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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.
  • 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
    35801 1nw5:A (2.05) BS01 SAM 2.1.1.72 GO:0003676 ... P14751 12732637 MOAD: Kd=6.1uM
    PDBbind: -logKd/Ki=5.21, Kd=6.1uM
    35802 1nw6:A (1.94) BS01 CL 2.1.1.72 GO:0003676 ... P14751 12732637
    35803 1nw6:A (1.94) BS02 SFG 2.1.1.72 GO:0003676 ... P14751 12732637
    35804 1nw7:A (2.1) BS01 CL 2.1.1.72 GO:0003676 ... P14751 12732637
    35805 1nw7:A (2.1) BS02 SAH 2.1.1.72 GO:0003676 ... P14751 12732637 MOAD: Kd=8.1uM
    PDBbind: -logKd/Ki=5.09, Kd=8.1uM
    35806 1nw8:A (2.25) BS01 CL 2.1.1.72 GO:0003676 ... P14751 12732637
    35807 1nw9:A (2.4) BS01 ZN 2.3.2.27 N/A P98170 12620238
    35808 1nwd:A (-1.00) BS01 peptide ? GO:0005102 ... P0DP33 12684008
    35809 1nwd:A (-1.00) BS02 peptide ? GO:0005102 ... P0DP33 12684008
    35810 1nwd:A (-1.00) BS03 CA ? GO:0005102 ... P0DP33 12684008
    35811 1nwd:A (-1.00) BS04 CA ? GO:0005102 ... P0DP33 12684008
    35812 1nwd:A (-1.00) BS05 CA ? GO:0005102 ... P0DP33 12684008
    35813 1nwd:A (-1.00) BS06 CA ? GO:0005102 ... P0DP33 12684008
    35814 1nwe:A (3.1) BS01 FG1 3.1.3.48 GO:0004725 ... P18031 12733877
    35815 1nwg:A (2.32) BS01 CA ? GO:0004461 ... P29752 11485999
    35816 1nwg:B (2.32) BS01 BGN 2.4.1.-
    2.4.1.22
    2.4.1.275
    2.4.1.38
    2.4.1.90    		 GO:0005975 ... P08037 11485999
    35817 1nwg:C (2.32) BS01 CA ? GO:0004461 ... P29752 11485999
    35818 1nwg:D (2.32) BS01 BGN 2.4.1.-
    2.4.1.22
    2.4.1.275
    2.4.1.38
    2.4.1.90    		 GO:0005975 ... P08037 11485999
    35819 1nwi:A (2.5) BS01 HEM ? GO:0001666 ... P02213 12705827
    35820 1nwi:A (2.5) BS02 HEM ? GO:0001666 ... P02213 12705827
    35821 1nwi:B (2.5) BS01 HEM ? GO:0001666 ... P02213 12705827
    35822 1nwi:C (2.5) BS01 HEM ? GO:0001666 ... P02213 12705827
    35823 1nwi:C (2.5) BS02 HEM ? GO:0001666 ... P02213 12705827
    35824 1nwi:D (2.5) BS01 HEM ? GO:0001666 ... P02213 12705827
    35825 1nwi:D (2.5) BS02 HEM ? GO:0001666 ... P02213 12705827
    35826 1nwk:A (1.85) BS01 CA 3.6.4.- GO:0000287 ... P68135 12813032
    35827 1nwk:A (1.85) BS02 CA 3.6.4.- GO:0000287 ... P68135 12813032
    35828 1nwk:A (1.85) BS03 CA 3.6.4.- GO:0000287 ... P68135 12813032
    35829 1nwk:A (1.85) BS04 ANP 3.6.4.- GO:0000287 ... P68135 12813032
    35830 1nwk:A (1.85) BS05 RHO 3.6.4.- GO:0000287 ... P68135 12813032
    35831 1nwl:A (2.4) BS01 964 3.1.3.48 GO:0004725 ... P18031 12733877 PDBbind: -logKd/Ki=2.39, Ki=4.1mM
    35832 1nwn:A (2.8) BS01 HEM ? GO:0001666 ... P02213 12705827
    35833 1nwn:A (2.8) BS02 HEM ? GO:0001666 ... P02213 12705827
    35834 1nwn:B (2.8) BS01 HEM ? GO:0001666 ... P02213 12705827
    35835 1nwn:B (2.8) BS02 HEM ? GO:0001666 ... P02213 12705827
    35836 1nwo:A (1.92) BS01 CU ? GO:0005507 ... P34097 9761890
    35837 1nwo:B (1.92) BS01 CU ? GO:0005507 ... P34097 9761890
    35838 1nwp:A (1.6) BS01 CU ? GO:0005507 ... P34097 9761890
    35839 1nwp:A (1.6) BS02 ZN ? GO:0005507 ... P34097 9761890
    35840 1nwp:B (1.6) BS01 CU ? GO:0005507 ... P34097 9761890
    35841 1nwq:A (2.8) BS01 dna ? GO:0003700 ... P05554 12578822
    35842 1nwq:A (2.8) BS02 dna ? GO:0003700 ... P05554 12578822
    35843 1nwq:C (2.8) BS01 dna ? GO:0003700 ... P05554 12578822
    35844 1nwq:C (2.8) BS02 dna ? GO:0003700 ... P05554 12578822
    35845 1nww:A (1.2) BS01 HPN 3.3.2.8 GO:0016787 ... Q9ZAG3 12773375
    35846 1nwx:3 (3.5) BS01 rna ? GO:0003735 ... Q9RSW6 12623020
    35847 1nwx:4 (3.5) BS01 rna ? GO:0003735 ... Q9RSK0 12623020
    35848 1nwx:A (3.5) BS01 rna ? GO:0002181 ... Q9RXJ9 12623020
    35849 1nwx:B (3.5) BS01 rna ? GO:0003735 ... Q9RXK2 12623020
    35850 1nwx:C (3.5) BS01 rna ? GO:0003735 ... Q9RXK1 12623020
    35851 1nwx:E (3.5) BS01 rna ? GO:0002181 ... Q9RSL3 12623020
    35852 1nwx:I (3.5) BS01 rna ? GO:0003735 ... Q9RXJ2 12623020
    35853 1nwx:J (3.5) BS01 rna ? GO:0003735 ... Q9RSK9 12623020
    35854 1nwx:L (3.5) BS01 rna ? GO:0003735 ... Q9RSJ5 12623020
    35855 1nwx:M (3.5) BS01 rna ? GO:0003735 ... Q9RSL2 12623020
    35856 1nwx:O (3.5) BS01 rna ? GO:0000027 ... Q9RSW7 12623020
    35857 1nwx:Q (3.5) BS01 rna ? GO:0003735 ... Q9RXJ7 12623020
    35858 1nwx:T (3.5) BS01 rna ? GO:0000049 ... Q9RX88 12623020
    35859 1nwx:X (3.5) BS01 rna ? GO:0003735 ... Q9RSL0 12623020
    35860 1nwx:Y (3.5) BS01 rna ? GO:0000049 ... Q9RW44 12623020
    35861 1nwx:Z (3.5) BS01 rna ? GO:0003735 ... P49228 12623020
    35862 1nwy:3 (3.3) BS01 rna ? GO:0003735 ... Q9RSW6 12623020
    35863 1nwy:4 (3.3) BS01 rna ? GO:0003735 ... Q9RSK0 12623020
    35864 1nwy:A (3.3) BS01 rna ? GO:0002181 ... Q9RXJ9 12623020
    35865 1nwy:B (3.3) BS01 rna ? GO:0003735 ... Q9RXK2 12623020
    35866 1nwy:C (3.3) BS01 rna ? GO:0003735 ... Q9RXK1 12623020
    35867 1nwy:E (3.3) BS01 rna ? GO:0002181 ... Q9RSL3 12623020
    35868 1nwy:I (3.3) BS01 rna ? GO:0003735 ... Q9RXJ2 12623020
    35869 1nwy:J (3.3) BS01 rna ? GO:0003735 ... Q9RSK9 12623020
    35870 1nwy:L (3.3) BS01 rna ? GO:0003735 ... Q9RSJ5 12623020
    35871 1nwy:M (3.3) BS01 rna ? GO:0003735 ... Q9RSL2 12623020
    35872 1nwy:O (3.3) BS01 rna ? GO:0000027 ... Q9RSW7 12623020
    35873 1nwy:Q (3.3) BS01 rna ? GO:0003735 ... Q9RXJ7 12623020
    35874 1nwy:T (3.3) BS01 rna ? GO:0000049 ... Q9RX88 12623020
    35875 1nwy:X (3.3) BS01 rna ? GO:0003735 ... Q9RSL0 12623020
    35876 1nwy:Y (3.3) BS01 rna ? GO:0000049 ... Q9RW44 12623020
    35877 1nwy:Z (3.3) BS01 rna ? GO:0003735 ... P49228 12623020
    35878 1nx0:A (2.3) BS01 peptide ? GO:0005509 ... P04574 12684003
    35879 1nx0:A (2.3) BS02 peptide ? GO:0005509 ... P04574 12684003
    35880 1nx0:A (2.3) BS03 CA ? GO:0005509 ... P04574 12684003
    35881 1nx0:A (2.3) BS04 CA ? GO:0005509 ... P04574 12684003
    35882 1nx0:A (2.3) BS05 CA ? GO:0005509 ... P04574 12684003
    35883 1nx0:B (2.3) BS01 peptide ? GO:0005509 ... P04574 12684003
    35884 1nx0:B (2.3) BS02 CA ? GO:0005509 ... P04574 12684003
    35885 1nx0:B (2.3) BS03 CA ? GO:0005509 ... P04574 12684003
    35886 1nx0:B (2.3) BS04 CA ? GO:0005509 ... P04574 12684003
    35887 1nx1:A (2.0) BS01 peptide ? GO:0005509 ... P04574 12684003
    35888 1nx1:A (2.0) BS02 CA ? GO:0005509 ... P04574 12684003
    35889 1nx1:A (2.0) BS03 CA ? GO:0005509 ... P04574 12684003
    35890 1nx1:A (2.0) BS04 CA ? GO:0005509 ... P04574 12684003
    35891 1nx1:A (2.0) BS05 CA ? GO:0005509 ... P04574 12684003
    35892 1nx1:B (2.0) BS01 peptide ? GO:0005509 ... P04574 12684003
    35893 1nx1:B (2.0) BS02 CA ? GO:0005509 ... P04574 12684003
    35894 1nx1:B (2.0) BS03 CA ? GO:0005509 ... P04574 12684003
    35895 1nx1:B (2.0) BS04 CA ? GO:0005509 ... P04574 12684003
    35896 1nx1:B (2.0) BS05 CA ? GO:0005509 ... P04574 12684003
    35897 1nx2:A (2.2) BS01 CA ? GO:0005509 ... P04574 12684003
    35898 1nx2:A (2.2) BS02 CA ? GO:0005509 ... P04574 12684003
    35899 1nx2:A (2.2) BS03 CA ? GO:0005509 ... P04574 12684003
    35900 1nx2:A (2.2) BS04 CA ? GO:0005509 ... P04574 12684003
    35901 1nx3:A (2.45) BS01 CA ? GO:0005509 ... P04574 12684003
    35902 1nx3:A (2.45) BS02 CA ? GO:0005509 ... P04574 12684003
    35903 1nx3:A (2.45) BS03 CA ? GO:0005509 ... P04574 12684003
    35904 1nx3:A (2.45) BS04 CA ? GO:0005509 ... P04574 12684003
    35905 1nx3:A (2.45) BS05 ISA ? GO:0005509 ... P04574 12684003
    35906 1nx4:A (2.4) BS01 FE 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    35907 1nx4:A (2.4) BS02 AKG 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    35908 1nx4:B (2.4) BS01 FE 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    35909 1nx4:B (2.4) BS02 AKG 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    35910 1nx4:C (2.4) BS01 FE 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    35911 1nx4:C (2.4) BS02 AKG 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    35912 1nx6:A (2.15) BS01 PO4 1.2.1.11 GO:0004073 ... P44801 14559965
    35913 1nx6:A (2.15) BS02 PO4 1.2.1.11 GO:0004073 ... P44801 14559965
    35914 1nx7:A (-1.00) BS01 HEM ? GO:0020037 ... P00171 15273310
    35915 1nx8:A (2.3) BS01 FE 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    35916 1nx8:A (2.3) BS02 AKG 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    35917 1nx8:B (2.3) BS01 FE 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    35918 1nx8:B (2.3) BS02 AKG 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    35919 1nx8:B (2.3) BS03 N7P 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    35920 1nx8:C (2.3) BS01 FE 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    35921 1nx8:C (2.3) BS02 AKG 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    35922 1nx8:C (2.3) BS03 N7P 1.14.20.3 GO:0005737 ... Q9XB59 12611886
    35923 1nx9:A (2.2) BS01 AIC 3.1.1.43 GO:0008239 ... Q8VRK8 16377627
    35924 1nx9:B (2.2) BS01 AIC 3.1.1.43 GO:0008239 ... Q8VRK8 16377627
    35925 1nx9:C (2.2) BS01 AIC 3.1.1.43 GO:0008239 ... Q8VRK8 16377627
    35926 1nx9:D (2.2) BS01 AIC 3.1.1.43 GO:0008239 ... Q8VRK8 16377627
    35927 1nxc:A (1.51) BS01 MAN 3.2.1.113 GO:0004571 ... P45700 15102839
    35928 1nxd:1 (1.9) BS01 AZI ? GO:0030246 ... P02866 15159564
    35929 1nxd:1 (1.9) BS02 AZI ? GO:0030246 ... P02866 15159564
    35930 1nxd:1 (1.9) BS03 AZI ? GO:0030246 ... P02866 15159564
    35931 1nxd:1 (1.9) BS04 MN ? GO:0030246 ... P02866 15159564
    35932 1nxd:1 (1.9) BS05 MN ? GO:0030246 ... P02866 15159564
    35933 1nxd:1 (1.9) BS06 AZI ? GO:0030246 ... P02866 15159564
    35934 1nxd:2 (1.9) BS01 AZI ? GO:0030246 ... P02866 15159564
    35935 1nxd:2 (1.9) BS02 AZI ? GO:0030246 ... P02866 15159564
    35936 1nxd:2 (1.9) BS03 AZI ? GO:0030246 ... P02866 15159564
    35937 1nxd:2 (1.9) BS04 MN ? GO:0030246 ... P02866 15159564
    35938 1nxd:2 (1.9) BS05 MN ? GO:0030246 ... P02866 15159564
    35939 1nxd:3 (1.9) BS01 AZI ? GO:0030246 ... P02866 15159564
    35940 1nxd:3 (1.9) BS02 AZI ? GO:0030246 ... P02866 15159564
    35941 1nxd:3 (1.9) BS03 MN ? GO:0030246 ... P02866 15159564
    35942 1nxd:3 (1.9) BS04 MN ? GO:0030246 ... P02866 15159564
    35943 1nxd:4 (1.9) BS01 AZI ? GO:0030246 ... P02866 15159564
    35944 1nxd:4 (1.9) BS02 AZI ? GO:0030246 ... P02866 15159564
    35945 1nxd:4 (1.9) BS03 AZI ? GO:0030246 ... P02866 15159564
    35946 1nxd:4 (1.9) BS04 MN ? GO:0030246 ... P02866 15159564
    35947 1nxd:4 (1.9) BS05 MN ? GO:0030246 ... P02866 15159564
    35948 1nxf:A (1.85) BS01 HEM ? GO:0001666 ... P02213 12705827
    35949 1nxf:B (1.85) BS01 HEM ? GO:0001666 ... P02213 12705827
    35950 1nxg:A (2.5) BS01 NAI 2.3.3.16 GO:0004108 ... P0ABH7 12741811
    35951 1nxg:B (2.5) BS01 NAI 2.3.3.16 GO:0004108 ... P0ABH7 12741811
    35952 1nxj:A (1.9) BS01 GLV 4.1.1.112
    4.1.3.17    		 GO:0008428 ... P9WGY3 12837779
    35953 1nxj:B (1.9) BS01 GLV 4.1.1.112
    4.1.3.17    		 GO:0008428 ... P9WGY3 12837779
    35954 1nxj:C (1.9) BS01 GLV 4.1.1.112
    4.1.3.17    		 GO:0008428 ... P9WGY3 12837779
    35955 1nxk:A (2.7) BS01 STU 2.7.11.1 GO:0000165 ... P49137 12791252
    35956 1nxk:B (2.7) BS01 STU 2.7.11.1 GO:0000165 ... P49137 12791252
    35957 1nxk:C (2.7) BS01 STU 2.7.11.1 GO:0000165 ... P49137 12791252
    35958 1nxk:D (2.7) BS01 STU 2.7.11.1 GO:0000165 ... P49137 12791252
    35959 1nxp:A (1.82) BS01 PHS ? GO:0000160 ... A0A0H2UQ68 15090529
    35960 1nxt:A (2.34) BS01 XE ? GO:0000160 ... A0A0H2UQ68 15090529
    35961 1nxy:A (1.6) BS01 SM2 3.5.2.6 GO:0005515 ... P62593 12859188 PDBbind: -logKd/Ki=7.19, Ki=64nM
    35962 1nxy:A (1.6) BS02 SM2 3.5.2.6 GO:0005515 ... P62593 12859188 PDBbind: -logKd/Ki=7.19, Ki=64nM
    35963 1ny0:A (1.75) BS01 NBF 3.5.2.6 GO:0005515 ... P62593 12859188 PDBbind: -logKd/Ki=5.85, Ki=1.4uM
    35964 1ny2:2 (2.3) BS01 peptide 3.4.21.5 GO:0004252 ... P00734 12598231
    35965 1ny2:2 (2.3) BS02 peptide 3.4.21.5 GO:0004252 ... P00734 12598231
    35966 1ny3:A (3.0) BS01 ADP 2.7.11.1 GO:0000165 ... P49137 12791252
    35967 1ny5:A (2.4) BS01 ADP ? GO:0000160 ... O67198 14561776
    35968 1ny5:B (2.4) BS01 ADP ? GO:0000160 ... O67198 14561776
    35969 1ny6:A (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    35970 1ny6:B (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    35971 1ny6:C (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    35972 1ny6:D (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    35973 1ny6:E (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    35974 1ny6:F (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    35975 1ny6:G (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    35976 1ny6:H (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    35977 1ny6:I (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    35978 1ny6:J (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    35979 1ny6:K (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    35980 1ny6:L (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    35981 1ny6:M (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    35982 1ny6:N (3.1) BS01 ADP ? GO:0005524 ... O67198 14561776
    35983 1nya:A (-1.00) BS01 CA ? GO:0005509 ... P06495 12755706
    35984 1nya:A (-1.00) BS02 CA ? GO:0005509 ... P06495 12755706
    35985 1nya:A (-1.00) BS03 CA ? GO:0005509 ... P06495 12755706
    35986 1nyk:A (1.31) BS01 FES ? GO:0016020 ... Q5SGZ9 12809486
    35987 1nyk:B (1.31) BS01 FES ? GO:0016020 ... Q5SGZ9 12809486
    35988 1nym:A (1.2) BS01 CXB 3.5.2.6 GO:0005515 ... P62593 12859188 PDBbind: -logKd/Ki=5.40, Ki=4.0uM
    35989 1nyp:A (-1.00) BS01 ZN ? N/A P48059 12794636
    35990 1nyp:A (-1.00) BS02 ZN ? N/A P48059 12794636
    35991 1nyq:A (3.2) BS01 ZN 6.1.1.3 GO:0000049 ... Q8NW68 12875846
    35992 1nyq:A (3.2) BS02 TSB 6.1.1.3 GO:0000049 ... Q8NW68 12875846
    35993 1nyq:B (3.2) BS01 ZN 6.1.1.3 GO:0000049 ... Q8NW68 12875846
    35994 1nyq:B (3.2) BS02 TSB 6.1.1.3 GO:0000049 ... Q8NW68 12875846
    35995 1nyr:A (2.8) BS01 ZN 6.1.1.3 GO:0000049 ... Q8NW68 12875846
    35996 1nyr:A (2.8) BS02 ZN 6.1.1.3 GO:0000049 ... Q8NW68 12875846
    35997 1nyr:A (2.8) BS03 ATP 6.1.1.3 GO:0000049 ... Q8NW68 12875846
    35998 1nyr:A (2.8) BS04 THR 6.1.1.3 GO:0000049 ... Q8NW68 12875846
    35999 1nyr:B (2.8) BS01 ZN 6.1.1.3 GO:0000049 ... Q8NW68 12875846
    36000 1nyr:B (2.8) BS02 ATP 6.1.1.3 GO:0000049 ... Q8NW68 12875846
    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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