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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 832530 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.
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  • 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
    31601 1mhw:B (1.9) BS02 peptide 3.4.22.15 GO:0006508 ... P07711 12431059
    31602 1mhw:B (1.9) BS03 peptide 3.4.22.15 GO:0006508 ... P07711 12431059
    31603 1mhw:C (1.9) BS01 peptide 3.4.22.15 GO:0006508 ... P07711 12431059
    31604 1mhw:D (1.9) BS01 peptide 3.4.22.15 GO:0006508 ... P07711 12431059
    31605 1mhy:D (2.0) BS01 FE 1.14.13.25 GO:0016491 ... P27353 9070438
    31606 1mhy:D (2.0) BS02 FE 1.14.13.25 GO:0016491 ... P27353 9070438
    31607 1mhz:D (2.7) BS01 FE 1.14.13.25 GO:0016491 ... P27353 9070438
    31608 1mhz:D (2.7) BS02 FE 1.14.13.25 GO:0016491 ... P27353 9070438
    31609 1mi3:A (1.8) BS01 NAD 1.1.1.307 GO:0004032 ... O74237 12733986
    31610 1mi3:B (1.8) BS01 NAD 1.1.1.307 GO:0004032 ... O74237 12733986
    31611 1mi3:C (1.8) BS01 NAD 1.1.1.307 GO:0004032 ... O74237 12733986
    31612 1mi3:D (1.8) BS01 NAD 1.1.1.307 GO:0004032 ... O74237 12733986
    31613 1mi4:A (1.7) BS01 S3P 2.5.1.19 GO:0003824 ... P0A6D3 12430021 BindingDB: Kd=7000nM
    31614 1mi5:A (2.5) BS01 peptide ? N/A P01889 12530975
    31615 1mi5:E (2.5) BS01 peptide ? N/A P01850 12530975
    31616 1mid:A (1.71) BS01 LAP ? GO:0006869 ... P07597 N/A
    31617 1mid:A (1.71) BS02 LAP ? GO:0006869 ... P07597 N/A
    31618 1mid:A (1.71) BS03 LAP ? GO:0006869 ... P07597 N/A
    31619 1mih:A (2.7) BS01 MN ? GO:0000156 ... P0AE67 12591865
    31620 1mih:A (2.7) BS02 BEF ? GO:0000156 ... P0AE67 12591865
    31621 1mih:B (2.7) BS01 MN ? GO:0000156 ... P0AE67 12591865
    31622 1mih:B (2.7) BS02 BEF ? GO:0000156 ... P0AE67 12591865
    31623 1mik:A (1.76) BS01 peptide 5.2.1.8 GO:0000413 ... P62937 7650689
    31624 1mio:A (3.0) BS01 CFM 1.18.6.1 GO:0005524 ... P00467 8393705
    31625 1mio:A (3.0) BS02 CLP 1.18.6.1 GO:0005524 ... P00467 8393705
    31626 1mio:B (3.0) BS01 CA 1.18.6.1 GO:0005524 ... P11347 8393705
    31627 1mio:B (3.0) BS02 CLP 1.18.6.1 GO:0005524 ... P11347 8393705
    31628 1mio:B (3.0) BS03 CA 1.18.6.1 GO:0005524 ... P11347 8393705
    31629 1mio:C (3.0) BS01 CFM 1.18.6.1 GO:0005524 ... P00467 8393705
    31630 1mio:C (3.0) BS02 CLP 1.18.6.1 GO:0005524 ... P00467 8393705
    31631 1mio:D (3.0) BS01 CA 1.18.6.1 GO:0005524 ... P11347 8393705
    31632 1mio:D (3.0) BS02 CA 1.18.6.1 GO:0005524 ... P11347 8393705
    31633 1mio:D (3.0) BS03 CLP 1.18.6.1 GO:0005524 ... P11347 8393705
    31634 1miw:A (3.0) BS01 ATP 2.7.7.72 GO:0000049 ... Q7SIB1 12526808
    31635 1miw:B (3.0) BS01 ATP 2.7.7.72 GO:0000049 ... Q7SIB1 12526808
    31636 1miy:A (3.52) BS01 MG 2.7.7.72 GO:0000049 ... Q7SIB1 12526808
    31637 1miy:A (3.52) BS02 CTP 2.7.7.72 GO:0000049 ... Q7SIB1 12526808
    31638 1miy:B (3.52) BS01 CTP 2.7.7.72 GO:0000049 ... Q7SIB1 12526808
    31639 1mj1:A (13.0) BS01 rna ? GO:0003746 ... Q01698 12379845
    31640 1mj1:O (13.0) BS01 rna ? GO:0000049 ... Q5SHN3 12379845
    31641 1mj2:A (2.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    31642 1mj2:A (2.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    31643 1mj2:A (2.4) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    31644 1mj2:A (2.4) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    31645 1mj2:B (2.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    31646 1mj2:B (2.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    31647 1mj2:B (2.4) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    31648 1mj2:B (2.4) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    31649 1mj2:B (2.4) BS05 CA ? GO:0003677 ... P0A8U6 10986458
    31650 1mj2:C (2.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    31651 1mj2:C (2.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    31652 1mj2:C (2.4) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    31653 1mj2:C (2.4) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    31654 1mj2:D (2.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    31655 1mj2:D (2.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    31656 1mj2:D (2.4) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    31657 1mj2:D (2.4) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    31658 1mj3:A (2.1) BS01 HXC 4.2.1.17
    5.3.3.8    		 GO:0003824 ... P14604 12445775
    31659 1mj3:B (2.1) BS01 HXC 4.2.1.17
    5.3.3.8    		 GO:0003824 ... P14604 12445775
    31660 1mj3:B (2.1) BS02 HXC 4.2.1.17
    5.3.3.8    		 GO:0003824 ... P14604 12445775
    31661 1mj3:C (2.1) BS01 HXC 4.2.1.17
    5.3.3.8    		 GO:0003824 ... P14604 12445775
    31662 1mj3:C (2.1) BS02 HXC 4.2.1.17
    5.3.3.8    		 GO:0003824 ... P14604 12445775
    31663 1mj3:E (2.1) BS01 HXC 4.2.1.17
    5.3.3.8    		 GO:0003824 ... P14604 12445775
    31664 1mj3:F (2.1) BS01 HXC 4.2.1.17
    5.3.3.8    		 GO:0003824 ... P14604 12445775
    31665 1mj3:F (2.1) BS02 HXC 4.2.1.17
    5.3.3.8    		 GO:0003824 ... P14604 12445775
    31666 1mj4:A (1.2) BS01 HEM 1.8.3.1 GO:0020037 ... P51687 12832761
    31667 1mj9:A (2.5) BS01 COA 2.3.1.-
    2.3.1.48    		 GO:0004402 ... Q08649 12368900
    31668 1mja:A (2.26) BS01 COA 2.3.1.-
    2.3.1.48    		 GO:0004402 ... Q08649 12368900
    31669 1mjb:A (2.5) BS01 ACO 2.3.1.-
    2.3.1.48    		 GO:0004402 ... Q08649 12368900
    31670 1mje:A (3.5) BS01 dna ? GO:0000724 ... P97929 12228710
    31671 1mjg:A (2.2) BS01 SF4 1.2.7.4 GO:0003824 ... P27989 12386327
    31672 1mjg:A (2.2) BS02 SF4 1.2.7.4 GO:0003824 ... P27989 12386327
    31673 1mjg:A (2.2) BS03 XCC 1.2.7.4 GO:0003824 ... P27989 12386327
    31674 1mjg:B (2.2) BS01 SF4 1.2.7.4 GO:0003824 ... P27989 12386327
    31675 1mjg:B (2.2) BS02 SF4 1.2.7.4 GO:0003824 ... P27989 12386327
    31676 1mjg:B (2.2) BS03 XCC 1.2.7.4 GO:0003824 ... P27989 12386327
    31677 1mjg:C (2.2) BS01 SF4 1.2.7.4 GO:0003824 ... P27989 12386327
    31678 1mjg:C (2.2) BS02 SF4 1.2.7.4 GO:0003824 ... P27989 12386327
    31679 1mjg:C (2.2) BS03 XCC 1.2.7.4 GO:0003824 ... P27989 12386327
    31680 1mjg:D (2.2) BS01 SF4 1.2.7.4 GO:0003824 ... P27989 12386327
    31681 1mjg:D (2.2) BS02 SF4 1.2.7.4 GO:0003824 ... P27989 12386327
    31682 1mjg:D (2.2) BS03 XCC 1.2.7.4 GO:0003824 ... P27989 12386327
    31683 1mjg:M (2.2) BS01 CU1 2.3.1.169 GO:0003824 ... P27988 12386327
    31684 1mjg:M (2.2) BS02 SF4 2.3.1.169 GO:0003824 ... P27988 12386327
    31685 1mjg:N (2.2) BS01 CU1 2.3.1.169 GO:0003824 ... P27988 12386327
    31686 1mjg:N (2.2) BS02 SF4 2.3.1.169 GO:0003824 ... P27988 12386327
    31687 1mjg:O (2.2) BS01 CU1 2.3.1.169 GO:0003824 ... P27988 12386327
    31688 1mjg:O (2.2) BS02 SF4 2.3.1.169 GO:0003824 ... P27988 12386327
    31689 1mjg:P (2.2) BS01 CU1 2.3.1.169 GO:0003824 ... P27988 12386327
    31690 1mjg:P (2.2) BS02 SF4 2.3.1.169 GO:0003824 ... P27988 12386327
    31691 1mjh:A (1.7) BS01 ATP ? GO:0005524 ... Q57997 9860944
    31692 1mjh:B (1.7) BS01 ATP ? GO:0005524 ... Q57997 9860944
    31693 1mji:A (2.5) BS01 rna ? GO:0000049 ... P41201 12515387
    31694 1mji:A (2.5) BS02 rna ? GO:0000049 ... P41201 12515387
    31695 1mji:A (2.5) BS03 MG ? GO:0000049 ... P41201 12515387
    31696 1mji:B (2.5) BS01 rna ? GO:0000049 ... P41201 12515387
    31697 1mji:B (2.5) BS02 rna ? GO:0000049 ... P41201 12515387
    31698 1mji:B (2.5) BS03 MG ? GO:0000049 ... P41201 12515387
    31699 1mjl:A (2.1) BS01 SAM ? GO:0003677 ... P0A8U6 N/A
    31700 1mjl:A (2.1) BS02 SAM ? GO:0003677 ... P0A8U6 N/A
    31701 1mjl:B (2.1) BS01 SAM ? GO:0003677 ... P0A8U6 N/A
    31702 1mjl:B (2.1) BS02 SAM ? GO:0003677 ... P0A8U6 N/A
    31703 1mjm:A (2.2) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    31704 1mjm:A (2.2) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    31705 1mjm:B (2.2) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    31706 1mjm:B (2.2) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    31707 1mjn:A (1.3) BS01 MG ? N/A P20701 12526797
    31708 1mjo:A (2.1) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    31709 1mjo:A (2.1) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    31710 1mjo:A (2.1) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    31711 1mjo:A (2.1) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    31712 1mjo:B (2.1) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    31713 1mjo:B (2.1) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    31714 1mjo:B (2.1) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    31715 1mjo:B (2.1) BS04 CA ? GO:0003677 ... P0A8U6 10986458
    31716 1mjo:B (2.1) BS05 SAM ? GO:0003677 ... P0A8U6 10986458
    31717 1mjo:C (2.1) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    31718 1mjo:C (2.1) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    31719 1mjo:C (2.1) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    31720 1mjo:C (2.1) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    31721 1mjo:D (2.1) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    31722 1mjo:D (2.1) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    31723 1mjo:D (2.1) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    31724 1mjo:D (2.1) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    31725 1mjp:A (3.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    31726 1mjp:B (3.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    31727 1mjp:B (3.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    31728 1mjq:A (2.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    31729 1mjq:A (2.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    31730 1mjq:A (2.4) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    31731 1mjq:A (2.4) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    31732 1mjq:B (2.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    31733 1mjq:B (2.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    31734 1mjq:B (2.4) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    31735 1mjq:C (2.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    31736 1mjq:C (2.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    31737 1mjq:C (2.4) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    31738 1mjq:C (2.4) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    31739 1mjq:D (2.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    31740 1mjq:D (2.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    31741 1mjq:D (2.4) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    31742 1mjq:G (2.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    31743 1mjq:G (2.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    31744 1mjq:G (2.4) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    31745 1mjq:G (2.4) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    31746 1mjq:H (2.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    31747 1mjq:H (2.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    31748 1mjq:H (2.4) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    31749 1mjq:H (2.4) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    31750 1mjq:I (2.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    31751 1mjq:I (2.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    31752 1mjq:I (2.4) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    31753 1mjq:I (2.4) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    31754 1mjq:J (2.4) BS01 dna ? GO:0003677 ... P0A8U6 10986458
    31755 1mjq:J (2.4) BS02 dna ? GO:0003677 ... P0A8U6 10986458
    31756 1mjq:J (2.4) BS03 SAM ? GO:0003677 ... P0A8U6 10986458
    31757 1mjq:J (2.4) BS04 SAM ? GO:0003677 ... P0A8U6 10986458
    31758 1mjt:A (2.4) BS01 GLC 1.14.14.47 GO:0004517 ... P0A004 12467576
    31759 1mjt:A (2.4) BS02 FRU 1.14.14.47 GO:0004517 ... P0A004 12467576
    31760 1mjt:A (2.4) BS03 HEM 1.14.14.47 GO:0004517 ... P0A004 12467576
    31761 1mjt:A (2.4) BS04 NAD 1.14.14.47 GO:0004517 ... P0A004 12467576
    31762 1mjt:A (2.4) BS05 NAD 1.14.14.47 GO:0004517 ... P0A004 12467576
    31763 1mjt:A (2.4) BS06 ITU 1.14.14.47 GO:0004517 ... P0A004 12467576
    31764 1mjt:B (2.4) BS01 FRU 1.14.14.47 GO:0004517 ... P0A004 12467576
    31765 1mjt:B (2.4) BS02 NAD 1.14.14.47 GO:0004517 ... P0A004 12467576
    31766 1mjt:B (2.4) BS03 NAD 1.14.14.47 GO:0004517 ... P0A004 12467576
    31767 1mjt:B (2.4) BS04 HEM 1.14.14.47 GO:0004517 ... P0A004 12467576
    31768 1mjt:B (2.4) BS05 ITU 1.14.14.47 GO:0004517 ... P0A004 12467576
    31769 1mjw:A (1.95) BS01 SO4 3.6.1.1 GO:0000287 ... P0A7A9 9668207
    31770 1mjw:B (1.95) BS01 SO4 3.6.1.1 GO:0000287 ... P0A7A9 9668207
    31771 1mjx:A (2.15) BS01 SO4 3.6.1.1 GO:0000287 ... P0A7A9 9668207
    31772 1mjx:B (2.15) BS01 SO4 3.6.1.1 GO:0000287 ... P0A7A9 9668207
    31773 1mk1:A (2.0) BS01 APR 3.6.1.13 GO:0005829 ... O33199 12906832
    31774 1mk5:A (1.4) BS01 BTN ? GO:0009374 ... P22629 16452627 BindingDB: Kd=1.000000nM
    31775 1mk5:B (1.4) BS01 BTN ? GO:0009374 ... P22629 16452627 BindingDB: Kd=1.000000nM
    31776 1mk7:B (2.2) BS01 peptide ? GO:0005856 ... P54939 12535520
    31777 1mk7:B (2.2) BS02 peptide ? GO:0005856 ... P54939 12535520
    31778 1mk7:D (2.2) BS01 peptide ? GO:0005856 ... P54939 12535520
    31779 1mk7:D (2.2) BS02 peptide ? GO:0005856 ... P54939 12535520
    31780 1mk8:A (1.65) BS01 HEM 1.11.1.5 GO:0004601 ... P00431 12684005
    31781 1mk9:B (2.8) BS01 peptide ? GO:0005856 ... P54939 12535520
    31782 1mk9:B (2.8) BS02 peptide ? GO:0005856 ... P54939 12535520
    31783 1mk9:D (2.8) BS01 peptide ? GO:0005856 ... P54939 12535520
    31784 1mk9:D (2.8) BS02 peptide ? GO:0005856 ... P54939 12535520
    31785 1mk9:F (2.8) BS01 peptide ? GO:0005856 ... P54939 12535520
    31786 1mk9:F (2.8) BS02 peptide ? GO:0005856 ... P54939 12535520
    31787 1mk9:H (2.8) BS01 peptide ? GO:0005856 ... P54939 12535520
    31788 1mk9:H (2.8) BS02 peptide ? GO:0005856 ... P54939 12535520
    31789 1mka:A (2.0) BS01 DAC 4.2.1.59
    5.3.3.14    		 GO:0005737 ... P0A6Q3 8805534
    31790 1mka:A (2.0) BS02 DAC 4.2.1.59
    5.3.3.14    		 GO:0005737 ... P0A6Q3 8805534
    31791 1mka:B (2.0) BS01 DAC 4.2.1.59
    5.3.3.14    		 GO:0005737 ... P0A6Q3 8805534
    31792 1mka:B (2.0) BS02 DAC 4.2.1.59
    5.3.3.14    		 GO:0005737 ... P0A6Q3 8805534
    31793 1mkd:A (2.9) BS01 ZN 3.1.4.53 GO:0004114 ... Q08499 12387865
    31794 1mkd:A (2.9) BS02 ZAR 3.1.4.53 GO:0004114 ... Q08499 12387865 PDBbind: -logKd/Ki=6.80, IC50=160nM
    BindingDB: IC50=390nM
    31795 1mkd:B (2.9) BS01 ZN 3.1.4.53 GO:0004114 ... Q08499 12387865
    31796 1mkd:B (2.9) BS02 ZAR 3.1.4.53 GO:0004114 ... Q08499 12387865 BindingDB: IC50=390nM
    31797 1mkd:C (2.9) BS01 ZN 3.1.4.53 GO:0004114 ... Q08499 12387865
    31798 1mkd:C (2.9) BS02 ZAR 3.1.4.53 GO:0004114 ... Q08499 12387865 BindingDB: IC50=390nM
    31799 1mkd:D (2.9) BS01 ZN 3.1.4.53 GO:0004114 ... Q08499 12387865
    31800 1mkd:D (2.9) BS02 ZAR 3.1.4.53 GO:0004114 ... Q08499 12387865 BindingDB: IC50=390nM
    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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