:D (1.8) BS01 NAD 1.1.1.307 GO:0004032 ... O74237 12733986
    20610 1mi4:A (1.7) BS01 S3P 2.5.1.19 GO:0003824 ... P0A6D3 12430021 BindingDB: Kd=7000nM
    20611 1mid:A (1.71) BS01 LAP ? GO:0006869 ... P07597 N/A
    20612 1mid:A (1.71) BS02 LAP ? GO:0006869 ... P07597 N/A
    20613 1mid:A (1.71) BS03 LAP ? GO:0006869 ... P07597 N/A
    20614 1mih:A (2.7) BS01 MN ? GO:0000156 ... P0AE67 12591865
    20615 1mih:A (2.7) BS02 BEF ? GO:0000156 ... P0AE67 12591865
    20616 1mih:B (2.7) BS01 MN ? GO:0000156 ... P0AE67 12591865
    20617 1mih:B (2.7) BS02 BEF ? GO:0000156 ... P0AE67 12591865
    20618 1mik:A (1.76) BS01 peptide 5.2.1.8 GO:0000413 ... P62937 7650689
    20619 1mio:A (3.0) BS01 CFM 1.18.6.1 GO:0005524 ... P00467 8393705
    20620 1mio:A (3.0) BS02 CLP 1.18.6.1 GO:0005524 ... P00467 8393705
    20621 1mio:B (3.0) BS01 CA 1.18.6.1 GO:0005524 ... P11347 8393705
    20622 1mio:B (3.0) BS02 CLP 1.18.6.1 GO:0005524 ... P11347 8393705
    20623 1mio:B (3.0) BS03 CA 1.18.6.1 GO:0005524 ... P11347 8393705
    20624 1mio:C (3.0) BS01 CFM 1.18.6.1 GO:0005524 ... P00467 8393705
    20625 1mio:C (3.0) BS02 CLP 1.18.6.1 GO:0005524 ... P00467 8393705
    20626 1mio:D (3.0) BS01 CA 1.18.6.1 GO:0005524 ... P11347 8393705
    20627 1mio:D (3.0) BS02 CA 1.18.6.1 GO:0005524 ... P11347 8393705
    20628 1mio:D (3.0) BS03 CLP 1.18.6.1 GO:0005524 ... P11347 8393705
    20629 1mj1:A (13.0) BS01 rna ? GO:0003746 ... Q01698 12379845
    20630 1mj1:O (13.0) BS01 rna ? GO:0000049 ... Q5SHN3 12379845
    20631 1mj2:A (2.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    20632 1mj2:A (2.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    20633 1mj2:A (2.4) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    20634 1mj2:A (2.4) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    20635 1mj2:B (2.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    20636 1mj2:B (2.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    20637 1mj2:B (2.4) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    20638 1mj2:B (2.4) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    20639 1mj2:B (2.4) BS05 CA ? GO:0003677 ... P0A8U6 10986458
    20640 1mj2:C (2.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    20641 1mj2:C (2.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    20642 1mj2:C (2.4) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    20643 1mj2:C (2.4) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    20644 1mj2:D (2.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    20645 1mj2:D (2.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    20646 1mj2:D (2.4) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    20647 1mj2:D (2.4) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    20648 1mj3:A (2.1) BS01 HXC 4.2.1.17
    5.3.3.8
    GO:0003824 ... P14604 12445775
    20649 1mj3:B (2.1) BS01 HXC 4.2.1.17
    5.3.3.8
    GO:0003824 ... P14604 12445775
    20650 1mj3:B (2.1) BS02 HXC 4.2.1.17
    5.3.3.8
    GO:0003824 ... P14604 12445775
    20651 1mj3:C (2.1) BS01 HXC 4.2.1.17
    5.3.3.8
    GO:0003824 ... P14604 12445775
    20652 1mj3:C (2.1) BS02 HXC 4.2.1.17
    5.3.3.8
    GO:0003824 ... P14604 12445775
    20653 1mj3:E (2.1) BS01 HXC 4.2.1.17
    5.3.3.8
    GO:0003824 ... P14604 12445775
    20654 1mj3:F (2.1) BS01 HXC 4.2.1.17
    5.3.3.8
    GO:0003824 ... P14604 12445775
    20655 1mj3:F (2.1) BS02 HXC 4.2.1.17
    5.3.3.8
    GO:0003824 ... P14604 12445775
    20656 1mjh:A (1.7) BS01 ATP ? GO:0005524 ... Q57997 9860944
    20657 1mjh:B (1.7) BS01 ATP ? GO:0005524 ... Q57997 9860944
    20658 1mji:A (2.5) BS01 rna ? GO:0000049 ... P41201 12515387
    20659 1mji:A (2.5) BS02 rna ? GO:0000049 ... P41201 12515387
    20660 1mji:A (2.5) BS03 MG ? GO:0000049 ... P41201 12515387
    20661 1mji:B (2.5) BS01 rna ? GO:0000049 ... P41201 12515387
    20662 1mji:B (2.5) BS02 rna ? GO:0000049 ... P41201 12515387
    20663 1mji:B (2.5) BS03 MG ? GO:0000049 ... P41201 12515387
    20664 1mjl:A (2.1) BS01 SAM ? GO:0003677 ... P0A8U6 N/A
    20665 1mjl:A (2.1) BS02 SAM ? GO:0003677 ... P0A8U6 N/A
    20666 1mjl:B (2.1) BS01 SAM ? GO:0003677 ... P0A8U6 N/A
    20667 1mjl:B (2.1) BS02 SAM ? GO:0003677 ... P0A8U6 N/A
    20668 1mjm:A (2.2) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    20669 1mjm:A (2.2) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    20670 1mjm:B (2.2) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    20671 1mjm:B (2.2) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    20672 1mjo:A (2.1) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    20673 1mjo:A (2.1) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    20674 1mjo:A (2.1) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    20675 1mjo:A (2.1) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    20676 1mjo:B (2.1) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    20677 1mjo:B (2.1) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    20678 1mjo:B (2.1) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    20679 1mjo:B (2.1) BS04 CA ? GO:0003677 ... P0A8U6 10986458
    20680 1mjo:B (2.1) BS05 SAM ? GO:0003677 ... P0A8U6 10986458
    20681 1mjo:C (2.1) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    20682 1mjo:C (2.1) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    20683 1mjo:C (2.1) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    20684 1mjo:C (2.1) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    20685 1mjo:D (2.1) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    20686 1mjo:D (2.1) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    20687 1mjo:D (2.1) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    20688 1mjo:D (2.1) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    20689 1mjp:A (3.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    20690 1mjp:B (3.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    20691 1mjp:B (3.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    20692 1mjq:A (2.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    20693 1mjq:A (2.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    20694 1mjq:A (2.4) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    20695 1mjq:A (2.4) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    20696 1mjq:B (2.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    20697 1mjq:B (2.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    20698 1mjq:B (2.4) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    20699 1mjq:C (2.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    20700 1mjq:C (2.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    20701 1mjq:C (2.4) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    20702 1mjq:C (2.4) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    20703 1mjq:D (2.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    20704 1mjq:D (2.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    20705 1mjq:D (2.4) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    20706 1mjq:G (2.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    20707 1mjq:G (2.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    20708 1mjq:G (2.4) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    20709 1mjq:G (2.4) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    20710 1mjq:H (2.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    20711 1mjq:H (2.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    20712 1mjq:H (2.4) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    20713 1mjq:H (2.4) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    20714 1mjq:I (2.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    20715 1mjq:I (2.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    20716 1mjq:I (2.4) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    20717 1mjq:I (2.4) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    20718 1mjq:J (2.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    20719 1mjq:J (2.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    20720 1mjq:J (2.4) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    20721 1mjq:J (2.4) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    20722 1mjw:A (1.95) BS01 SO4 3.6.1.1 GO:0000287 ... P0A7A9 9668207
    20723 1mjw:B (1.95) BS01 SO4 3.6.1.1 GO:0000287 ... P0A7A9 9668207
    20724 1mjx:A (2.15) BS01 SO4 3.6.1.1 GO:0000287 ... P0A7A9 9668207
    20725 1mjx:B (2.15) BS01 SO4 3.6.1.1 GO:0000287 ... P0A7A9 9668207
    20726 1mk1:A (2.0) BS01 APR 3.6.1.13 GO:0005829 ... O33199 12906832
    20727 1mk7:B (2.2) BS01 peptide ? GO:0005856 ... P54939 12535520
    20728 1mk7:B (2.2) BS02 peptide ? GO:0005856 ... P54939 12535520
    20729 1mk7:D (2.2) BS01 peptide ? GO:0005856 ... P54939 12535520
    20730 1mk7:D (2.2) BS02 peptide ? GO:0005856 ... P54939 12535520
    20731 1mk9:B (2.8) BS01 peptide ? GO:0005856 ... P54939 12535520
    20732 1mk9:B (2.8) BS02 peptide ? GO:0005856 ... P54939 12535520
    20733 1mk9:D (2.8) BS01 peptide ? GO:0005856 ... P54939 12535520
    20734 1mk9:D (2.8) BS02 peptide ? GO:0005856 ... P54939 12535520
    20735 1mk9:F (2.8) BS01 peptide ? GO:0005856 ... P54939 12535520
    20736 1mk9:F (2.8) BS02 peptide ? GO:0005856 ... P54939 12535520
    20737 1mk9:H (2.8) BS01 peptide ? GO:0005856 ... P54939 12535520
    20738 1mk9:H (2.8) BS02 peptide ? GO:0005856 ... P54939 12535520
    20739 1mka:A (2.0) BS01 DAC 4.2.1.59
    5.3.3.14
    GO:0005737 ... P0A6Q3 8805534
    20740 1mka:A (2.0) BS02 DAC 4.2.1.59
    5.3.3.14
    GO:0005737 ... P0A6Q3 8805534
    20741 1mka:B (2.0) BS01 DAC 4.2.1.59
    5.3.3.14
    GO:0005737 ... P0A6Q3 8805534
    20742 1mka:B (2.0) BS02 DAC 4.2.1.59
    5.3.3.14
    GO:0005737 ... P0A6Q3 8805534
    20743 1mko:A (2.18) BS01 HEM ? GO:0004601 ... P69905 15938624
    20744 1mko:B (2.18) BS01 HEM ? GO:0004601 ... P68871 15938624
    20745 1mko:C (2.18) BS01 HEM ? GO:0004601 ... P69905 15938624
    20746 1mko:D (2.18) BS01 HEM ? GO:0004601 ... P68871 15938624
    20747 1mks:A (1.9) BS01 CA 3.1.1.4 GO:0002227 ... P00593 9115986
    20748 1mkt:A (1.72) BS01 CA 3.1.1.4 GO:0002227 ... P00593 9761901
    20749 1mku:A (1.8) BS01 CA 3.1.1.4 GO:0002227 ... P00593 9115986
    20750 1mkv:A (1.89) BS01 CA 3.1.1.4 GO:0002227 ... P00593 9761900
    20751 1mkv:A (1.89) BS02 GEL 3.1.1.4 GO:0002227 ... P00593 9761900
    20752 1ml1:A (2.6) BS01 PGA 5.3.1.1 GO:0004807 ... P04789 9089815 PDBbind: -logKd/Ki=4.28, Ki=52uM
    20753 1ml1:C (2.6) BS01 PGA 5.3.1.1 GO:0004807 ... P04789 9089815
    20754 1ml1:E (2.6) BS01 PGA 5.3.1.1 GO:0004807 ... P04789 9089815
    20755 1ml1:G (2.6) BS01 PGA 5.3.1.1 GO:0004807 ... P04789 9089815
    20756 1ml1:I (2.6) BS01 PGA 5.3.1.1 GO:0004807 ... P04789 9089815
    20757 1ml1:K (2.6) BS01 PGA 5.3.1.1 GO:0004807 ... P04789 9089815
    20758 1ml3:B (2.5) BS01 NAD 1.2.1.12 GO:0004365 ... P22513 12795610
    20759 1ml3:B (2.5) BS02 CYX 1.2.1.12 GO:0004365 ... P22513 12795610
    20760 1ml3:C (2.5) BS01 NAD 1.2.1.12 GO:0004365 ... P22513 12795610
    20761 1ml3:C (2.5) BS02 CYX 1.2.1.12 GO:0004365 ... P22513 12795610
    20762 1ml3:D (2.5) BS01 NAD 1.2.1.12 GO:0004365 ... P22513 12795610
    20763 1ml3:D (2.5) BS02 CYX 1.2.1.12 GO:0004365 ... P22513 12795610
    20764 1ml5:Z (14.0) BS01 rna ? GO:0003747 ... P07012 12511961
    20765 1ml5:Z (14.0) BS02 rna ? GO:0003747 ... P07012 12511961
    20766 1ml5:x (14.0) BS01 rna ? GO:0003735 ... Q5SHQ6 12511961
    20767 1ml6:A (1.9) BS01 GBX 2.5.1.18 GO:0004364 ... P10648 12549910
    20768 1ml6:A (1.9) BS02 GBX 2.5.1.18 GO:0004364 ... P10648 12549910
    20769 1ml6:B (1.9) BS01 GBX 2.5.1.18 GO:0004364 ... P10648 12549910
    20770 1ml6:B (1.9) BS02 GBX 2.5.1.18 GO:0004364 ... P10648 12549910
    20771 1ml7:A (1.25) BS01 HEV 1.7.6.1 GO:0005576 ... Q94734 14673714
    20772 1ml7:A (1.25) BS02 PYZ 1.7.6.1 GO:0005576 ... Q94734 14673714
    20773 1ml7:A (1.25) BS03 PYZ 1.7.6.1 GO:0005576 ... Q94734 14673714
    20774 1ml9:A (1.98) BS01 ZN 2.1.1.355 GO:0003690 ... Q8X225 12372305
    20775 1ml9:A (1.98) BS02 ZN 2.1.1.355 GO:0003690 ... Q8X225 12372305
    20776 1ml9:A (1.98) BS03 ZN 2.1.1.355 GO:0003690 ... Q8X225 12372305
    20777 1mlf:A (2.0) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 7837273
    20778 1mlg:A (2.0) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 7837273
    20779 1mlh:A (2.0) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 7837273
    20780 1mlj:A (2.0) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 7837273
    20781 1mlk:A (1.8) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 7837273
    20782 1mll:A (1.7) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 7837273
    20783 1mlm:A (1.8) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 7837273
    20784 1mln:A (2.0) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 7837273
    20785 1mlo:A (1.8) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 7837273
    20786 1mlq:A (2.0) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 7837273
    20787 1mlr:A (2.0) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 7837273
    20788 1mls:A (1.7) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 7837273
    20789 1mlu:A (1.9) BS01 HEM 1.11.1.-
    1.7.-.-
    GO:0004601 ... P02185 8075059
    20790 1mlv:A (2.6) BS01 SAH 2.1.1.127
    2.1.1.259
    GO:0009507 ... Q43088 12372303
    20791 1mlv:A (2.6) BS02 EPE 2.1.1.127
    2.1.1.259
    GO:0009507 ... Q43088 12372303
    20792 1mlv:B (2.6) BS01 SAH 2.1.1.127
    2.1.1.259
    GO:0009507 ... Q43088 12372303
    20793 1mlv:B (2.6) BS02 EPE 2.1.1.127
    2.1.1.259
    GO:0009507 ... Q43088 12372303
    20794 1mlv:C (2.6) BS01 SAH 2.1.1.127
    2.1.1.259
    GO:0009507 ... Q43088 12372303
    20795 1mlv:C (2.6) BS02 EPE 2.1.1.127
    2.1.1.259
    GO:0009507 ... Q43088 12372303
    20796 1mly:A (1.81) BS01 ACZ 2.6.1.62 GO:0003824 ... P12995 12218056
    20797 1mly:A (1.81) BS02 PLP 2.6.1.62 GO:0003824 ... P12995 12218056
    20798 1mly:A (1.81) BS03 PLP 2.6.1.62 GO:0003824 ... P12995 12218056
    20799 1mly:B (1.81) BS01 PLP 2.6.1.62 GO:0003824 ... P12995 12218056
    20800 1mly:B (1.81) BS02 ACZ 2.6.1.62 GO:0003824 ... P12995 12218056

    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).
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