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●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 45686 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.
  • The sequence is converted from residues with experimentally determined coordinates in the structure; residues not observed in the 3D structure are excluded.
  • 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)     		Site
    #     		DNA
    sequence         		EC
    number     		GO
    terms     		UniProt PubMed Binding
    affinity
    1001 1jgg:A
    (2.0)    		 BS01 >1jgg:C
    taattgaatt
    		 ? GO:0000981 ... P06602 8557047
    1002 1jgg:A
    (2.0)    		 BS02 >1jgg:D
    aattcaatta
    		 ? GO:0000981 ... P06602 8557047
    1003 1jgg:B
    (2.0)    		 BS01 >1jgg:C
    taattgaatt
    		 ? GO:0000981 ... P06602 8557047
    1004 1jgg:B
    (2.0)    		 BS02 >1jgg:D
    aattcaatta
    		 ? GO:0000981 ... P06602 8557047
    1005 1jh9:A
    (2.55)    		 BS01 >1jh9:B (identical to 1pnr:B, 1wet:B)
    aacgaaaacgttttcgt
    		 ? GO:0000976 ... P0ACP7 11781089 PDBbind: Kd=2nM
    1006 1jj4:A
    (2.4)    		 BS01 >1jj4:C (identical to 2ayb:C, 2ayb:D, 1jj4:D)
    caaccgaattcggttg
    		 ? GO:0003677 ... P06790 10906136 PDBbind: Kd=1.6nM
    1007 1jj4:A
    (2.4)    		 BS02 >1jj4:D (identical to 2ayb:C, 2ayb:D, 1jj4:C)
    caaccgaattcggttg
    		 ? GO:0003677 ... P06790 10906136 PDBbind: Kd=1.6nM
    1008 1jj4:B
    (2.4)    		 BS01 >1jj4:C (identical to 2ayb:C, 2ayb:D, 1jj4:D)
    caaccgaattcggttg
    		 ? GO:0003677 ... P06790 10906136 PDBbind: Kd=1.6nM
    1009 1jj4:B
    (2.4)    		 BS02 >1jj4:D (identical to 2ayb:C, 2ayb:D, 1jj4:C)
    caaccgaattcggttg
    		 ? GO:0003677 ... P06790 10906136 PDBbind: Kd=1.6nM
    1010 1jj6:C
    (2.3)    		 BS01 >1jj6:A
    tgtutttgataaga
    		 ? GO:0000150 ... P03013 11847127
    1011 1jj6:C
    (2.3)    		 BS02 >1jj6:B (identical to 1ijw:B, 1jj8:B)
    atcttatcaaaaac
    		 ? GO:0000150 ... P03013 11847127
    1012 1jj8:C
    (2.75)    		 BS01 >1jj8:A
    tguttttgataaga
    		 ? GO:0000150 ... P03013 11847127
    1013 1jj8:C
    (2.75)    		 BS02 >1jj8:B (identical to 1ijw:B, 1jj6:B)
    atcttatcaaaaac
    		 ? GO:0000150 ... P03013 11847127
    1014 1jk1:A
    (1.9)    		 BS01 >1jk1:B
    agcgtgggcgg
    		 ? N/A P08046 11800559 PDBbind: Kd=26pM
    1015 1jk1:A
    (1.9)    		 BS02 >1jk1:C
    tccgcccacgc
    		 ? N/A P08046 11800559 PDBbind: Kd=26pM
    1016 1jk2:A
    (1.65)    		 BS01 >1jk2:B
    agcgtgggctg
    		 ? N/A P08046 11800559 PDBbind: Kd=43pM
    1017 1jk2:A
    (1.65)    		 BS02 >1jk2:C
    tcagcccacgc
    		 ? N/A P08046 11800559 PDBbind: Kd=43pM
    1018 1jko:C
    (2.24)    		 BS01 >1jko:A
    tgtttttggtaaga
    		 ? GO:0000150 ... P03013 11847127 PDBbind: Kd=7.6nM
    1019 1jko:C
    (2.24)    		 BS02 >1jko:B
    atcttaccaaaaac
    		 ? GO:0000150 ... P03013 11847127 PDBbind: Kd=7.6nM
    1020 1jkp:C
    (2.8)    		 BS01 >1jkp:A
    tgtttttgagaaga
    		 ? GO:0000150 ... P03013 11847127 PDBbind: Kd=2.05nM
    1021 1jkp:C
    (2.8)    		 BS02 >1jkp:B
    atcttctcaaaaac
    		 ? GO:0000150 ... P03013 11847127 PDBbind: Kd=2.05nM
    1022 1jkq:C
    (2.86)    		 BS01 >1jkq:A
    tgttttttataaga
    		 ? GO:0000150 ... P03013 11847127 PDBbind: Kd=27.1nM
    1023 1jkq:C
    (2.86)    		 BS02 >1jkq:B
    atcttataaaaaac
    		 ? GO:0000150 ... P03013 11847127 PDBbind: Kd=27.1nM
    1024 1jkr:C
    (2.28)    		 BS01 >1jkr:A
    tgtttttgacaaga
    		 ? GO:0000150 ... P03013 11847127 PDBbind: Kd=97.4nM
    1025 1jkr:C
    (2.28)    		 BS02 >1jkr:B
    atcttgtcaaaaac
    		 ? GO:0000150 ... P03013 11847127 PDBbind: Kd=97.4nM
    1026 1jmc:A
    (2.4)    		 BS01 >1jmc:B (identical to 7r07:J, 5xs0:X)
    cccccccc
    		 ? GO:0003676 ... P27694 8990123
    1027 1jnm:A
    (2.2)    		 BS01 >1jnm:C (identical to 1jnm:D)
    cgtcgatgacgtcatcgacg
    		 ? GO:0003677 ... P05412 N/A
    1028 1jnm:A
    (2.2)    		 BS02 >1jnm:D (identical to 1jnm:C)
    cgtcgatgacgtcatcgacg
    		 ? GO:0003677 ... P05412 N/A
    1029 1jnm:B
    (2.2)    		 BS01 >1jnm:C (identical to 1jnm:D)
    cgtcgatgacgtcatcgacg
    		 ? GO:0003677 ... P05412 N/A
    1030 1jnm:B
    (2.2)    		 BS02 >1jnm:D (identical to 1jnm:C)
    cgtcgatgacgtcatcgacg
    		 ? GO:0003677 ... P05412 N/A
    1031 1jt0:A
    (2.9)    		 BS01 >1jt0:E (identical to 1jt0:F)
    cttatagaccgatcgatcggtctataag
    		 ? GO:0003677 ... P0A0N4 11867549 PDBbind: Kd=49nM
    1032 1jt0:A
    (2.9)    		 BS02 >1jt0:F (identical to 1jt0:E)
    cttatagaccgatcgatcggtctataag
    		 ? GO:0003677 ... P0A0N4 11867549 PDBbind: Kd=49nM
    1033 1jt0:B
    (2.9)    		 BS01 >1jt0:E (identical to 1jt0:F)
    cttatagaccgatcgatcggtctataag
    		 ? GO:0003677 ... P0A0N4 11867549 PDBbind: Kd=49nM
    1034 1jt0:B
    (2.9)    		 BS02 >1jt0:F (identical to 1jt0:E)
    cttatagaccgatcgatcggtctataag
    		 ? GO:0003677 ... P0A0N4 11867549 PDBbind: Kd=49nM
    1035 1jt0:C
    (2.9)    		 BS01 >1jt0:E (identical to 1jt0:F)
    cttatagaccgatcgatcggtctataag
    		 ? GO:0003677 ... P0A0N4 11867549 PDBbind: Kd=49nM
    1036 1jt0:C
    (2.9)    		 BS02 >1jt0:F (identical to 1jt0:E)
    cttatagaccgatcgatcggtctataag
    		 ? GO:0003677 ... P0A0N4 11867549 PDBbind: Kd=49nM
    1037 1jt0:D
    (2.9)    		 BS01 >1jt0:E (identical to 1jt0:F)
    cttatagaccgatcgatcggtctataag
    		 ? GO:0003677 ... P0A0N4 11867549 PDBbind: Kd=49nM
    1038 1jt0:D
    (2.9)    		 BS02 >1jt0:F (identical to 1jt0:E)
    cttatagaccgatcgatcggtctataag
    		 ? GO:0003677 ... P0A0N4 11867549 PDBbind: Kd=49nM
    1039 1jwl:A
    (4.0)    		 BS01 >1jwl:E
    gttatccgctcaca
    		 ? GO:0000976 ... P03023 11580238
    1040 1jwl:B
    (4.0)    		 BS01 >1jwl:D
    tgtgagcggataac
    		 ? GO:0000976 ... P03023 11580238
    1041 1jwl:B
    (4.0)    		 BS02 >1jwl:E
    gttatccgctcaca
    		 ? GO:0000976 ... P03023 11580238
    1042 1jx4:A
    (1.7)    		 BS01 >1jx4:P (identical to 1n48:B, 1s10:B, 1s9f:E, 1s9f:F, 1s9f:G, 1s9f:H, 2va2:C, 2va2:E, 2va3:P)
    gggggaaggacta
    		 2.7.7.7 GO:0000287 ... Q97W02 11595188
    1043 1jx4:A
    (1.7)    		 BS02 >1jx4:T
    tcattagtccttccccc
    		 2.7.7.7 GO:0000287 ... Q97W02 11595188
    1044 1jxl:A
    (2.1)    		 BS01 >1jxl:P (identical to 3pw7:C, 3pw7:G, 4tqr:P, 4tqs:C, 4tqs:P)
    gggggaaggatt
    		 2.7.7.7 GO:0000287 ... Q97W02 11595188
    1045 1jxl:A
    (2.1)    		 BS02 >1jxl:T
    tcgaaucctuccccc
    		 2.7.7.7 GO:0000287 ... Q97W02 11595188
    1046 1k3w:A
    (1.42)    		 BS01 >1k3w:B
    tcatcctg
    		 3.2.2.-
    4.2.99.18    		 GO:0000703 ... P50465 11847126
    1047 1k3w:A
    (1.42)    		 BS02 >1k3w:C (identical to 2oq4:F)
    caggacgaagc
    		 3.2.2.-
    4.2.99.18    		 GO:0000703 ... P50465 11847126
    1048 1k3x:A
    (1.25)    		 BS01 >1k3x:B
    cuucauccug
    		 3.2.2.-
    4.2.99.18    		 GO:0000703 ... P50465 11847126
    1049 1k3x:A
    (1.25)    		 BS02 >1k3x:C
    caggacgaag
    		 3.2.2.-
    4.2.99.18    		 GO:0000703 ... P50465 11847126
    1050 1k4s:A
    (3.2)    		 BS01 >1k4s:B (identical to 1nh3:B)
    aaaaagacuu
    		 5.6.2.1 GO:0003677 ... P11387 12426403
    1051 1k4s:A
    (3.2)    		 BS02 >1k4s:C
    tgaaaaauuuut
    		 5.6.2.1 GO:0003677 ... P11387 12426403
    1052 1k4s:A
    (3.2)    		 BS03 >1k4s:D
    aaaaatuuuucaaagucuuuut
    		 5.6.2.1 GO:0003677 ... P11387 12426403
    1053 1k4t:A
    (2.1)    		 BS01 >1k4t:B (identical to 2b9s:C, 1sc7:B, 1seu:B, 1t8i:B, 1tl8:B)
    aaaaagactt
    		 5.6.2.1 GO:0003677 ... P11387 12426403
    1054 1k4t:A
    (2.1)    		 BS02 >1k4t:C (identical to 1sc7:C, 1seu:C, 1t8i:C)
    ggaaaaattttt
    		 5.6.2.1 GO:0003677 ... P11387 12426403
    1055 1k4t:A
    (2.1)    		 BS03 >1k4t:D (identical to 1lpq:C, 1rr8:B, 1rrj:C, 1sc7:D, 1seu:D, 1t8i:D)
    aaaaatttttccaagtcttttt
    		 5.6.2.1 GO:0003677 ... P11387 12426403
    1056 1k61:A
    (2.1)    		 BS01 >1k61:E (identical to 1apl:A)
    acatgtaattcatttacacgc
    		 ? GO:0003677 ... P0CY08 12466549
    1057 1k61:A
    (2.1)    		 BS02 >1k61:F
    ugcgtgtaaatgaattacatg
    		 ? GO:0003677 ... P0CY08 12466549
    1058 1k61:B
    (2.1)    		 BS01 >1k61:E (identical to 1apl:A)
    acatgtaattcatttacacgc
    		 ? GO:0003677 ... P0CY08 12466549
    1059 1k61:B
    (2.1)    		 BS02 >1k61:F
    ugcgtgtaaatgaattacatg
    		 ? GO:0003677 ... P0CY08 12466549
    1060 1k61:C
    (2.1)    		 BS01 >1k61:E (identical to 1apl:A)
    acatgtaattcatttacacgc
    		 ? GO:0003677 ... P0CY08 12466549
    1061 1k61:D
    (2.1)    		 BS01 >1k61:E (identical to 1apl:A)
    acatgtaattcatttacacgc
    		 ? GO:0003677 ... P0CY08 12466549
    1062 1k61:D
    (2.1)    		 BS02 >1k61:F
    ugcgtgtaaatgaattacatg
    		 ? GO:0003677 ... P0CY08 12466549
    1063 1k6o:A
    (3.19)    		 BS01 >1k6o:D
    cacaggatgtccatattaggaca
    		 ? GO:0003700 ... P28324 11846562
    1064 1k6o:A
    (3.19)    		 BS02 >1k6o:E
    tgtcctaatatggacatcctgtg
    		 ? GO:0003700 ... P28324 11846562
    1065 1k6o:B
    (3.19)    		 BS01 >1k6o:D
    cacaggatgtccatattaggaca
    		 ? GO:0000981 ... P11831 11846562
    1066 1k6o:B
    (3.19)    		 BS02 >1k6o:E
    tgtcctaatatggacatcctgtg
    		 ? GO:0000981 ... P11831 11846562
    1067 1k6o:C
    (3.19)    		 BS01 >1k6o:D
    cacaggatgtccatattaggaca
    		 ? GO:0000981 ... P11831 11846562
    1068 1k6o:C
    (3.19)    		 BS02 >1k6o:E
    tgtcctaatatggacatcctgtg
    		 ? GO:0000981 ... P11831 11846562
    1069 1k78:A
    (2.25)    		 BS01 >1k78:C (identical to 1k78:G)
    ttgtgccggagatgggctccagtggcc
    		 ? GO:0003677 ... Q02548 11779502
    1070 1k78:A
    (2.25)    		 BS02 >1k78:D (identical to 1k78:H)
    aaggccactggagcccatctccggcac
    		 ? GO:0003677 ... Q02548 11779502
    1071 1k78:B
    (2.25)    		 BS01 >1k78:C (identical to 1k78:G)
    ttgtgccggagatgggctccagtggcc
    		 ? GO:0003700 ... P27577 11779502
    1072 1k78:B
    (2.25)    		 BS02 >1k78:D (identical to 1k78:H)
    aaggccactggagcccatctccggcac
    		 ? GO:0003700 ... P27577 11779502
    1073 1k78:E
    (2.25)    		 BS01 >1k78:G (identical to 1k78:C)
    ttgtgccggagatgggctccagtggcc
    		 ? GO:0003677 ... Q02548 11779502
    1074 1k78:E
    (2.25)    		 BS02 >1k78:H (identical to 1k78:D)
    aaggccactggagcccatctccggcac
    		 ? GO:0003677 ... Q02548 11779502
    1075 1k78:F
    (2.25)    		 BS01 >1k78:G (identical to 1k78:C)
    ttgtgccggagatgggctccagtggcc
    		 ? GO:0003700 ... P27577 11779502
    1076 1k78:F
    (2.25)    		 BS02 >1k78:H (identical to 1k78:D)
    aaggccactggagcccatctccggcac
    		 ? GO:0003700 ... P27577 11779502
    1077 1k78:I
    (2.25)    		 BS01 >1k78:C (identical to 1k78:G)
    ttgtgccggagatgggctccagtggcc
    		 ? GO:0003677 ... Q02548 11779502
    1078 1k78:I
    (2.25)    		 BS02 >1k78:D (identical to 1k78:H)
    aaggccactggagcccatctccggcac
    		 ? GO:0003677 ... Q02548 11779502
    1079 1k79:A
    (2.4)    		 BS01 >1k79:B (identical to 1k79:E)
    tagtgccggaaatgt
    		 ? GO:0003700 ... P27577 11779502
    1080 1k79:A
    (2.4)    		 BS02 >1k79:C (identical to 1k79:F)
    cacatttccggcact
    		 ? GO:0003700 ... P27577 11779502
    1081 1k79:D
    (2.4)    		 BS01 >1k79:E (identical to 1k79:B)
    tagtgccggaaatgt
    		 ? GO:0003700 ... P27577 11779502
    1082 1k79:D
    (2.4)    		 BS02 >1k79:F (identical to 1k79:C)
    cacatttccggcact
    		 ? GO:0003700 ... P27577 11779502
    1083 1k7a:A
    (2.8)    		 BS01 >1k7a:B (identical to 1k7a:E)
    tagtgccggagatgt
    		 ? GO:0003700 ... P27577 11779502
    1084 1k7a:A
    (2.8)    		 BS02 >1k7a:C
    cacatctccggcact
    		 ? GO:0003700 ... P27577 11779502
    1085 1k7a:D
    (2.8)    		 BS01 >1k7a:E (identical to 1k7a:B)
    tagtgccggagatgt
    		 ? GO:0003700 ... P27577 11779502
    1086 1k7a:D
    (2.8)    		 BS02 >1k7a:F
    acatctccggcact
    		 ? GO:0003700 ... P27577 11779502
    1087 1k82:A
    (2.1)    		 BS01 >1k82:E (identical to 1k82:F, 1k82:G, 1k82:H)
    ggcttcctcctgg
    		 3.2.2.23
    4.2.99.18    		 GO:0000703 ... P05523 11912217
    1088 1k82:A
    (2.1)    		 BS02 >1k82:I (identical to 6fbu:C, 2fcc:C, 2fcc:E, 1k82:J, 1k82:K, 1k82:L)
    ccaggacgaagcc
    		 3.2.2.23
    4.2.99.18    		 GO:0000703 ... P05523 11912217
    1089 1k82:A
    (2.1)    		 BS03 >1k82:J (identical to 6fbu:C, 2fcc:C, 2fcc:E, 1k82:I, 1k82:K, 1k82:L)
    ccaggacgaagcc
    		 3.2.2.23
    4.2.99.18    		 GO:0000703 ... P05523 11912217
    1090 1k82:B
    (2.1)    		 BS01 >1k82:I (identical to 6fbu:C, 2fcc:C, 2fcc:E, 1k82:J, 1k82:K, 1k82:L)
    ccaggacgaagcc
    		 3.2.2.23
    4.2.99.18    		 GO:0000703 ... P05523 11912217
    1091 1k82:B
    (2.1)    		 BS02 >1k82:F (identical to 1k82:E, 1k82:G, 1k82:H)
    ggcttcctcctgg
    		 3.2.2.23
    4.2.99.18    		 GO:0000703 ... P05523 11912217
    1092 1k82:B
    (2.1)    		 BS03 >1k82:J (identical to 6fbu:C, 2fcc:C, 2fcc:E, 1k82:I, 1k82:K, 1k82:L)
    ccaggacgaagcc
    		 3.2.2.23
    4.2.99.18    		 GO:0000703 ... P05523 11912217
    1093 1k82:C
    (2.1)    		 BS01 >1k82:G (identical to 1k82:E, 1k82:F, 1k82:H)
    ggcttcctcctgg
    		 3.2.2.23
    4.2.99.18    		 GO:0000703 ... P05523 11912217
    1094 1k82:C
    (2.1)    		 BS02 >1k82:K (identical to 6fbu:C, 2fcc:C, 2fcc:E, 1k82:I, 1k82:J, 1k82:L)
    ccaggacgaagcc
    		 3.2.2.23
    4.2.99.18    		 GO:0000703 ... P05523 11912217
    1095 1k82:C
    (2.1)    		 BS03 >1k82:L (identical to 6fbu:C, 2fcc:C, 2fcc:E, 1k82:I, 1k82:J, 1k82:K)
    ccaggacgaagcc
    		 3.2.2.23
    4.2.99.18    		 GO:0000703 ... P05523 11912217
    1096 1k82:D
    (2.1)    		 BS01 >1k82:K (identical to 6fbu:C, 2fcc:C, 2fcc:E, 1k82:I, 1k82:J, 1k82:L)
    ccaggacgaagcc
    		 3.2.2.23
    4.2.99.18    		 GO:0000703 ... P05523 11912217
    1097 1k82:D
    (2.1)    		 BS02 >1k82:H (identical to 1k82:E, 1k82:F, 1k82:G)
    ggcttcctcctgg
    		 3.2.2.23
    4.2.99.18    		 GO:0000703 ... P05523 11912217
    1098 1k82:D
    (2.1)    		 BS03 >1k82:L (identical to 6fbu:C, 2fcc:C, 2fcc:E, 1k82:I, 1k82:J, 1k82:K)
    ccaggacgaagcc
    		 3.2.2.23
    4.2.99.18    		 GO:0000703 ... P05523 11912217
    1099 1k8g:A
    (2.6)    		 BS01 >1k8g:D (identical to 1k8g:E)
    gggg
    		 ? GO:0000723 ... P29549 11743727
    1100 1k8g:B
    (2.6)    		 BS01 >1k8g:E (identical to 1k8g:D)
    gggg
    		 ? GO:0000723 ... P29549 11743727
    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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