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BioLiP
Download all results in tab-seperated text for 713946 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
    32601 1p29:A (2.2) BS02 GLC 2.4.1.1 GO:0000166 ... P00489 12930991
    32602 1p29:A (2.2) BS03 PLP 2.4.1.1 GO:0000166 ... P00489 12930991
    32603 1p2a:A (2.5) BS01 5BN 2.7.11.22 GO:0000082 ... P24941 12852944 MOAD: ic50=12nM
    PDBbind: -logKd/Ki=7.92, IC50=12nM
    BindingDB: IC50=12nM
    32604 1p2b:A (2.2) BS01 GLC 2.4.1.1 GO:0000166 ... P00489 12930991
    32605 1p2b:A (2.2) BS02 GLC 2.4.1.1 GO:0000166 ... P00489 12930991
    32606 1p2b:A (2.2) BS03 GLC 2.4.1.1 GO:0000166 ... P00489 12930991
    32607 1p2b:A (2.2) BS04 PLP 2.4.1.1 GO:0000166 ... P00489 12930991
    32608 1p2d:A (1.94) BS01 GLC 2.4.1.1 GO:0000166 ... P00489 12930991
    32609 1p2d:A (1.94) BS02 GLC 2.4.1.1 GO:0000166 ... P00489 12930991
    32610 1p2d:A (1.94) BS03 PLP 2.4.1.1 GO:0000166 ... P00489 12930991
    32611 1p2e:A (2.2) BS01 HEM 1.3.2.4 GO:0008202 ... P0C278 14609326
    32612 1p2e:A (2.2) BS02 HEM 1.3.2.4 GO:0008202 ... P0C278 14609326
    32613 1p2e:A (2.2) BS03 HEM 1.3.2.4 GO:0008202 ... P0C278 14609326
    32614 1p2e:A (2.2) BS04 HEM 1.3.2.4 GO:0008202 ... P0C278 14609326
    32615 1p2e:A (2.2) BS05 FAD 1.3.2.4 GO:0008202 ... P0C278 14609326
    32616 1p2e:A (2.2) BS06 FUM 1.3.2.4 GO:0008202 ... P0C278 14609326
    32617 1p2g:A (2.3) BS01 GLC 2.4.1.1 GO:0000166 ... P00489 12930991
    32618 1p2g:A (2.3) BS02 PLP 2.4.1.1 GO:0000166 ... P00489 12930991
    32619 1p2h:A (2.1) BS01 HEM 1.3.2.4 GO:0008202 ... P0C278 14609326
    32620 1p2h:A (2.1) BS02 HEM 1.3.2.4 GO:0008202 ... P0C278 14609326
    32621 1p2h:A (2.1) BS03 HEM 1.3.2.4 GO:0008202 ... P0C278 14609326
    32622 1p2h:A (2.1) BS04 HEM 1.3.2.4 GO:0008202 ... P0C278 14609326
    32623 1p2h:A (2.1) BS05 FAD 1.3.2.4 GO:0008202 ... P0C278 14609326
    32624 1p2h:A (2.1) BS06 TEO 1.3.2.4 GO:0008202 ... P0C278 14609326
    32625 1p2i:A (1.65) BS01 CA 3.4.21.4 GO:0004175 ... P00760 14568540
    32626 1p2j:A (1.35) BS01 CA 3.4.21.4 GO:0004175 ... P00760 14568540
    32627 1p2k:A (1.6) BS01 CA 3.4.21.4 GO:0004175 ... P00760 14568540
    32628 1p2p:A (2.6) BS01 CA 3.1.1.4 GO:0002446 ... P00592 6876174
    32629 1p2p:A (2.6) BS02 CA 3.1.1.4 GO:0002446 ... P00592 6876174
    32630 1p2s:A (2.45) BS01 MG 3.6.5.2 GO:0003924 ... P01112 12842038
    32631 1p2s:A (2.45) BS02 GNP 3.6.5.2 GO:0003924 ... P01112 12842038
    32632 1p2s:A (2.45) BS03 ETF 3.6.5.2 GO:0003924 ... P01112 12842038
    32633 1p2t:A (2.0) BS01 MG 3.6.5.2 GO:0003924 ... P01112 12842038
    32634 1p2t:A (2.0) BS02 GNP 3.6.5.2 GO:0003924 ... P01112 12842038
    32635 1p2u:A (2.0) BS01 MG 3.6.5.2 GO:0003924 ... P01112 12842038
    32636 1p2u:A (2.0) BS02 GNP 3.6.5.2 GO:0003924 ... P01112 12842038
    32637 1p2v:A (2.3) BS01 MG 3.6.5.2 GO:0003924 ... P01112 12842038
    32638 1p2v:A (2.3) BS02 GNP 3.6.5.2 GO:0003924 ... P01112 12842038
    32639 1p2y:A (2.3) BS01 HEM 1.14.15.1 GO:0004497 ... P00183 14556625
    32640 1p2y:A (2.3) BS02 NCT 1.14.15.1 GO:0004497 ... P00183 14556625
    32641 1p31:A (1.85) BS01 EPU 6.3.2.8 GO:0005524 ... P45066 12837790
    32642 1p31:B (1.85) BS01 EPU 6.3.2.8 GO:0005524 ... P45066 12837790
    32643 1p33:A (2.86) BS01 NDP 1.5.1.33 GO:0006729 ... P42556 12925782
    32644 1p33:A (2.86) BS02 MTX 1.5.1.33 GO:0006729 ... P42556 12925782
    32645 1p33:B (2.86) BS01 NDP 1.5.1.33 GO:0006729 ... P42556 12925782
    32646 1p33:B (2.86) BS02 MTX 1.5.1.33 GO:0006729 ... P42556 12925782
    32647 1p33:C (2.86) BS01 NDP 1.5.1.33 GO:0006729 ... P42556 12925782
    32648 1p33:C (2.86) BS02 MTX 1.5.1.33 GO:0006729 ... P42556 12925782
    32649 1p33:D (2.86) BS01 NDP 1.5.1.33 GO:0006729 ... P42556 12925782
    32650 1p33:D (2.86) BS02 MTX 1.5.1.33 GO:0006729 ... P42556 12925782
    32651 1p34:B (2.7) BS01 dna ? GO:0000786 ... P62799 14739929
    32652 1p34:B (2.7) BS02 dna ? GO:0000786 ... P62799 14739929
    32653 1p34:F (2.7) BS01 dna ? GO:0000786 ... P62799 14739929
    32654 1p34:F (2.7) BS02 dna ? GO:0000786 ... P62799 14739929
    32655 1p39:A (2.0) BS01 SAH 2.1.1.57 GO:0003723 ... P07617 9145102
    32656 1p39:A (2.0) BS02 MGT 2.1.1.57 GO:0003723 ... P07617 9145102
    32657 1p3a:B (3.0) BS01 dna ? GO:0000786 ... P62799 14739929
    32658 1p3a:B (3.0) BS02 dna ? GO:0000786 ... P62799 14739929
    32659 1p3a:F (3.0) BS01 dna ? GO:0000786 ... P62799 14739929
    32660 1p3a:F (3.0) BS02 dna ? GO:0000786 ... P62799 14739929
    32661 1p3b:B (3.0) BS01 dna ? GO:0000786 ... P62799 14739929
    32662 1p3b:B (3.0) BS02 dna ? GO:0000786 ... P62799 14739929
    32663 1p3b:F (3.0) BS01 dna ? GO:0000786 ... P62799 14739929
    32664 1p3b:F (3.0) BS02 dna ? GO:0000786 ... P62799 14739929
    32665 1p3d:A (1.7) BS01 MN 6.3.2.8 GO:0005524 ... P45066 12837790
    32666 1p3d:A (1.7) BS02 UMA 6.3.2.8 GO:0005524 ... P45066 12837790
    32667 1p3d:A (1.7) BS03 ANP 6.3.2.8 GO:0005524 ... P45066 12837790
    32668 1p3d:B (1.7) BS01 MN 6.3.2.8 GO:0005524 ... P45066 12837790
    32669 1p3d:B (1.7) BS02 UMA 6.3.2.8 GO:0005524 ... P45066 12837790
    32670 1p3d:B (1.7) BS03 ANP 6.3.2.8 GO:0005524 ... P45066 12837790
    32671 1p3f:B (2.9) BS01 dna ? GO:0000786 ... P62799 14739929
    32672 1p3f:B (2.9) BS02 dna ? GO:0000786 ... P62799 14739929
    32673 1p3f:F (2.9) BS01 dna ? GO:0000786 ... P62799 14739929
    32674 1p3f:F (2.9) BS02 dna ? GO:0000786 ... P62799 14739929
    32675 1p3g:B (2.7) BS01 dna ? GO:0000786 ... P62799 14739929
    32676 1p3g:B (2.7) BS02 dna ? GO:0000786 ... P62799 14739929
    32677 1p3g:F (2.7) BS01 dna ? GO:0000786 ... P62799 14739929
    32678 1p3g:F (2.7) BS02 dna ? GO:0000786 ... P62799 14739929
    32679 1p3i:B (2.3) BS01 dna ? GO:0000786 ... P62799 14739929
    32680 1p3i:B (2.3) BS02 dna ? GO:0000786 ... P62799 14739929
    32681 1p3i:F (2.3) BS01 dna ? GO:0000786 ... P62799 14739929
    32682 1p3i:F (2.3) BS02 dna ? GO:0000786 ... P62799 14739929
    32683 1p3j:A (1.9) BS01 ZN 2.7.4.3 GO:0004017 ... P16304 15100224
    32684 1p3j:A (1.9) BS02 AP5 2.7.4.3 GO:0004017 ... P16304 15100224
    32685 1p3k:B (2.9) BS01 dna ? GO:0000786 ... P62799 14739929
    32686 1p3k:B (2.9) BS02 dna ? GO:0000786 ... P62799 14739929
    32687 1p3k:F (2.9) BS01 dna ? GO:0000786 ... P62799 14739929
    32688 1p3k:F (2.9) BS02 dna ? GO:0000786 ... P62799 14739929
    32689 1p3l:B (2.4) BS01 dna ? GO:0000786 ... P62799 14739929
    32690 1p3l:B (2.4) BS02 dna ? GO:0000786 ... P62799 14739929
    32691 1p3l:F (2.4) BS01 dna ? GO:0000786 ... P62799 14739929
    32692 1p3l:F (2.4) BS02 dna ? GO:0000786 ... P62799 14739929
    32693 1p3m:B (2.9) BS01 dna ? GO:0000786 ... P62799 14739929
    32694 1p3m:B (2.9) BS02 dna ? GO:0000786 ... P62799 14739929
    32695 1p3m:F (2.9) BS01 dna ? GO:0000786 ... P62799 14739929
    32696 1p3m:F (2.9) BS02 dna ? GO:0000786 ... P62799 14739929
    32697 1p3o:B (2.75) BS01 dna ? GO:0000786 ... P62799 14739929
    32698 1p3o:B (2.75) BS02 dna ? GO:0000786 ... P62799 14739929
    32699 1p3o:F (2.75) BS01 dna ? GO:0000786 ... P62799 14739929
    32700 1p3o:F (2.75) BS02 dna ? GO:0000786 ... P62799 14739929
    32701 1p3p:B (2.7) BS01 dna ? GO:0000786 ... P62799 14739929
    32702 1p3p:B (2.7) BS02 dna ? GO:0000786 ... P62799 14739929
    32703 1p3p:F (2.7) BS01 dna ? GO:0000786 ... P62799 14739929
    32704 1p3p:F (2.7) BS02 dna ? GO:0000786 ... P62799 14739929
    32705 1p3t:A (2.1) BS01 HEM 1.14.99.3 GO:0004392 ... Q9RGD9 12819228
    32706 1p3u:A (1.75) BS01 HEM 1.14.99.3 GO:0004392 ... Q9RGD9 12819228
    32707 1p3v:A (2.25) BS01 HEM 1.14.99.3 GO:0004392 ... Q9RGD9 12819228
    32708 1p3v:A (2.25) BS02 CMO 1.14.99.3 GO:0004392 ... Q9RGD9 12819228
    32709 1p3w:A (2.1) BS01 PLP 2.8.1.7 GO:0002143 ... P0A6B7 12860127
    32710 1p3w:B (2.1) BS01 PLP 2.8.1.7 GO:0002143 ... P0A6B7 12860127
    32711 1p3y:1 (2.54) BS01 FAD 4.1.1.- GO:0003824 ... Q9RC23 12876343
    32712 1p42:A (2.0) BS01 ZN 3.5.1.108 GO:0006796 ... O67648 12819349
    32713 1p42:A (2.0) BS02 ZN 3.5.1.108 GO:0006796 ... O67648 12819349
    32714 1p42:A (2.0) BS03 ZN 3.5.1.108 GO:0006796 ... O67648 12819349
    32715 1p42:A (2.0) BS04 ZN 3.5.1.108 GO:0006796 ... O67648 12819349
    32716 1p42:B (2.0) BS01 ZN 3.5.1.108 GO:0006796 ... O67648 12819349
    32717 1p42:B (2.0) BS02 ZN 3.5.1.108 GO:0006796 ... O67648 12819349
    32718 1p42:B (2.0) BS03 ZN 3.5.1.108 GO:0006796 ... O67648 12819349
    32719 1p43:A (1.8) BS01 MG 4.2.1.11 GO:0000015 ... P00924 12846578
    32720 1p43:A (1.8) BS02 2PG 4.2.1.11 GO:0000015 ... P00924 12846578
    32721 1p43:B (1.8) BS01 MG 4.2.1.11 GO:0000015 ... P00924 12846578
    32722 1p43:B (1.8) BS02 2PG 4.2.1.11 GO:0000015 ... P00924 12846578
    32723 1p44:A (2.7) BS01 NAD 1.3.1.9 GO:0004318 ... P9WGR1 12606558
    32724 1p44:A (2.7) BS02 GEQ 1.3.1.9 GO:0004318 ... P9WGR1 12606558 BindingDB: IC50=200nM
    32725 1p44:B (2.7) BS01 NAD 1.3.1.9 GO:0004318 ... P9WGR1 12606558
    32726 1p44:B (2.7) BS02 GEQ 1.3.1.9 GO:0004318 ... P9WGR1 12606558 BindingDB: IC50=200nM
    32727 1p44:C (2.7) BS01 NAD 1.3.1.9 GO:0004318 ... P9WGR1 12606558
    32728 1p44:C (2.7) BS02 GEQ 1.3.1.9 GO:0004318 ... P9WGR1 12606558 BindingDB: IC50=200nM
    32729 1p44:D (2.7) BS01 NAD 1.3.1.9 GO:0004318 ... P9WGR1 12606558
    32730 1p44:D (2.7) BS02 GEQ 1.3.1.9 GO:0004318 ... P9WGR1 12606558 BindingDB: IC50=200nM
    32731 1p44:E (2.7) BS01 NAD 1.3.1.9 GO:0004318 ... P9WGR1 12606558
    32732 1p44:F (2.7) BS01 NAD 1.3.1.9 GO:0004318 ... P9WGR1 12606558
    32733 1p45:A (2.6) BS01 NAD 1.3.1.9 GO:0004318 ... P9WGR1 12606558
    32734 1p45:A (2.6) BS02 TCL 1.3.1.9 GO:0004318 ... P9WGR1 12606558 BindingDB: Ki=220nM, IC50=1000nM
    32735 1p45:A (2.6) BS03 TCL 1.3.1.9 GO:0004318 ... P9WGR1 12606558 BindingDB: Ki=220nM, IC50=1000nM
    32736 1p45:B (2.6) BS01 NAD 1.3.1.9 GO:0004318 ... P9WGR1 12606558
    32737 1p45:B (2.6) BS02 TCL 1.3.1.9 GO:0004318 ... P9WGR1 12606558 BindingDB: Ki=220nM, IC50=1000nM
    32738 1p48:A (2.0) BS01 MG 4.2.1.11 GO:0000015 ... P00924 12846578
    32739 1p48:A (2.0) BS02 PEP 4.2.1.11 GO:0000015 ... P00924 12846578
    32740 1p48:B (2.0) BS01 MG 4.2.1.11 GO:0000015 ... P00924 12846578
    32741 1p48:B (2.0) BS02 PEP 4.2.1.11 GO:0000015 ... P00924 12846578
    32742 1p49:A (2.6) BS01 CA 3.1.6.2 GO:0004065 ... P08842 12657638
    32743 1p4a:A (2.22) BS01 PCP ? GO:0003677 ... P37551 12837784
    32744 1p4a:B (2.22) BS01 PCP ? GO:0003677 ... P37551 12837784
    32745 1p4a:C (2.22) BS01 PCP ? GO:0003677 ... P37551 12837784
    32746 1p4a:D (2.22) BS01 PCP ? GO:0003677 ... P37551 12837784
    32747 1p4b:H (2.35) BS01 peptide ? GO:0002250 ... P01820 14754898
    32748 1p4e:A (2.7) BS01 dna ? GO:0003677 ... P03870 12716882
    32749 1p4e:A (2.7) BS02 dna ? GO:0003677 ... P03870 12716882
    32750 1p4e:A (2.7) BS03 dna ? GO:0003677 ... P03870 12716882
    32751 1p4e:B (2.7) BS01 dna ? GO:0003677 ... P03870 12716882
    32752 1p4e:B (2.7) BS02 dna ? GO:0003677 ... P03870 12716882
    32753 1p4e:B (2.7) BS03 dna ? GO:0003677 ... P03870 12716882
    32754 1p4e:C (2.7) BS01 dna ? GO:0003677 ... P03870 12716882
    32755 1p4e:C (2.7) BS02 dna ? GO:0003677 ... P03870 12716882
    32756 1p4e:C (2.7) BS03 dna ? GO:0003677 ... P03870 12716882
    32757 1p4e:C (2.7) BS04 dna ? GO:0003677 ... P03870 12716882
    32758 1p4e:D (2.7) BS01 dna ? GO:0003677 ... P03870 12716882
    32759 1p4e:D (2.7) BS02 dna ? GO:0003677 ... P03870 12716882
    32760 1p4e:D (2.7) BS03 2PO ? GO:0003677 ... P03870 12716882
    32761 1p4f:A (1.9) BS01 86Q 2.7.11.1 GO:0004672 ... P53355 14505650
    32762 1p4g:A (2.1) BS01 CGF 2.4.1.1 GO:0000166 ... P00489 N/A MOAD: Ki=1.8mM
    32763 1p4g:A (2.1) BS02 PLP 2.4.1.1 GO:0000166 ... P00489 N/A
    32764 1p4h:A (2.06) BS01 CR6 2.4.1.1 GO:0000166 ... P00489 N/A MOAD: Ki=0.31mM
    BindingDB: Ki=310000nM
    32765 1p4h:A (2.06) BS02 PLP 2.4.1.1 GO:0000166 ... P00489 N/A
    32766 1p4j:A (2.0) BS01 PLP 2.4.1.1 GO:0000166 ... P00489 N/A
    32767 1p4j:A (2.0) BS02 CBF 2.4.1.1 GO:0000166 ... P00489 N/A MOAD: Ki=0.88mM
    32768 1p4m:A (1.8) BS01 ADP 2.7.1.26 GO:0005515 ... Q969G6 12623014
    32769 1p4m:A (1.8) BS02 FMN 2.7.1.26 GO:0005515 ... Q969G6 12623014
    32770 1p4n:A (1.9) BS01 peptide 2.3.2.10 GO:0008360 ... Q9EY50 14962386
    32771 1p4n:A (1.9) BS02 MG 2.3.2.10 GO:0008360 ... Q9EY50 14962386
    32772 1p4n:A (1.9) BS03 MG 2.3.2.10 GO:0008360 ... Q9EY50 14962386
    32773 1p4n:A (1.9) BS04 MG 2.3.2.10 GO:0008360 ... Q9EY50 14962386
    32774 1p4q:B (-1.00) BS01 ZN 2.3.1.-
    2.3.1.48
    GO:0004402 ... Q09472 12778114
    32775 1p4q:B (-1.00) BS02 ZN 2.3.1.-
    2.3.1.48
    GO:0004402 ... Q09472 12778114
    32776 1p4q:B (-1.00) BS03 ZN 2.3.1.-
    2.3.1.48
    GO:0004402 ... Q09472 12778114
    32777 1p4r:A (2.55) BS01 AMZ 2.1.2.3
    3.5.4.10
    GO:0003360 ... P31939 14966129
    32778 1p4r:A (2.55) BS02 354 2.1.2.3
    3.5.4.10
    GO:0003360 ... P31939 14966129 PDBbind: -logKd/Ki=8.10, Ki=8nM
    32779 1p4r:A (2.55) BS03 XMP 2.1.2.3
    3.5.4.10
    GO:0003360 ... P31939 14966129
    32780 1p4r:A (2.55) BS04 AMZ 2.1.2.3
    3.5.4.10
    GO:0003360 ... P31939 14966129
    32781 1p4r:A (2.55) BS05 354 2.1.2.3
    3.5.4.10
    GO:0003360 ... P31939 14966129 PDBbind: -logKd/Ki=8.10, Ki=8nM
    32782 1p4r:B (2.55) BS01 AMZ 2.1.2.3
    3.5.4.10
    GO:0003360 ... P31939 14966129
    32783 1p4r:B (2.55) BS02 354 2.1.2.3
    3.5.4.10
    GO:0003360 ... P31939 14966129 PDBbind: -logKd/Ki=8.10, Ki=8nM
    32784 1p4r:B (2.55) BS03 AMZ 2.1.2.3
    3.5.4.10
    GO:0003360 ... P31939 14966129
    32785 1p4r:B (2.55) BS04 354 2.1.2.3
    3.5.4.10
    GO:0003360 ... P31939 14966129 PDBbind: -logKd/Ki=8.10, Ki=8nM
    32786 1p4t:A (2.55) BS01 ETA ? GO:0009279 ... Q9RP17 12716881
    32787 1p4u:A (2.2) BS01 peptide ? GO:0005802 ... Q9NZ52 12858162
    32788 1p4v:A (1.9) BS01 GLY 3.5.1.26 GO:0003948 ... Q47898 12906830
    32789 1p4v:C (1.9) BS01 GLY 3.5.1.26 GO:0003948 ... Q47898 12906830
    32790 1p50:A (2.8) BS01 ADP 2.7.3.3 GO:0003824 ... P51541 12732621
    32791 1p50:A (2.8) BS02 ARG 2.7.3.3 GO:0003824 ... P51541 12732621
    32792 1p51:A (2.5) BS01 dna ? GO:0003677 ... P05514 12853489 PDBbind: Kd=3.5nM
    32793 1p51:A (2.5) BS02 dna ? GO:0003677 ... P05514 12853489 PDBbind: Kd=3.5nM
    32794 1p51:B (2.5) BS01 dna ? GO:0003677 ... P05514 12853489 PDBbind: Kd=3.5nM
    32795 1p51:B (2.5) BS02 dna ? GO:0003677 ... P05514 12853489 PDBbind: Kd=3.5nM
    32796 1p51:B (2.5) BS03 dna ? GO:0003677 ... P05514 12853489 PDBbind: Kd=3.5nM
    32797 1p51:C (2.5) BS01 dna ? GO:0003677 ... P05514 12853489 PDBbind: Kd=3.5nM
    32798 1p51:C (2.5) BS02 dna ? GO:0003677 ... P05514 12853489 PDBbind: Kd=3.5nM
    32799 1p51:D (2.5) BS01 dna ? GO:0003677 ... P05514 12853489 PDBbind: Kd=3.5nM
    32800 1p51:D (2.5) BS02 dna ? GO:0003677 ... P05514 12853489 PDBbind: Kd=3.5nM

    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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