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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 594392 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
    183001 4woi:DC (3.0) BS02 rna ? GO:0000028 ... P0A7V3 26224058
    183002 4woi:DD (3.0) BS01 rna ? GO:0000028 ... P0A7V8 26224058
    183003 4woi:DE (3.0) BS01 rna ? GO:0000028 ... P0A7W1 26224058
    183004 4woi:DF (3.0) BS01 rna ? GO:0002181 ... P02358 26224058
    183005 4woi:DG (3.0) BS01 rna ? GO:0000028 ... P02359 26224058
    183006 4woi:DH (3.0) BS01 rna ? GO:0000028 ... P0A7W7 26224058
    183007 4woi:DI (3.0) BS01 rna ? GO:0000049 ... P0A7X3 26224058
    183008 4woi:DI (3.0) BS02 rna ? GO:0000049 ... P0A7X3 26224058
    183009 4woi:DJ (3.0) BS01 rna ? GO:0000049 ... P0A7R5 26224058
    183010 4woi:DK (3.0) BS01 rna ? GO:0002181 ... P0A7R9 26224058
    183011 4woi:DL (3.0) BS01 rna ? GO:0000049 ... P0A7S3 26224058
    183012 4woi:DM (3.0) BS01 rna ? GO:0000049 ... P0A7S9 26224058
    183013 4woi:DN (3.0) BS01 rna ? GO:0000028 ... P0AG59 26224058
    183014 4woi:DO (3.0) BS01 rna N/A GO:0003735 ... N/A 26224058
    183015 4woi:DO (3.0) BS02 rna N/A GO:0003735 ... N/A 26224058
    183016 4woi:DP (3.0) BS01 rna ? GO:0000028 ... P0A7T3 26224058
    183017 4woi:DQ (3.0) BS01 rna ? GO:0000028 ... P0AG63 26224058
    183018 4woi:DR (3.0) BS01 rna ? GO:0002181 ... P0A7T7 26224058
    183019 4woi:DS (3.0) BS01 rna ? GO:0000028 ... P0A7U3 26224058
    183020 4woi:DT (3.0) BS01 rna ? GO:0000028 ... P0A7U7 26224058
    183021 4woi:DU (3.0) BS01 rna ? GO:0000028 ... P68679 26224058
    183022 4woi:DU (3.0) BS02 rna ? GO:0000028 ... P68679 26224058
    183023 4wok:A (1.85) BS01 NAD 5.1.3.2 GO:0000166 ... A0A0H3ASR6 N/A
    183024 4wok:A (1.85) BS02 ZN 5.1.3.2 GO:0000166 ... A0A0H3ASR6 N/A
    183025 4wop:A (2.393) BS01 CTP 6.3.3.3 GO:0000287 ... P9WPQ5 25801336 MOAD: Kd=17.2uM
    PDBbind: -logKd/Ki=4.76, Kd=17.2uM
    183026 4wop:C (2.393) BS01 CTP 6.3.3.3 GO:0000287 ... P9WPQ5 25801336 MOAD: Kd=17.2uM
    183027 4wop:D (2.393) BS01 CTP 6.3.3.3 GO:0000287 ... P9WPQ5 25801336 MOAD: Kd=17.2uM
    183028 4woq:C (2.2) BS01 2KT 4.1.3.3 GO:0005737 ... D5Q364 N/A
    183029 4woq:D (2.2) BS01 2KT 4.1.3.3 GO:0005737 ... D5Q364 N/A
    183030 4woq:E (2.2) BS01 2KT 4.1.3.3 GO:0005737 ... D5Q364 N/A
    183031 4woq:F (2.2) BS01 2KT 4.1.3.3 GO:0005737 ... D5Q364 N/A
    183032 4woq:H (2.2) BS01 2KT 4.1.3.3 GO:0005737 ... D5Q364 N/A
    183033 4wou:A (2.122) BS01 GDP 4.1.1.32 GO:0004611 ... A5TYT6 N/A
    183034 4wou:A (2.122) BS02 ZN 4.1.1.32 GO:0004611 ... A5TYT6 N/A
    183035 4woz:B (1.96) BS01 MN9 4.1.3.3 GO:0005737 ... D5Q364 N/A
    183036 4woz:F (1.96) BS01 MN9 4.1.3.3 GO:0005737 ... D5Q364 N/A
    183037 4wp7:A (1.8) BS01 3SR 1.2.1.19
    1.2.1.28
    1.2.1.3
    1.2.1.36    		 GO:0000166 ... P00352 25634381 MOAD: ic50=0.8uM
    PDBbind: -logKd/Ki=6.10, IC50=0.80uM
    BindingDB: IC50=800nM, Ki=720nM
    183038 4wpd:A (2.001) BS01 3SQ 1.11.1.7
    1.14.-.-    		 GO:0004497 ... Q55080 N/A
    183039 4wpd:A (2.001) BS02 HEM 1.11.1.7
    1.14.-.-    		 GO:0004497 ... Q55080 N/A
    183040 4wpd:B (2.001) BS01 HEM 1.11.1.7
    1.14.-.-    		 GO:0004497 ... Q55080 N/A
    183041 4wpd:B (2.001) BS02 3SQ 1.11.1.7
    1.14.-.-    		 GO:0004497 ... Q55080 N/A
    183042 4wpf:A (2.202) BS01 peptide ? GO:0003677 ... P51449 25815138
    183043 4wpf:A (2.202) BS02 3SN ? GO:0003677 ... P51449 25815138 MOAD: ic50=0.25uM
    PDBbind: -logKd/Ki=6.60, IC50=0.25uM
    BindingDB: EC50=69nM, IC50=249nM
    183044 4wpf:D (2.202) BS01 peptide ? GO:0003677 ... P51449 25815138
    183045 4wpf:D (2.202) BS02 3SN ? GO:0003677 ... P51449 25815138 MOAD: ic50=0.25uM
    BindingDB: EC50=69nM, IC50=249nM
    183046 4wpl:A (1.15) BS01 URA 3.2.2.27 GO:0004844 ... P9WFQ9 26143923
    183047 4wpn:A (1.95) BS01 3ST 1.2.1.19
    1.2.1.28
    1.2.1.3
    1.2.1.36    		 GO:0000166 ... P00352 25634381 MOAD: ic50=0.21uM
    PDBbind: -logKd/Ki=6.68, IC50=210nM
    BindingDB: IC50=210nM, Ki=96nM
    183048 4wpo:A0 (2.8) BS01 rna ? GO:0003735 ... P60493 25594181
    183049 4wpo:A0 (2.8) BS02 rna ? GO:0003735 ... P60493 25594181
    183050 4wpo:A1 (2.8) BS01 rna ? GO:0003735 ... P60494 25594181
    183051 4wpo:A1 (2.8) BS02 rna ? GO:0003735 ... P60494 25594181
    183052 4wpo:A2 (2.8) BS01 rna ? GO:0003735 ... Q5SHP6 25594181
    183053 4wpo:A2 (2.8) BS02 MG ? GO:0003735 ... Q5SHP6 25594181
    183054 4wpo:A3 (2.8) BS01 rna ? GO:0003735 ... Q5SHQ6 25594181
    183055 4wpo:A3 (2.8) BS02 rna ? GO:0003735 ... Q5SHQ6 25594181
    183056 4wpo:A3 (2.8) BS03 MG ? GO:0003735 ... Q5SHQ6 25594181
    183057 4wpo:A4 (2.8) BS01 rna ? GO:0003735 ... Q5SJE1 25594181
    183058 4wpo:A4 (2.8) BS02 ZN ? GO:0003735 ... Q5SJE1 25594181
    183059 4wpo:A5 (2.8) BS01 rna ? GO:0003735 ... P80339 25594181
    183060 4wpo:A5 (2.8) BS02 ZN ? GO:0003735 ... P80339 25594181
    183061 4wpo:A6 (2.8) BS01 rna ? GO:0000049 ... P35871 25594181
    183062 4wpo:A6 (2.8) BS02 MG ? GO:0000049 ... P35871 25594181
    183063 4wpo:A6 (2.8) BS03 ZN ? GO:0000049 ... P35871 25594181
    183064 4wpo:A7 (2.8) BS01 rna ? GO:0003735 ... P80340 25594181
    183065 4wpo:A7 (2.8) BS02 MG ? GO:0003735 ... P80340 25594181
    183066 4wpo:A7 (2.8) BS03 MG ? GO:0003735 ... P80340 25594181
    183067 4wpo:A7 (2.8) BS04 MG ? GO:0003735 ... P80340 25594181
    183068 4wpo:A7 (2.8) BS05 MG ? GO:0003735 ... P80340 25594181
    183069 4wpo:A8 (2.8) BS01 rna ? GO:0003735 ... Q5SKU1 25594181
    183070 4wpo:A8 (2.8) BS02 MG ? GO:0003735 ... Q5SKU1 25594181
    183071 4wpo:A9 (2.8) BS01 rna ? GO:0003735 ... Q5SHR2 25594181
    183072 4wpo:A9 (2.8) BS02 ZN ? GO:0003735 ... Q5SHR2 25594181
    183073 4wpo:AC (2.8) BS01 rna ? GO:0000049 ... Q5SLP7 25594181
    183074 4wpo:AD (2.8) BS01 rna ? GO:0002181 ... P60405 25594181
    183075 4wpo:AD (2.8) BS02 rna ? GO:0002181 ... P60405 25594181
    183076 4wpo:AD (2.8) BS03 MG ? GO:0002181 ... P60405 25594181
    183077 4wpo:AD (2.8) BS04 MG ? GO:0002181 ... P60405 25594181
    183078 4wpo:AD (2.8) BS05 MG ? GO:0002181 ... P60405 25594181
    183079 4wpo:AD (2.8) BS06 MG ? GO:0002181 ... P60405 25594181
    183080 4wpo:AD (2.8) BS07 MG ? GO:0002181 ... P60405 25594181
    183081 4wpo:AD (2.8) BS08 MG ? GO:0002181 ... P60405 25594181
    183082 4wpo:AD (2.8) BS09 MG ? GO:0002181 ... P60405 25594181
    183083 4wpo:AD (2.8) BS10 MG ? GO:0002181 ... P60405 25594181
    183084 4wpo:AD (2.8) BS11 MG ? GO:0002181 ... P60405 25594181
    183085 4wpo:AE (2.8) BS01 rna ? GO:0003735 ... Q5SHN8 25594181
    183086 4wpo:AE (2.8) BS02 MG ? GO:0003735 ... Q5SHN8 25594181
    183087 4wpo:AF (2.8) BS01 rna ? GO:0003735 ... Q5SHN9 25594181
    183088 4wpo:AF (2.8) BS02 MG ? GO:0003735 ... Q5SHN9 25594181
    183089 4wpo:AF (2.8) BS03 MG ? GO:0003735 ... Q5SHN9 25594181
    183090 4wpo:AF (2.8) BS04 MG ? GO:0003735 ... Q5SHN9 25594181
    183091 4wpo:AF (2.8) BS05 MG ? GO:0003735 ... Q5SHN9 25594181
    183092 4wpo:AF (2.8) BS06 MG ? GO:0003735 ... Q5SHN9 25594181
    183093 4wpo:AF (2.8) BS07 MG ? GO:0003735 ... Q5SHN9 25594181
    183094 4wpo:AF (2.8) BS08 MG ? GO:0003735 ... Q5SHN9 25594181
    183095 4wpo:AG (2.8) BS01 rna ? GO:0000049 ... Q5SHQ0 25594181
    183096 4wpo:AG (2.8) BS02 rna ? GO:0000049 ... Q5SHQ0 25594181
    183097 4wpo:AG (2.8) BS03 MG ? GO:0000049 ... Q5SHQ0 25594181
    183098 4wpo:AG (2.8) BS04 MG ? GO:0000049 ... Q5SHQ0 25594181
    183099 4wpo:AH (2.8) BS01 rna N/A GO:0003735 ... N/A 25594181
    183100 4wpo:AH (2.8) BS02 MG N/A GO:0003735 ... N/A 25594181
    183101 4wpo:AK (2.8) BS01 rna ? GO:0003735 ... Q8VVE3 25594181
    183102 4wpo:AL (2.8) BS01 rna ? GO:0003735 ... Q5SLP6 25594181
    183103 4wpo:AN (2.8) BS01 rna ? GO:0003729 ... P60488 25594181
    183104 4wpo:AN (2.8) BS02 MG ? GO:0003729 ... P60488 25594181
    183105 4wpo:AO (2.8) BS01 rna ? GO:0003735 ... Q5SHP8 25594181
    183106 4wpo:AO (2.8) BS02 rna ? GO:0003735 ... Q5SHP8 25594181
    183107 4wpo:AP (2.8) BS01 rna ? GO:0003735 ... Q5SHQ7 25594181
    183108 4wpo:AP (2.8) BS02 MG ? GO:0003735 ... Q5SHQ7 25594181
    183109 4wpo:AP (2.8) BS03 MG ? GO:0003735 ... Q5SHQ7 25594181
    183110 4wpo:AP (2.8) BS04 MG ? GO:0003735 ... Q5SHQ7 25594181
    183111 4wpo:AQ (2.8) BS01 rna ? GO:0000049 ... P60489 25594181
    183112 4wpo:AQ (2.8) BS02 rna ? GO:0000049 ... P60489 25594181
    183113 4wpo:AQ (2.8) BS03 rna ? GO:0000049 ... P60489 25594181
    183114 4wpo:AQ (2.8) BS04 MG ? GO:0000049 ... P60489 25594181
    183115 4wpo:AR (2.8) BS01 rna ? GO:0003735 ... Q9Z9H5 25594181
    183116 4wpo:AR (2.8) BS02 MG ? GO:0003735 ... Q9Z9H5 25594181
    183117 4wpo:AR (2.8) BS03 MG ? GO:0003735 ... Q9Z9H5 25594181
    183118 4wpo:AR (2.8) BS04 MG ? GO:0003735 ... Q9Z9H5 25594181
    183119 4wpo:AS (2.8) BS01 rna ? GO:0003735 ... Q5SHQ4 25594181
    183120 4wpo:AS (2.8) BS02 rna ? GO:0003735 ... Q5SHQ4 25594181
    183121 4wpo:AT (2.8) BS01 rna ? GO:0003735 ... P60490 25594181
    183122 4wpo:AT (2.8) BS02 rna ? GO:0003735 ... P60490 25594181
    183123 4wpo:AU (2.8) BS01 rna ? GO:0000027 ... P60491 25594181
    183124 4wpo:AU (2.8) BS02 MG ? GO:0000027 ... P60491 25594181
    183125 4wpo:AU (2.8) BS03 MG ? GO:0000027 ... P60491 25594181
    183126 4wpo:AU (2.8) BS04 MG ? GO:0000027 ... P60491 25594181
    183127 4wpo:AU (2.8) BS05 MG ? GO:0000027 ... P60491 25594181
    183128 4wpo:AU (2.8) BS06 MG ? GO:0000027 ... P60491 25594181
    183129 4wpo:AV (2.8) BS01 rna ? GO:0003723 ... P60492 25594181
    183130 4wpo:AV (2.8) BS02 MG ? GO:0003723 ... P60492 25594181
    183131 4wpo:AV (2.8) BS03 MG ? GO:0003723 ... P60492 25594181
    183132 4wpo:AV (2.8) BS04 MG ? GO:0003723 ... P60492 25594181
    183133 4wpo:AV (2.8) BS05 MG ? GO:0003723 ... P60492 25594181
    183134 4wpo:AW (2.8) BS01 rna ? GO:0003735 ... Q5SHP3 25594181
    183135 4wpo:AW (2.8) BS02 MG ? GO:0003735 ... Q5SHP3 25594181
    183136 4wpo:AX (2.8) BS01 rna ? GO:0000027 ... Q5SHP0 25594181
    183137 4wpo:AY (2.8) BS01 rna ? GO:0003723 ... Q5SHP9 25594181
    183138 4wpo:AY (2.8) BS02 ZN ? GO:0003723 ... Q5SHP9 25594181
    183139 4wpo:AZ (2.8) BS01 rna ? GO:0003723 ... Q5SHZ1 25594181
    183140 4wpo:AZ (2.8) BS02 rna ? GO:0003723 ... Q5SHZ1 25594181
    183141 4wpo:BB (2.8) BS01 rna ? GO:0003735 ... P80371 25594181
    183142 4wpo:BC (2.8) BS01 rna ? GO:0003676 ... P80372 25594181
    183143 4wpo:BD (2.8) BS01 rna ? GO:0003723 ... P80373 25594181
    183144 4wpo:BD (2.8) BS02 SF4 ? GO:0003723 ... P80373 25594181
    183145 4wpo:BE (2.8) BS01 rna ? GO:0003723 ... Q5SHQ5 25594181
    183146 4wpo:BE (2.8) BS02 MG ? GO:0003723 ... Q5SHQ5 25594181
    183147 4wpo:BF (2.8) BS01 rna ? GO:0003735 ... Q5SLP8 25594181
    183148 4wpo:BG (2.8) BS01 rna ? GO:0000028 ... P17291 25594181
    183149 4wpo:BG (2.8) BS02 rna ? GO:0000028 ... P17291 25594181
    183150 4wpo:BH (2.8) BS01 rna N/A GO:0003735 ... N/A 25594181
    183151 4wpo:BI (2.8) BS01 rna ? GO:0000049 ... P80374 25594181
    183152 4wpo:BJ (2.8) BS01 rna ? GO:0000049 ... Q5SHN7 25594181
    183153 4wpo:BK (2.8) BS01 rna ? GO:0003735 ... P80376 25594181
    183154 4wpo:BK (2.8) BS02 MG ? GO:0003735 ... P80376 25594181
    183155 4wpo:BL (2.8) BS01 rna ? GO:0000049 ... Q5SHN3 25594181
    183156 4wpo:BL (2.8) BS02 MG ? GO:0000049 ... Q5SHN3 25594181
    183157 4wpo:BM (2.8) BS01 rna ? GO:0000049 ... P80377 25594181
    183158 4wpo:BM (2.8) BS02 rna ? GO:0000049 ... P80377 25594181
    183159 4wpo:BM (2.8) BS03 rna ? GO:0000049 ... P80377 25594181
    183160 4wpo:BM (2.8) BS04 MG ? GO:0000049 ... P80377 25594181
    183161 4wpo:BN (2.8) BS01 rna N/A GO:0003735 ... N/A 25594181
    183162 4wpo:BN (2.8) BS02 ZN N/A GO:0003735 ... N/A 25594181
    183163 4wpo:BN (2.8) BS03 MG N/A GO:0003735 ... N/A 25594181
    183164 4wpo:BO (2.8) BS01 rna ? GO:0003735 ... Q5SJ76 25594181
    183165 4wpo:BO (2.8) BS02 rna ? GO:0003735 ... Q5SJ76 25594181
    183166 4wpo:BP (2.8) BS01 rna ? GO:0003735 ... Q5SJH3 25594181
    183167 4wpo:BQ (2.8) BS01 rna N/A GO:0003735 ... N/A 25594181
    183168 4wpo:BR (2.8) BS01 rna ? GO:0003735 ... Q5SLQ0 25594181
    183169 4wpo:BS (2.8) BS01 rna ? GO:0000028 ... Q5SHP2 25594181
    183170 4wpo:BT (2.8) BS01 rna ? GO:0003723 ... P80380 25594181
    183171 4wpo:BT (2.8) BS02 MG ? GO:0003723 ... P80380 25594181
    183172 4wpo:BZ (2.8) BS01 rna ? GO:0003735 ... Q5SHN5
    Q5SLQ1    		 25594181
    183173 4wpo:BZ (2.8) BS02 rna ? GO:0003735 ... Q5SHN5
    Q5SLQ1    		 25594181
    183174 4wpo:BZ (2.8) BS03 MG ? GO:0003735 ... Q5SHN5
    Q5SLQ1    		 25594181
    183175 4wpo:BZ (2.8) BS04 GDP ? GO:0003735 ... Q5SHN5
    Q5SLQ1    		 25594181
    183176 4wpo:C0 (2.8) BS01 rna ? GO:0003735 ... P60493 25594181
    183177 4wpo:C1 (2.8) BS01 rna ? GO:0003735 ... P60494 25594181
    183178 4wpo:C1 (2.8) BS02 rna ? GO:0003735 ... P60494 25594181
    183179 4wpo:C2 (2.8) BS01 rna ? GO:0003735 ... Q5SHP6 25594181
    183180 4wpo:C3 (2.8) BS01 rna ? GO:0003735 ... Q5SHQ6 25594181
    183181 4wpo:C3 (2.8) BS02 rna ? GO:0003735 ... Q5SHQ6 25594181
    183182 4wpo:C3 (2.8) BS03 MG ? GO:0003735 ... Q5SHQ6 25594181
    183183 4wpo:C4 (2.8) BS01 rna ? GO:0003735 ... Q5SJE1 25594181
    183184 4wpo:C4 (2.8) BS02 ZN ? GO:0003735 ... Q5SJE1 25594181
    183185 4wpo:C5 (2.8) BS01 rna ? GO:0003735 ... P80339 25594181
    183186 4wpo:C5 (2.8) BS02 ZN ? GO:0003735 ... P80339 25594181
    183187 4wpo:C6 (2.8) BS01 rna ? GO:0000049 ... P35871 25594181
    183188 4wpo:C6 (2.8) BS02 ZN ? GO:0000049 ... P35871 25594181
    183189 4wpo:C7 (2.8) BS01 rna ? GO:0003735 ... P80340 25594181
    183190 4wpo:C7 (2.8) BS02 MG ? GO:0003735 ... P80340 25594181
    183191 4wpo:C8 (2.8) BS01 rna ? GO:0003735 ... Q5SKU1 25594181
    183192 4wpo:C9 (2.8) BS01 rna ? GO:0003735 ... Q5SHR2 25594181
    183193 4wpo:C9 (2.8) BS02 ZN ? GO:0003735 ... Q5SHR2 25594181
    183194 4wpo:CC (2.8) BS01 rna ? GO:0000049 ... Q5SLP7 25594181
    183195 4wpo:CD (2.8) BS01 rna ? GO:0002181 ... P60405 25594181
    183196 4wpo:CD (2.8) BS02 rna ? GO:0002181 ... P60405 25594181
    183197 4wpo:CD (2.8) BS03 MG ? GO:0002181 ... P60405 25594181
    183198 4wpo:CE (2.8) BS01 rna ? GO:0003735 ... Q5SHN8 25594181
    183199 4wpo:CE (2.8) BS02 MG ? GO:0003735 ... Q5SHN8 25594181
    183200 4wpo:CE (2.8) BS03 MG ? GO:0003735 ... Q5SHN8 25594181
    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)(download the PDF file).
  • 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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