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BioLiP
Download all results in tab-seperated text for 903398 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.
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    # PDB
    (Resolution Å)
    Site # Ligand EC number GO terms UniProt PubMed Binding
    affinity
    61001 1x8i:A (1.9) BS01 ZN 3.5.2.6 GO:0008270 ... P26918 15588826
    61002 1x8i:A (1.9) BS02 BMH 3.5.2.6 GO:0008270 ... P26918 15588826
    61003 1x8j:A (2.35) BS01 CA ? GO:0005737 ... Q26490 15608121
    61004 1x8j:A (2.35) BS02 A3P ? GO:0005737 ... Q26490 15608121
    61005 1x8j:A (2.35) BS03 AOI ? GO:0005737 ... Q26490 15608121 MOAD: Ki=0.11uM
    PDBbind: -logKd/Ki=6.96, Ki=0.11uM
    61006 1x8j:B (2.35) BS01 A3P ? GO:0005737 ... Q26490 15608121
    61007 1x8j:B (2.35) BS02 CA ? GO:0005737 ... Q26490 15608121
    61008 1x8j:B (2.35) BS03 AOI ? GO:0005737 ... Q26490 15608121 MOAD: Ki=0.11uM
    61009 1x8k:A (2.75) BS01 CA ? GO:0005737 ... Q26490 15608121
    61010 1x8k:A (2.75) BS02 ANR ? GO:0005737 ... Q26490 15608121
    61011 1x8k:A (2.75) BS03 A3P ? GO:0005737 ... Q26490 15608121
    61012 1x8k:B (2.75) BS01 CA ? GO:0005737 ... Q26490 15608121
    61013 1x8k:B (2.75) BS02 A3P ? GO:0005737 ... Q26490 15608121
    61014 1x8k:B (2.75) BS03 ANR ? GO:0005737 ... Q26490 15608121
    61015 1x8l:A (2.1) BS01 CA ? GO:0005737 ... Q26490 15608121
    61016 1x8l:A (2.1) BS02 OXR ? GO:0005737 ... Q26490 15608121
    61017 1x8l:A (2.1) BS03 A3P ? GO:0005737 ... Q26490 15608121
    61018 1x8l:B (2.1) BS01 CA ? GO:0005737 ... Q26490 15608121
    61019 1x8l:B (2.1) BS02 A3P ? GO:0005737 ... Q26490 15608121
    61020 1x8l:B (2.1) BS03 OXR ? GO:0005737 ... Q26490 15608121
    61021 1x8n:A (1.08) BS01 HEM 1.7.6.1 GO:0005576 ... Q94734 15504026
    61022 1x8o:A (1.01) BS01 HEM 1.7.6.1 GO:0005576 ... Q94734 15504026
    61023 1x8o:A (1.01) BS02 NO 1.7.6.1 GO:0005576 ... Q94734 15504026
    61024 1x8p:A (0.85) BS01 HEM 1.7.6.1 GO:0005576 ... Q94734 15504026
    61025 1x8q:A (0.85) BS01 HEM 1.7.6.1 GO:0005576 ... Q94734 15504026
    61026 1x8r:A (1.5) BS01 SC1 2.5.1.19 GO:0003824 ... P0A6D3 15736934 MOAD: Ki=2.9uM
    PDBbind: -logKd/Ki=6.12, Ki=750nM
    BindingDB: Kd=15nM, Ki=15nM
    61027 1x8s:A (2.503) BS01 peptide ? N/A O97111 15475968
    61028 1x8t:A (1.9) BS01 RC1 2.5.1.19 GO:0003824 ... P0A6D3 15736934 MOAD: Ki=16nM
    PDBbind: -logKd/Ki=7.80, Ki=16nM
    61029 1x8u:A (2.2) BS01 CM2 ? GO:0005506 ... P80188 15642259
    61030 1x8u:B (2.2) BS01 CM2 ? GO:0005506 ... P80188 15642259
    61031 1x8u:C (2.2) BS01 CM2 ? GO:0005506 ... P80188 15642259
    61032 1x8v:A (1.55) BS01 HEM 1.14.15.36 GO:0004497 ... P9WPP9 15530358
    61033 1x8v:A (1.55) BS02 ESL 1.14.15.36 GO:0004497 ... P9WPP9 15530358 MOAD: Kd=100uM
    61034 1x8v:A (1.55) BS03 ESL 1.14.15.36 GO:0004497 ... P9WPP9 15530358 MOAD: Kd=100uM
    61035 1x8x:A (2.0) BS01 TYR 6.1.1.1 GO:0000166 ... P0AGJ9 15663931
    61036 1x92:A (2.3) BS01 M7P 5.3.1.28 GO:0005737 ... Q9HVZ0 18056714
    61037 1x92:B (2.3) BS01 M7P 5.3.1.28 GO:0005737 ... Q9HVZ0 18056714
    61038 1x96:A (1.4) BS01 NAP 1.1.1.21
    1.1.1.300
    1.1.1.372
    1.1.1.54
    GO:0001523 ... P15121 15317464
    61039 1x97:A (1.4) BS01 NAP 1.1.1.21
    1.1.1.300
    1.1.1.372
    1.1.1.54
    GO:0001523 ... P15121 15317464
    61040 1x97:A (1.4) BS02 FIR 1.1.1.21
    1.1.1.300
    1.1.1.372
    1.1.1.54
    GO:0001523 ... P15121 15317464 MOAD: ic50=0.57uM
    BindingDB: IC50=570nM
    61041 1x98:A (1.3) BS01 NAP 1.1.1.21
    1.1.1.300
    1.1.1.372
    1.1.1.54
    GO:0001523 ... P15121 15317464
    61042 1x9d:A (1.41) BS01 Z5L 3.2.1.113 GO:0004571 ... Q9UKM7 15713668
    61043 1x9d:A (1.41) BS02 MAN 3.2.1.113 GO:0004571 ... Q9UKM7 15713668
    61044 1x9f:A (2.6) BS01 HEM ? GO:0005344 ... P13579 15504406
    61045 1x9f:A (2.6) BS02 HEM ? GO:0005344 ... P13579 15504406
    61046 1x9f:B (2.6) BS01 HEM ? GO:0001666 ... P02218 15504406
    61047 1x9f:C (2.6) BS01 HEM ? GO:0005344 ... P11069 15504406
    61048 1x9f:C (2.6) BS02 HEM ? GO:0005344 ... P11069 15504406
    61049 1x9f:D (2.6) BS01 HEM ? GO:0005344 ... O61233 15504406
    61050 1x9f:E (2.6) BS01 HEM ? GO:0005344 ... P13579 15504406
    61051 1x9f:E (2.6) BS02 HEM ? GO:0005344 ... P13579 15504406
    61052 1x9f:F (2.6) BS01 HEM ? GO:0001666 ... P02218 15504406
    61053 1x9f:G (2.6) BS01 HEM ? GO:0005344 ... P11069 15504406
    61054 1x9f:H (2.6) BS01 HEM ? GO:0005344 ... O61233 15504406
    61055 1x9f:H (2.6) BS02 HEM ? GO:0005344 ... O61233 15504406
    61056 1x9f:I (2.6) BS01 HEM ? GO:0005344 ... P13579 15504406
    61057 1x9f:I (2.6) BS02 HEM ? GO:0005344 ... P13579 15504406
    61058 1x9f:J (2.6) BS01 HEM ? GO:0001666 ... P02218 15504406
    61059 1x9f:K (2.6) BS01 HEM ? GO:0005344 ... P11069 15504406
    61060 1x9f:L (2.6) BS01 HEM ? GO:0005344 ... O61233 15504406
    61061 1x9h:A (1.5) BS01 F6R 5.3.1.8
    5.3.1.9
    GO:0004347 ... Q8ZWV0 15518558
    61062 1x9h:B (1.5) BS01 F6R 5.3.1.8
    5.3.1.9
    GO:0004347 ... Q8ZWV0 15518558
    61063 1x9i:A (1.16) BS01 G6Q 5.3.1.8
    5.3.1.9
    GO:0004347 ... Q8ZWV0 15518558
    61064 1x9i:B (1.16) BS01 G6Q 5.3.1.8
    5.3.1.9
    GO:0004347 ... Q8ZWV0 15518558
    61065 1x9l:A (-1.00) BS01 CU1 ? N/A Q9RT80 15753304
    61066 1x9m:A (2.1) BS01 dna 2.7.7.7
    3.1.11.-
    GO:0000166 ... P00581 15528277
    61067 1x9m:A (2.1) BS02 dna 2.7.7.7
    3.1.11.-
    GO:0000166 ... P00581 15528277
    61068 1x9n:A (3.0) BS01 dna 6.5.1.1 GO:0003677 ... P18858 15565146
    61069 1x9n:A (3.0) BS02 dna 6.5.1.1 GO:0003677 ... P18858 15565146
    61070 1x9n:A (3.0) BS03 dna 6.5.1.1 GO:0003677 ... P18858 15565146
    61071 1x9n:A (3.0) BS04 AMP 6.5.1.1 GO:0003677 ... P18858 15565146
    61072 1x9p:A (3.3) BS01 C15 ? GO:0005198 ... P03276 15629723
    61073 1x9p:A (3.3) BS02 C15 ? GO:0005198 ... P03276 15629723
    61074 1x9q:A (1.5) BS01 FLU N/A N/A N/A 15465055 MOAD: Kd=0.27pM
    61075 1x9r:A (1.9) BS01 CU ? GO:0009055 ... P42849 15631465
    61076 1x9r:B (1.9) BS01 CU ? GO:0009055 ... P42849 15631465
    61077 1x9s:A (2.7) BS01 dna 2.7.7.7
    3.1.11.-
    GO:0000166 ... P00581 15528277
    61078 1x9s:A (2.7) BS02 dna 2.7.7.7
    3.1.11.-
    GO:0000166 ... P00581 15528277
    61079 1x9t:A (3.5) BS01 peptide ? GO:0005198 ... P03276 15629723
    61080 1x9t:A (3.5) BS02 C15 ? GO:0005198 ... P03276 15629723
    61081 1x9t:A (3.5) BS03 C15 ? GO:0005198 ... P03276 15629723
    61082 1x9u:A (1.8) BS01 CU ? GO:0009055 ... P42849 15631465
    61083 1x9u:B (1.8) BS01 CU ? GO:0009055 ... P42849 15631465
    61084 1x9w:A (2.3) BS01 dna 2.7.7.7
    3.1.11.-
    GO:0000166 ... P00581 15528277
    61085 1x9w:A (2.3) BS02 dna 2.7.7.7
    3.1.11.-
    GO:0000166 ... P00581 15528277
    61086 1xa1:A (1.8) BS01 POP ? GO:0008658 ... P18357 15322076
    61087 1xa1:B (1.8) BS01 POP ? GO:0008658 ... P18357 15322076
    61088 1xa1:C (1.8) BS01 POP ? GO:0008658 ... P18357 15322076
    61089 1xa1:D (1.8) BS01 POP ? GO:0008658 ... P18357 15322076
    61090 1xa4:B (1.9) BS01 COA 2.8.3.21 GO:0003824 ... P31572 15518548
    61091 1xa5:A (2.12) BS01 CA ? GO:0000922 ... P62157 15596444
    61092 1xa5:A (2.12) BS02 CA ? GO:0000922 ... P62157 15596444
    61093 1xa5:A (2.12) BS03 CA ? GO:0000922 ... P62157 15596444
    61094 1xa5:A (2.12) BS04 CA ? GO:0000922 ... P62157 15596444
    61095 1xa5:A (2.12) BS05 KAR ? GO:0000922 ... P62157 15596444 MOAD: Kd=316nM
    PDBbind: -logKd/Ki=6.50, Kd=316nM
    61096 1xa6:A (3.2) BS01 ZN ? GO:0005096 ... P52757 15507211
    61097 1xa6:A (3.2) BS02 ZN ? GO:0005096 ... P52757 15507211
    61098 1xa7:A (2.4) BS01 PNM ? GO:0008658 ... P18357 15322076
    61099 1xa7:B (2.4) BS01 PNM ? GO:0008658 ... P18357 15322076
    61100 1xa8:A (2.4) BS01 ZN 4.4.1.22 GO:0008270 ... Q51669 15548539
    61101 1xa8:A (2.4) BS02 GSH 4.4.1.22 GO:0008270 ... Q51669 15548539
    61102 1xa8:B (2.4) BS01 ZN 4.4.1.22 GO:0008270 ... Q51669 15548539
    61103 1xa8:B (2.4) BS02 GSH 4.4.1.22 GO:0008270 ... Q51669 15548539
    61104 1xa8:C (2.4) BS01 ZN 4.4.1.22 GO:0008270 ... Q51669 15548539
    61105 1xa8:C (2.4) BS02 GSH 4.4.1.22 GO:0008270 ... Q51669 15548539
    61106 1xa8:D (2.4) BS01 ZN 4.4.1.22 GO:0008270 ... Q51669 15548539
    61107 1xa8:D (2.4) BS02 GSH 4.4.1.22 GO:0008270 ... Q51669 15548539
    61108 1xaf:A (2.01) BS01 ZN 2.4.2.1
    2.4.2.28
    3.5.4.4
    GO:0004000 ... A0A384KG77 16498617
    61109 1xaf:A (2.01) BS02 ZN 2.4.2.1
    2.4.2.28
    3.5.4.4
    GO:0004000 ... A0A384KG77 16498617
    61110 1xaf:B (2.01) BS01 ZN 2.4.2.1
    2.4.2.28
    3.5.4.4
    GO:0004000 ... A0A384KG77 16498617
    61111 1xaf:B (2.01) BS02 ZN 2.4.2.1
    2.4.2.28
    3.5.4.4
    GO:0004000 ... A0A384KG77 16498617
    61112 1xag:A (2.45) BS01 ZN 4.2.3.4 GO:0000166 ... Q6GGU4 15465043
    61113 1xag:A (2.45) BS02 NAD 4.2.3.4 GO:0000166 ... Q6GGU4 15465043
    61114 1xag:A (2.45) BS03 CRB 4.2.3.4 GO:0000166 ... Q6GGU4 15465043
    61115 1xah:A (2.2) BS01 ZN 4.2.3.4 GO:0000166 ... Q6GGU4 15465043
    61116 1xah:A (2.2) BS02 NAD 4.2.3.4 GO:0000166 ... Q6GGU4 15465043
    61117 1xah:B (2.2) BS01 ZN 4.2.3.4 GO:0000166 ... Q6GGU4 15465043
    61118 1xah:B (2.2) BS02 NAD 4.2.3.4 GO:0000166 ... Q6GGU4 15465043
    61119 1xai:A (2.3) BS01 ZN 4.2.3.4 GO:0000166 ... Q6GGU4 15465043
    61120 1xai:A (2.3) BS02 CRB 4.2.3.4 GO:0000166 ... Q6GGU4 15465043
    61121 1xai:B (2.3) BS01 ZN 4.2.3.4 GO:0000166 ... Q6GGU4 15465043
    61122 1xai:B (2.3) BS02 CRB 4.2.3.4 GO:0000166 ... Q6GGU4 15465043
    61123 1xaj:A (2.35) BS01 ZN 4.2.3.4 GO:0000166 ... Q6GGU4 15465043
    61124 1xaj:A (2.35) BS02 NAD 4.2.3.4 GO:0000166 ... Q6GGU4 15465043
    61125 1xaj:A (2.35) BS03 CRB 4.2.3.4 GO:0000166 ... Q6GGU4 15465043
    61126 1xaj:B (2.35) BS01 ZN 4.2.3.4 GO:0000166 ... Q6GGU4 15465043
    61127 1xaj:B (2.35) BS02 NAD 4.2.3.4 GO:0000166 ... Q6GGU4 15465043
    61128 1xaj:B (2.35) BS03 CRB 4.2.3.4 GO:0000166 ... Q6GGU4 15465043
    61129 1xal:A (2.8) BS01 ZN 4.2.3.4 GO:0000166 ... Q6GGU4 15465043
    61130 1xal:A (2.8) BS02 NAD 4.2.3.4 GO:0000166 ... Q6GGU4 15465043
    61131 1xal:A (2.8) BS03 CRB 4.2.3.4 GO:0000166 ... Q6GGU4 15465043
    61132 1xal:B (2.8) BS01 ZN 4.2.3.4 GO:0000166 ... Q6GGU4 15465043
    61133 1xal:B (2.8) BS02 NAD 4.2.3.4 GO:0000166 ... Q6GGU4 15465043
    61134 1xal:B (2.8) BS03 CRB 4.2.3.4 GO:0000166 ... Q6GGU4 15465043
    61135 1xan:A (2.0) BS01 FAD 1.8.1.7 GO:0004362 ... P00390 8626496
    61136 1xan:A (2.0) BS02 HXP 1.8.1.7 GO:0004362 ... P00390 8626496
    61137 1xap:A (2.1) BS01 TTB ? GO:0003677 ... P10826 15319780 MOAD: Kd=2.5nM
    PDBbind: -logKd/Ki=8.70, Kd=2nM
    BindingDB: EC50=4nM, Ki=0.500000nM, Kd=5nM, IC50=5nM
    61138 1xb0:A (2.2) BS01 peptide ? N/A Q96P09 15485395
    61139 1xb0:A (2.2) BS02 ZN ? N/A Q96P09 15485395
    61140 1xb0:A (2.2) BS03 ZN ? N/A Q96P09 15485395
    61141 1xb0:B (2.2) BS01 peptide ? N/A Q96P09 15485395
    61142 1xb0:B (2.2) BS02 ZN ? N/A Q96P09 15485395
    61143 1xb0:B (2.2) BS03 ZN ? N/A Q96P09 15485395
    61144 1xb0:B (2.2) BS04 ZN ? N/A Q96P09 15485395
    61145 1xb0:C (2.2) BS01 peptide ? N/A Q96P09 15485395
    61146 1xb0:C (2.2) BS02 ZN ? N/A Q96P09 15485395
    61147 1xb0:C (2.2) BS03 ZN ? N/A Q96P09 15485395
    61148 1xb0:D (2.2) BS01 peptide ? N/A Q96P09 15485395
    61149 1xb0:D (2.2) BS02 ZN ? N/A Q96P09 15485395
    61150 1xb0:D (2.2) BS03 ZN ? N/A Q96P09 15485395
    61151 1xb0:E (2.2) BS01 peptide ? N/A Q96P09 15485395
    61152 1xb0:E (2.2) BS02 ZN ? N/A Q96P09 15485395
    61153 1xb0:E (2.2) BS03 ZN ? N/A Q96P09 15485395
    61154 1xb0:F (2.2) BS01 peptide ? N/A Q96P09 15485395
    61155 1xb0:F (2.2) BS02 ZN ? N/A Q96P09 15485395
    61156 1xb0:F (2.2) BS03 ZN ? N/A Q96P09 15485395
    61157 1xb0:F (2.2) BS04 ZN ? N/A Q96P09 15485395
    61158 1xb1:A (2.7) BS01 peptide ? N/A Q96P09 15485395
    61159 1xb1:A (2.7) BS02 ZN ? N/A Q96P09 15485395
    61160 1xb1:A (2.7) BS03 ZN ? N/A Q96P09 15485395
    61161 1xb1:B (2.7) BS01 peptide ? N/A Q96P09 15485395
    61162 1xb1:B (2.7) BS02 ZN ? N/A Q96P09 15485395
    61163 1xb1:B (2.7) BS03 ZN ? N/A Q96P09 15485395
    61164 1xb1:C (2.7) BS01 peptide ? N/A Q96P09 15485395
    61165 1xb1:C (2.7) BS02 ZN ? N/A Q96P09 15485395
    61166 1xb1:C (2.7) BS03 ZN ? N/A Q96P09 15485395
    61167 1xb1:D (2.7) BS01 peptide ? N/A Q96P09 15485395
    61168 1xb1:D (2.7) BS02 ZN ? N/A Q96P09 15485395
    61169 1xb1:D (2.7) BS03 ZN ? N/A Q96P09 15485395
    61170 1xb1:E (2.7) BS01 peptide ? N/A Q96P09 15485395
    61171 1xb1:E (2.7) BS02 ZN ? N/A Q96P09 15485395
    61172 1xb1:E (2.7) BS03 ZN ? N/A Q96P09 15485395
    61173 1xb1:E (2.7) BS04 ZN ? N/A Q96P09 15485395
    61174 1xb1:F (2.7) BS01 peptide ? N/A Q96P09 15485395
    61175 1xb1:F (2.7) BS02 ZN ? N/A Q96P09 15485395
    61176 1xb1:F (2.7) BS03 ZN ? N/A Q96P09 15485395
    61177 1xb3:A (1.501) BS01 CU ? GO:0005507 ... P00282 15449946
    61178 1xb3:B (1.501) BS01 CU ? GO:0005507 ... P00282 15449946
    61179 1xb6:A (1.823) BS01 CU ? GO:0005507 ... P00282 15449946
    61180 1xb6:B (1.823) BS01 CU ? GO:0005507 ... P00282 15449946
    61181 1xb7:A (2.5) BS01 peptide ? N/A P11474 15337744
    61182 1xb8:A (2.0) BS01 ZN ? GO:0005507 ... P00282 15449946
    61183 1xb8:C (2.0) BS01 ZN ? GO:0005507 ... P00282 15449946
    61184 1xbb:A (1.57) BS01 STI 2.7.10.2 GO:0004672 ... P43405 15507431 MOAD: Ki=5uM
    PDBbind: -logKd/Ki=5.30, Ki=5.0uM
    BindingDB: Ki=5000nM, Kd=>10000nM, IC50=>10000nM
    61185 1xbc:A (2.0) BS01 STU 2.7.10.2 GO:0004672 ... P43405 15507431 MOAD: ic50=0.012uM
    PDBbind: -logKd/Ki=7.92, IC50=0.012uM
    61186 1xbn:A (2.5) BS01 OXY ? GO:0020037 ... Q8RBX6 15472039
    61187 1xbn:A (2.5) BS02 HEM ? GO:0020037 ... Q8RBX6 15472039
    61188 1xbo:A (2.5) BS01 IX1 3.1.3.48 GO:0004725 ... P18031 15482920 MOAD: Ki=0.92uM
    PDBbind: -logKd/Ki=6.04, Ki=0.92uM
    BindingDB: IC50=920nM
    61189 1xbp:A (3.5) BS01 rna ? GO:0002181 ... Q9RXJ9 15554968
    61190 1xbp:B (3.5) BS01 rna ? GO:0003735 ... Q9RXK2 15554968
    61191 1xbp:C (3.5) BS01 rna ? GO:0003735 ... Q9RXK1 15554968
    61192 1xbp:G (3.5) BS01 rna ? GO:0003735 ... Q9RSS7 15554968
    61193 1xbp:H (3.5) BS01 rna ? GO:0003729 ... Q9RXY1 15554968
    61194 1xbp:I (3.5) BS01 rna ? GO:0003735 ... Q9RXJ2 15554968
    61195 1xbp:J (3.5) BS01 rna ? GO:0003735 ... Q9RSK9 15554968
    61196 1xbp:L (3.5) BS01 rna ? GO:0003735 ... Q9RSJ5 15554968
    61197 1xbp:O (3.5) BS01 rna ? GO:0000027 ... Q9RSW7 15554968
    61198 1xbp:P (3.5) BS01 rna ? GO:0003723 ... Q9RY64 15554968
    61199 1xbp:Q (3.5) BS01 rna ? GO:0003735 ... Q9RXJ7 15554968
    61200 1xbp:R (3.5) BS01 rna ? GO:0000027 ... Q9RXK0 15554968

    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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