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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 817662 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
    24601 1k8a:X (3.0) BS01 rna ? GO:0000463 ... P14121 12150912
    24602 1k8a:X (3.0) BS02 rna ? GO:0000463 ... P14121 12150912
    24603 1k8a:Y (3.0) BS01 rna ? GO:0002181 ... P18138 12150912
    24604 1k8a:Z (3.0) BS01 rna ? GO:0000166 ... P12736 12150912
    24605 1k8a:Z (3.0) BS02 MG ? GO:0000166 ... P12736 12150912
    24606 1k8c:A (2.1) BS01 NAP 1.1.1.307 GO:0004032 ... O74237 12102621
    24607 1k8c:B (2.1) BS01 NAP 1.1.1.307 GO:0004032 ... O74237 12102621
    24608 1k8c:C (2.1) BS01 NAP 1.1.1.307 GO:0004032 ... O74237 12102621
    24609 1k8c:D (2.1) BS01 NAP 1.1.1.307 GO:0004032 ... O74237 12102621
    24610 1k8g:A (2.6) BS01 dna ? GO:0000723 ... P29549 11743727
    24611 1k8g:B (2.6) BS01 dna ? GO:0000723 ... P29549 11743727
    24612 1k8q:A (2.7) BS01 C11 3.1.1.3 GO:0004806 ... P80035 11689574
    24613 1k8q:B (2.7) BS01 C11 3.1.1.3 GO:0004806 ... P80035 11689574
    24614 1k8r:A (3.0) BS01 MG 3.6.5.2 GO:0003924 ... P01112 11709168
    24615 1k8r:A (3.0) BS02 GNP 3.6.5.2 GO:0003924 ... P01112 11709168
    24616 1k8w:A (1.85) BS01 rna 5.4.99.25 GO:0000049 ... P60340 11779468
    24617 1k8x:B (1.9) BS01 PLP 4.2.1.20 GO:0000162 ... P0A2K1 12460570
    24618 1k8y:B (1.5) BS01 PLP 4.2.1.20 GO:0000162 ... P0A2K1 11756454
    24619 1k8z:A (1.7) BS01 IAG 4.2.1.20 GO:0000162 ... P00929 11756454
    24620 1k8z:B (1.7) BS01 PLP 4.2.1.20 GO:0000162 ... P0A2K1 11756454
    24621 1k90:A (2.75) BS01 3AT 4.6.1.1 GO:0005576 ... P40136 11807546
    24622 1k90:B (2.75) BS01 3AT 4.6.1.1 GO:0005576 ... P40136 11807546
    24623 1k90:C (2.75) BS01 3AT 4.6.1.1 GO:0005576 ... P40136 11807546
    24624 1k90:D (2.75) BS01 CA ? GO:0000086 ... P0DP23 11807546
    24625 1k90:D (2.75) BS02 CA ? GO:0000086 ... P0DP23 11807546
    24626 1k90:E (2.75) BS01 CA ? GO:0000086 ... P0DP23 11807546
    24627 1k90:E (2.75) BS02 CA ? GO:0000086 ... P0DP23 11807546
    24628 1k90:F (2.75) BS01 CA ? GO:0000086 ... P0DP23 11807546
    24629 1k90:F (2.75) BS02 CA ? GO:0000086 ... P0DP23 11807546
    24630 1k93:D (2.95) BS01 CA ? GO:0000086 ... P0DP23 11807546
    24631 1k93:D (2.95) BS02 CA ? GO:0000086 ... P0DP23 11807546
    24632 1k93:E (2.95) BS01 CA ? GO:0000086 ... P0DP23 11807546
    24633 1k93:E (2.95) BS02 CA ? GO:0000086 ... P0DP23 11807546
    24634 1k93:F (2.95) BS01 CA ? GO:0000086 ... P0DP23 11807546
    24635 1k93:F (2.95) BS02 CA ? GO:0000086 ... P0DP23 11807546
    24636 1k94:A (1.7) BS01 CA ? GO:0005509 ... P28676 11717497
    24637 1k94:A (1.7) BS02 CA ? GO:0005509 ... P28676 11717497
    24638 1k94:B (1.7) BS01 CA ? GO:0005509 ... P28676 11717497
    24639 1k96:A (1.44) BS01 CA ? GO:0001726 ... P06703 11937060
    24640 1k96:A (1.44) BS02 CA ? GO:0001726 ... P06703 11937060
    24641 1k97:A (2.0) BS01 ASP 6.3.4.5 GO:0000050 ... P0A6E4 11738042
    24642 1k97:A (2.0) BS02 CIR 6.3.4.5 GO:0000050 ... P0A6E4 11738042
    24643 1k98:A (3.75) BS01 B12 2.1.1.13 GO:0008705 ... P13009 11731805
    24644 1k9e:A (1.85) BS01 GCV 3.2.1.131 GO:0004553 ... Q09LY5 14573597
    24645 1k9f:A (1.75) BS01 XYP 3.2.1.131 GO:0004553 ... Q09LY5 14573597
    24646 1k9f:A (1.75) BS02 GCV 3.2.1.131 GO:0004553 ... Q09LY5 14573597
    24647 1k9k:A (1.76) BS01 CA ? GO:0001726 ... P06703 11937060
    24648 1k9k:A (1.76) BS02 CA ? GO:0001726 ... P06703 11937060
    24649 1k9k:B (1.76) BS01 CA ? GO:0001726 ... P06703 11937060
    24650 1k9k:B (1.76) BS02 CA ? GO:0001726 ... P06703 11937060
    24651 1k9m:1 (3.0) BS01 rna ? GO:0003735 ... P60619 12150912
    24652 1k9m:2 (3.0) BS01 rna ? GO:0003723 ... P32410 12150912
    24653 1k9m:3 (3.0) BS01 rna ? GO:0003735 ... P22452 12150912
    24654 1k9m:4 (3.0) BS01 rna ? GO:0000049 ... P32411 12150912
    24655 1k9m:4 (3.0) BS02 MG ? GO:0000049 ... P32411 12150912
    24656 1k9m:C (3.0) BS01 rna ? GO:0002181 ... P20276 12150912
    24657 1k9m:C (3.0) BS02 MG ? GO:0002181 ... P20276 12150912
    24658 1k9m:D (3.0) BS01 rna ? GO:0003723 ... P20279 12150912
    24659 1k9m:E (3.0) BS01 rna ? GO:0003723 ... P12735 12150912
    24660 1k9m:F (3.0) BS01 rna ? GO:0000049 ... P14124 12150912
    24661 1k9m:F (3.0) BS02 rna ? GO:0000049 ... P14124 12150912
    24662 1k9m:G (3.0) BS01 rna ? GO:0002181 ... P14135 12150912
    24663 1k9m:H (3.0) BS01 rna ? GO:0001682 ... P12743 12150912
    24664 1k9m:J (3.0) BS01 rna ? GO:0000027 ... P60617 12150912
    24665 1k9m:K (3.0) BS01 rna ? GO:0003729 ... P29198 12150912
    24666 1k9m:L (3.0) BS01 rna ? GO:0003735 ... P22450 12150912
    24667 1k9m:M (3.0) BS01 rna ? GO:0003735 ... P12737 12150912
    24668 1k9m:N (3.0) BS01 rna ? GO:0002181 ... P60618 12150912
    24669 1k9m:O (3.0) BS01 rna ? GO:0000027 ... P14123 12150912
    24670 1k9m:O (3.0) BS02 rna ? GO:0000027 ... P14123 12150912
    24671 1k9m:P (3.0) BS01 rna ? GO:0003723 ... P12733 12150912
    24672 1k9m:Q (3.0) BS01 rna ? GO:0003723 ... P14119 12150912
    24673 1k9m:R (3.0) BS01 rna ? GO:0003735 ... P12734 12150912
    24674 1k9m:R (3.0) BS02 rna ? GO:0003735 ... P12734 12150912
    24675 1k9m:S (3.0) BS01 rna ? GO:0002181 ... P10970 12150912
    24676 1k9m:T (3.0) BS01 rna ? GO:0000027 ... P12732 12150912
    24677 1k9m:U (3.0) BS01 rna ? GO:0002181 ... P10972 12150912
    24678 1k9m:U (3.0) BS02 MG ? GO:0002181 ... P10972 12150912
    24679 1k9m:V (3.0) BS01 rna ? GO:0003735 ... P14116 12150912
    24680 1k9m:W (3.0) BS01 rna ? GO:0003735 ... P10971 12150912
    24681 1k9m:X (3.0) BS01 rna ? GO:0000463 ... P14121 12150912
    24682 1k9m:X (3.0) BS02 rna ? GO:0000463 ... P14121 12150912
    24683 1k9m:Y (3.0) BS01 rna ? GO:0002181 ... P18138 12150912
    24684 1k9m:Z (3.0) BS01 rna ? GO:0000166 ... P12736 12150912
    24685 1k9m:Z (3.0) BS02 MG ? GO:0000166 ... P12736 12150912
    24686 1k9s:A (2.0) BS01 PO4 2.4.2.1 GO:0003824 ... P0ABP8 11786017
    24687 1k9s:A (2.0) BS02 FM2 2.4.2.1 GO:0003824 ... P0ABP8 11786017 PDBbind: -logKd/Ki=6.52, Ki=0.30uM
    24688 1k9s:B (2.0) BS01 PO4 2.4.2.1 GO:0003824 ... P0ABP8 11786017
    24689 1k9s:B (2.0) BS02 FM2 2.4.2.1 GO:0003824 ... P0ABP8 11786017
    24690 1k9s:C (2.0) BS01 PO4 2.4.2.1 GO:0003824 ... P0ABP8 11786017
    24691 1k9s:C (2.0) BS02 FM2 2.4.2.1 GO:0003824 ... P0ABP8 11786017
    24692 1k9s:D (2.0) BS01 FM2 2.4.2.1 GO:0003824 ... P0ABP8 11786017 PDBbind: -logKd/Ki=6.52, Ki=0.30uM
    24693 1k9s:D (2.0) BS02 PO4 2.4.2.1 GO:0003824 ... P0ABP8 11786017
    24694 1k9s:D (2.0) BS03 FM1 2.4.2.1 GO:0003824 ... P0ABP8 11786017
    24695 1k9s:E (2.0) BS01 FM2 2.4.2.1 GO:0003824 ... P0ABP8 11786017
    24696 1k9s:E (2.0) BS02 PO4 2.4.2.1 GO:0003824 ... P0ABP8 11786017
    24697 1k9s:E (2.0) BS03 FM1 2.4.2.1 GO:0003824 ... P0ABP8 11786017
    24698 1k9s:F (2.0) BS01 FM2 2.4.2.1 GO:0003824 ... P0ABP8 11786017
    24699 1k9s:F (2.0) BS02 PO4 2.4.2.1 GO:0003824 ... P0ABP8 11786017
    24700 1k9s:F (2.0) BS03 FM1 2.4.2.1 GO:0003824 ... P0ABP8 11786017
    24701 1k9u:A (1.75) BS01 CA ? GO:0005509 ... O82040 12356717
    24702 1k9u:A (1.75) BS02 CA ? GO:0005509 ... O82040 12356717
    24703 1k9u:B (1.75) BS01 CA ? GO:0005509 ... O82040 12356717
    24704 1k9u:B (1.75) BS02 CA ? GO:0005509 ... O82040 12356717
    24705 1k9y:A (1.9) BS01 MG 3.1.3.7 GO:0000103 ... P32179 12126627
    24706 1k9y:A (1.9) BS02 MG 3.1.3.7 GO:0000103 ... P32179 12126627
    24707 1k9y:A (1.9) BS03 AMP 3.1.3.7 GO:0000103 ... P32179 12126627
    24708 1k9z:A (1.5) BS01 ZN 3.1.3.7 GO:0000103 ... P32179 N/A
    24709 1k9z:A (1.5) BS02 ZN 3.1.3.7 GO:0000103 ... P32179 N/A
    24710 1k9z:A (1.5) BS03 ZN 3.1.3.7 GO:0000103 ... P32179 N/A
    24711 1k9z:A (1.5) BS04 ZN 3.1.3.7 GO:0000103 ... P32179 N/A
    24712 1k9z:A (1.5) BS05 ZN 3.1.3.7 GO:0000103 ... P32179 N/A
    24713 1k9z:A (1.5) BS06 ZN 3.1.3.7 GO:0000103 ... P32179 N/A
    24714 1ka0:A (1.8) BS01 AMP 3.1.3.7 GO:0000103 ... P32179 N/A
    24715 1ka1:A (1.3) BS01 CA 3.1.3.7 GO:0000103 ... P32179 12126627
    24716 1ka1:A (1.3) BS02 MG 3.1.3.7 GO:0000103 ... P32179 12126627
    24717 1ka1:A (1.3) BS03 A3P 3.1.3.7 GO:0000103 ... P32179 12126627
    24718 1ka2:A (2.2) BS01 MG 3.4.17.19 GO:0004180 ... Q8U3L0 11839307
    24719 1ka6:A (-1.00) BS01 peptide ? GO:0002250 ... O60880 11823424
    24720 1ka7:A (-1.00) BS01 peptide ? GO:0002250 ... O60880 11823424
    24721 1kae:A (1.7) BS01 ZN 1.1.1.23 GO:0000105 ... P06988 11842181
    24722 1kae:A (1.7) BS02 HSO 1.1.1.23 GO:0000105 ... P06988 11842181
    24723 1kae:A (1.7) BS03 NAD 1.1.1.23 GO:0000105 ... P06988 11842181
    24724 1kae:B (1.7) BS01 HSO 1.1.1.23 GO:0000105 ... P06988 11842181
    24725 1kae:B (1.7) BS02 ZN 1.1.1.23 GO:0000105 ... P06988 11842181
    24726 1kae:B (1.7) BS03 NAD 1.1.1.23 GO:0000105 ... P06988 11842181
    24727 1kah:A (2.1) BS01 ZN 1.1.1.23 GO:0000105 ... P06988 11842181
    24728 1kah:A (2.1) BS02 HIS 1.1.1.23 GO:0000105 ... P06988 11842181
    24729 1kah:A (2.1) BS03 HIS 1.1.1.23 GO:0000105 ... P06988 11842181
    24730 1kah:B (2.1) BS01 HIS 1.1.1.23 GO:0000105 ... P06988 11842181
    24731 1kah:B (2.1) BS02 ZN 1.1.1.23 GO:0000105 ... P06988 11842181
    24732 1kak:A (2.5) BS01 FNP 3.1.3.48 GO:0004725 ... P18031 11741477 MOAD: ic50=26uM
    PDBbind: -logKd/Ki=4.59, IC50=26uM
    24733 1kao:A (1.7) BS01 GDP 3.6.5.2 GO:0000287 ... P10114 9312017
    24734 1kap:P (1.64) BS01 peptide 3.4.24.40 GO:0001869 ... Q03023 8253063
    24735 1kap:P (1.64) BS02 ZN 3.4.24.40 GO:0001869 ... Q03023 8253063
    24736 1kap:P (1.64) BS03 CA 3.4.24.40 GO:0001869 ... Q03023 8253063
    24737 1kap:P (1.64) BS04 CA 3.4.24.40 GO:0001869 ... Q03023 8253063
    24738 1kap:P (1.64) BS05 CA 3.4.24.40 GO:0001869 ... Q03023 8253063
    24739 1kap:P (1.64) BS06 CA 3.4.24.40 GO:0001869 ... Q03023 8253063
    24740 1kap:P (1.64) BS07 CA 3.4.24.40 GO:0001869 ... Q03023 8253063
    24741 1kap:P (1.64) BS08 CA 3.4.24.40 GO:0001869 ... Q03023 8253063
    24742 1kap:P (1.64) BS09 CA 3.4.24.40 GO:0001869 ... Q03023 8253063
    24743 1kap:P (1.64) BS10 CA 3.4.24.40 GO:0001869 ... Q03023 8253063
    24744 1kaq:A (3.2) BS01 DND 2.7.7.18 GO:0003824 ... P54455 11704676
    24745 1kaq:B (3.2) BS01 DND 2.7.7.18 GO:0003824 ... P54455 11704676
    24746 1kaq:C (3.2) BS01 DND 2.7.7.18 GO:0003824 ... P54455 11704676
    24747 1kaq:D (3.2) BS01 DND 2.7.7.18 GO:0003824 ... P54455 11704676
    24748 1kaq:E (3.2) BS01 DND 2.7.7.18 GO:0003824 ... P54455 11704676
    24749 1kaq:F (3.2) BS01 DND 2.7.7.18 GO:0003824 ... P54455 11704676
    24750 1kar:A (2.1) BS01 ZN 1.1.1.23 GO:0000105 ... P06988 11842181
    24751 1kar:A (2.1) BS02 HSM 1.1.1.23 GO:0000105 ... P06988 11842181
    24752 1kar:B (2.1) BS01 HSM 1.1.1.23 GO:0000105 ... P06988 11842181
    24753 1kar:B (2.1) BS02 ZN 1.1.1.23 GO:0000105 ... P06988 11842181
    24754 1kar:B (2.1) BS03 HSM 1.1.1.23 GO:0000105 ... P06988 11842181
    24755 1kat:V (-1.00) BS01 peptide ? GO:0008083 ... P15692 11866530
    24756 1kat:V (-1.00) BS02 peptide ? GO:0008083 ... P15692 11866530
    24757 1kat:W (-1.00) BS01 peptide ? GO:0008083 ... P15692 11866530
    24758 1kat:W (-1.00) BS02 peptide ? GO:0008083 ... P15692 11866530
    24759 1kav:A (2.35) BS01 FEP 3.1.3.48 GO:0004725 ... P18031 11741477 MOAD: Ki=1.5uM
    PDBbind: -logKd/Ki=5.82, Ki=1.5uM
    24760 1kax:A (1.7) BS01 ATP 3.6.4.10 GO:0005524 ... P19120 8663302
    24761 1kay:A (1.7) BS01 ATP 3.6.4.10 GO:0005524 ... P19120 8663302
    24762 1kaz:A (1.7) BS01 ATP 3.6.4.10 GO:0005524 ... P19120 8663302
    24763 1kb0:A (1.44) BS01 CA 1.1.9.1 GO:0005509 ... Q46444 11714714
    24764 1kb0:A (1.44) BS02 HEC 1.1.9.1 GO:0005509 ... Q46444 11714714
    24765 1kb0:A (1.44) BS03 TFB 1.1.9.1 GO:0005509 ... Q46444 11714714
    24766 1kb0:A (1.44) BS04 PQQ 1.1.9.1 GO:0005509 ... Q46444 11714714
    24767 1kb2:A (2.7) BS01 dna ? GO:0003700 ... P11473 11980721
    24768 1kb2:A (2.7) BS02 dna ? GO:0003700 ... P11473 11980721
    24769 1kb2:A (2.7) BS03 ZN ? GO:0003700 ... P11473 11980721
    24770 1kb2:A (2.7) BS04 ZN ? GO:0003700 ... P11473 11980721
    24771 1kb2:B (2.7) BS01 dna ? GO:0003700 ... P11473 11980721
    24772 1kb2:B (2.7) BS02 dna ? GO:0003700 ... P11473 11980721
    24773 1kb2:B (2.7) BS03 ZN ? GO:0003700 ... P11473 11980721
    24774 1kb2:B (2.7) BS04 ZN ? GO:0003700 ... P11473 11980721
    24775 1kb3:A (2.1) BS01 CA 3.2.1.1 GO:0003824 ... P04746 11772019
    24776 1kb4:A (2.8) BS01 dna ? GO:0003700 ... P11473 11980721
    24777 1kb4:A (2.8) BS02 dna ? GO:0003700 ... P11473 11980721
    24778 1kb4:A (2.8) BS03 ZN ? GO:0003700 ... P11473 11980721
    24779 1kb4:A (2.8) BS04 ZN ? GO:0003700 ... P11473 11980721
    24780 1kb4:B (2.8) BS01 dna ? GO:0003700 ... P11473 11980721
    24781 1kb4:B (2.8) BS02 dna ? GO:0003700 ... P11473 11980721
    24782 1kb4:B (2.8) BS03 ZN ? GO:0003700 ... P11473 11980721
    24783 1kb4:B (2.8) BS04 ZN ? GO:0003700 ... P11473 11980721
    24784 1kb6:A (2.7) BS01 dna ? GO:0003700 ... P11473 11980721
    24785 1kb6:A (2.7) BS02 dna ? GO:0003700 ... P11473 11980721
    24786 1kb6:A (2.7) BS03 ZN ? GO:0003700 ... P11473 11980721
    24787 1kb6:A (2.7) BS04 ZN ? GO:0003700 ... P11473 11980721
    24788 1kb6:B (2.7) BS01 dna ? GO:0003700 ... P11473 11980721
    24789 1kb6:B (2.7) BS02 dna ? GO:0003700 ... P11473 11980721
    24790 1kb6:B (2.7) BS03 ZN ? GO:0003700 ... P11473 11980721
    24791 1kb6:B (2.7) BS04 ZN ? GO:0003700 ... P11473 11980721
    24792 1kb9:C (2.3) BS01 HEM 7.1.1.8 GO:0005739 ... P00163 11726495
    24793 1kb9:C (2.3) BS02 HEM 7.1.1.8 GO:0005739 ... P00163 11726495
    24794 1kb9:C (2.3) BS03 SMA 7.1.1.8 GO:0005739 ... P00163 11726495
    24795 1kb9:C (2.3) BS04 UQ6 7.1.1.8 GO:0005739 ... P00163 11726495
    24796 1kb9:C (2.3) BS05 PIE 7.1.1.8 GO:0005739 ... P00163 11726495
    24797 1kb9:C (2.3) BS06 CDL 7.1.1.8 GO:0005739 ... P00163 11726495
    24798 1kb9:D (2.3) BS01 PIE 7.1.1.8 GO:0009055 ... P07143 11726495
    24799 1kb9:D (2.3) BS02 CDL 7.1.1.8 GO:0009055 ... P07143 11726495
    24800 1kb9:D (2.3) BS03 HEM 7.1.1.8 GO:0009055 ... P07143 11726495
    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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