eF-site ID 5gwi-ABCDEF PDB Code 5gwi Chain A, B, C, D, E, F click to enlarge Title Structure of a Human topoisomerase IIbeta fragment in complex with DNA and E7873R Classification ISOMERASE/DNA/ISOMERASE INHIBITOR Compound DNA topoisomerase 2-beta Source Homo sapiens (Human) (5GWI) Sequence A:  KGIPKLDDANDAGGKHSLECTLILTEGDSAKSLAVSGLGV IGRDRYGVFPLRGKILNVREASHKQIMENAEINNIIKIVG LQYKKSYDDAESLKTLRYGKIMIMTDQDQDGSHIKGLLIN FIHHNWPSLLKHGFLEEFITKEAKEYFADMERHRILFRYA GPEDDAAITLAFSKKKIDDRKEWLTNFMEDRRQRRLHGLK HLTYNDFINKELILFSNSDNERSIPSLVDGFKPGQRKVLF TCFKRNDKREVKVAQLAGSVAEMSAYHHGEQALMMTIVNL AQNFVGSNNINLLQPIGQFGTRLHGGKDAASPRYIFTMLS TLARLLFPAVDDNLLKFLYDDNQRVEPEWYIPIIPMVLIN GAEGIGTGWACKLPNYDAREIVNNVRRMLDGLDPHPMLPN YKNFKGTIQELGQNQYAVSGEIFVVDRNTVEITELPVRTW TQVYKEQVLEPMLNGTDKTPALISDYKEYHTDTTVKFVVK MTEEKLAQAEAAGLHKVFKLQTTLTCNSMVLFDHMGCLKK YETVQDILKEFFDLRLSYYGLRKEWLVGMLGAESTKLNNQ ARFILEKIQGKITIENRSKKDLIQMLVQRGYESDPVKAWK EAQEGPDFNYILNMSLWSLTKEKVEELIKQRDAKGREVND LKRKSPSDLWKEDLAAFVEELDKVESQERED B:  SKIKGIPKLDDANDAGGKHSLECTLILTEGDSAKSLAVSG LGVIGRDRYGVFPLRGKILNVREASHKQIMENAEINNIIK IVGLQYKKSYDDAESLKTLRYGKIMIMTDQDQDGSHIKGL LINFIHHNWPSLLKHGFLEEFITPAKEAKEYFADMERHRI LFRYAGPEDDAAITLAFSKKKIDDRKEWLTNFMEDRRQRR LHGTKHLTYNDFINKELILFSNSDNERSIPSLVDGFKPGQ RKVLFTCFKRNDKREVKVAQLAGSVAEMSAYHHGEQALMM TIVNLAQNFVGSNNINLLQPIGQFGTRLHGGKDAASPRYI FTMLSTLARLLFPAVDDNLLKFLYDDNQRVEPEWYIPIIP MVLINGAEGIGTGWACKLPNYDAREIVNNVRRMLDGLDPH PMLPNYKNFKGTIQELGQNQYAVSGEIFVVDRNTVEITEL PVRTWTQVYKEQVLEPMLNGPALISDYKEYHTDTTVKFVV KMTEEKLAQAEAAGLHKVFKLQTTLTCNSMVLFDHMGCLK KYETVQDILKEFFDLRLSYYGLRKEWLVGMLGAESTKLNN QARFILEKIQGKITIENRSKKDLIQMLVQRGYESDPVKAW KEAQGPDFNYILNMSLWSLTKEKVEELIKQRDAKGREVND LKRKSPSDLWKEDLAAFVEELDKVESQERED C:  AGCCGAGC D:  TGCAGCTCGGCT E:  AGCCGAGC F:  TGCAGCTCGGCT Description Functional site 1) chain A residue 478 type sequence G description binding site for residue N2R A 1301 source : AC1 2) chain A residue 479 type sequence D description binding site for residue N2R A 1301 source : AC1 3) chain A residue 502 type sequence L description binding site for residue N2R A 1301 source : AC1 4) chain A residue 503 type sequence R description binding site for residue N2R A 1301 source : AC1 5) chain A residue 778 type sequence Q description binding site for residue N2R A 1301 source : AC1 6) chain A residue 782 type sequence M description binding site for residue N2R A 1301 source : AC1 7) chain C residue 8 type sequence C description binding site for residue N2R A 1301 source : AC1 8) chain D residue 9 type sequence T description binding site for residue N2R A 1301 source : AC1 9) chain D residue 10 type sequence G description binding site for residue N2R A 1301 source : AC1 10) chain F residue 12 type sequence A description binding site for residue N2R A 1301 source : AC1 11) chain F residue 13 type sequence G description binding site for residue N2R A 1301 source : AC1 12) chain A residue 478 type sequence G description binding site for residue N2N A 1302 source : AC2 13) chain A residue 479 type sequence D description binding site for residue N2N A 1302 source : AC2 14) chain A residue 502 type sequence L description binding site for residue N2N A 1302 source : AC2 15) chain A residue 503 type sequence R description binding site for residue N2N A 1302 source : AC2 16) chain A residue 778 type sequence Q description binding site for residue N2N A 1302 source : AC2 17) chain A residue 782 type sequence M description binding site for residue N2N A 1302 source : AC2 18) chain C residue 8 type sequence C description binding site for residue N2N A 1302 source : AC2 19) chain D residue 9 type sequence T description binding site for residue N2N A 1302 source : AC2 20) chain D residue 10 type sequence G description binding site for residue N2N A 1302 source : AC2 21) chain F residue 12 type sequence A description binding site for residue N2N A 1302 source : AC2 22) chain F residue 13 type sequence G description binding site for residue N2N A 1302 source : AC2 23) chain A residue 557 type sequence D description binding site for residue MG A 1303 source : AC3 24) chain A residue 559 type sequence D description binding site for residue MG A 1303 source : AC3 25) chain A residue 867 type sequence N description binding site for residue MG A 1304 source : AC4 26) chain A residue 868 type sequence G description binding site for residue MG A 1304 source : AC4 27) chain B residue 478 type sequence G description binding site for residue N2R B 1301 source : AC5 28) chain B residue 479 type sequence D description binding site for residue N2R B 1301 source : AC5 29) chain B residue 503 type sequence R description binding site for residue N2R B 1301 source : AC5 30) chain B residue 778 type sequence Q description binding site for residue N2R B 1301 source : AC5 31) chain B residue 782 type sequence M description binding site for residue N2R B 1301 source : AC5 32) chain D residue 12 type sequence A description binding site for residue N2R B 1301 source : AC5 33) chain D residue 13 type sequence G description binding site for residue N2R B 1301 source : AC5 34) chain E residue 8 type sequence C description binding site for residue N2R B 1301 source : AC5 35) chain F residue 9 type sequence T description binding site for residue N2R B 1301 source : AC5 36) chain F residue 10 type sequence G description binding site for residue N2R B 1301 source : AC5 37) chain B residue 557 type sequence D description binding site for residue MG B 1303 source : AC6 38) chain B residue 559 type sequence D description binding site for residue MG B 1303 source : AC6 39) chain B residue 478 type sequence G description binding site for residue N2N B 1302 source : AC7 40) chain B residue 479 type sequence D description binding site for residue N2N B 1302 source : AC7 41) chain B residue 503 type sequence R description binding site for residue N2N B 1302 source : AC7 42) chain B residue 778 type sequence Q description binding site for residue N2N B 1302 source : AC7 43) chain B residue 781 type sequence M description binding site for residue N2N B 1302 source : AC7 44) chain B residue 782 type sequence M description binding site for residue N2N B 1302 source : AC7 45) chain D residue 12 type sequence A description binding site for residue N2N B 1302 source : AC7 46) chain D residue 13 type sequence G description binding site for residue N2N B 1302 source : AC7 47) chain E residue 8 type sequence C description binding site for residue N2N B 1302 source : AC7 48) chain F residue 9 type sequence T description binding site for residue N2N B 1302 source : AC7 49) chain F residue 10 type sequence G description binding site for residue N2N B 1302 source : AC7 50) chain E residue 5 type sequence G description binding site for residue MG E 101 source : AC9 51) chain B residue 641 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) => ECO:0007744|PubMed:28112733 source Swiss-Prot : SWS_FT_FI8 52) chain B residue 671 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) => ECO:0007744|PubMed:28112733 source Swiss-Prot : SWS_FT_FI8 53) chain B residue 707 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) => ECO:0007744|PubMed:28112733 source Swiss-Prot : SWS_FT_FI8 54) chain B residue 1087 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) => ECO:0007744|PubMed:28112733 source Swiss-Prot : SWS_FT_FI8 55) chain A residue 641 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) => ECO:0007744|PubMed:28112733 source Swiss-Prot : SWS_FT_FI8 56) chain A residue 671 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) => ECO:0007744|PubMed:28112733 source Swiss-Prot : SWS_FT_FI8 57) chain A residue 707 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) => ECO:0007744|PubMed:28112733 source Swiss-Prot : SWS_FT_FI8 58) chain A residue 1087 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) => ECO:0007744|PubMed:28112733 source Swiss-Prot : SWS_FT_FI8 59) chain A residue 638 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) => ECO:0007744|PubMed:25772364, ECO:0007744|PubMed:28112733 source Swiss-Prot : SWS_FT_FI9 60) chain B residue 638 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) => ECO:0007744|PubMed:25772364, ECO:0007744|PubMed:28112733 source Swiss-Prot : SWS_FT_FI9 61) chain A residue 821 type ACT_SITE sequence Y description O-(5'-phospho-DNA)-tyrosine intermediate => ECO:0000255|PROSITE-ProRule:PRU01384, ECO:0000269|PubMed:21778401 source Swiss-Prot : SWS_FT_FI1 62) chain B residue 821 type ACT_SITE sequence Y description O-(5'-phospho-DNA)-tyrosine intermediate => ECO:0000255|PROSITE-ProRule:PRU01384, ECO:0000269|PubMed:21778401 source Swiss-Prot : SWS_FT_FI1 63) chain A residue 505 type SITE sequence K description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 64) chain B residue 678 type SITE sequence K description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 65) chain B residue 739 type SITE sequence K description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 66) chain B residue 947 type SITE sequence W description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 67) chain A residue 508 type SITE sequence N description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 68) chain A residue 677 type SITE sequence R description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 69) chain A residue 678 type SITE sequence K description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 70) chain A residue 739 type SITE sequence K description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 71) chain A residue 947 type SITE sequence W description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 72) chain B residue 505 type SITE sequence K description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 73) chain B residue 508 type SITE sequence N description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 74) chain B residue 677 type SITE sequence R description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 75) chain A residue 773 type SITE sequence Y description Interaction with DNA => ECO:0000255|PROSITE-ProRule:PRU00995 source Swiss-Prot : SWS_FT_FI5 76) chain B residue 773 type SITE sequence Y description Interaction with DNA => ECO:0000255|PROSITE-ProRule:PRU00995 source Swiss-Prot : SWS_FT_FI5 77) chain A residue 820 type SITE sequence R description Transition state stabilizer source Swiss-Prot : SWS_FT_FI6 78) chain B residue 820 type SITE sequence R description Transition state stabilizer source Swiss-Prot : SWS_FT_FI6 79) chain A residue 872 type SITE sequence I description Important for DNA bending; intercalates between base pairs of target DNA source Swiss-Prot : SWS_FT_FI7 80) chain B residue 872 type SITE sequence I description Important for DNA bending; intercalates between base pairs of target DNA source Swiss-Prot : SWS_FT_FI7 81) chain A residue 477 type BINDING sequence E description BINDING => ECO:0000255|PROSITE-ProRule:PRU00995 source Swiss-Prot : SWS_FT_FI2 82) chain B residue 477 type BINDING sequence E description BINDING => ECO:0000255|PROSITE-ProRule:PRU00995 source Swiss-Prot : SWS_FT_FI2 83) chain A residue 557 type BINDING sequence D description BINDING => ECO:0000255|PROSITE-ProRule:PRU00995, ECO:0000269|PubMed:21778401 source Swiss-Prot : SWS_FT_FI3 84) chain A residue 559 type BINDING sequence D description BINDING => ECO:0000255|PROSITE-ProRule:PRU00995, ECO:0000269|PubMed:21778401 source Swiss-Prot : SWS_FT_FI3 85) chain B residue 557 type BINDING sequence D description BINDING => ECO:0000255|PROSITE-ProRule:PRU00995, ECO:0000269|PubMed:21778401 source Swiss-Prot : SWS_FT_FI3 86) chain B residue 559 type BINDING sequence D description BINDING => ECO:0000255|PROSITE-ProRule:PRU00995, ECO:0000269|PubMed:21778401 source Swiss-Prot : SWS_FT_FI3 87) chain A residue 475-483 type prosite sequence LTEGDSAKS description TOPOISOMERASE_II DNA topoisomerase II signature. LTEGDSAKS source prosite : PS00177

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