eF-site ID 5zrf-ABCDEF PDB Code 5zrf Chain A, B, C, D, E, F click to enlarge Title Crystal structure of human topoisomerase II beta in complex with 5-iodouridine-containing-DNA and etoposide in space group p21 Classification ISOMERASE/DNA Compound DNA topoisomerase 2-beta Source (5ZRF) Sequence A:  KGIPKLDDANDAGGKHSLECTLILTEGDSAKSLAVSGLGV IGRDRYGVFPLRGKILNVREASHKQIMENAEINNIIKIVG LQYKKSYDDAESLKTLRYGKIMIMTDQDQDGSHIKGLLIN FIHHNWPSLLKHGFLEEFITKEAKEYFADMERHRILFRYA GPEDDAAITLAFSKKKIDDRKEWLTNFMEDRRQRRLHKHL TYNDFINKELILFSNSDNERSIPSLVDGFKPGQRKVLFTC FKRNDKREVKVAQLAGSVAEMSAYHHGEQALMMTIVNLAQ NFVGSNNINLLQPIGQFGTRLHGGKDAASPRYIFTMLSTL ARLLFPAVDDNLLKFLYDDNQRVEPEWYIPIIPMVLINGA EGIGTGWACKLPNYDAREIVNNVRRMLDGLDPHPMLPNYK NFKGTIQELGQNQYAVSGEIFVVDRNTVEITELPVRTWTQ VYKEQVLEPMLNGTDKTPALISDYKEYHTDTTVKFVVKMT EEKLAQAEAAGLHKVFKLQTTLTCNSMVLFDHMGCLKKYE TVQDILKEFFDLRLSYYGLRKEWLVGMLGAESTKLNNQAR FILEKIQGKITIENRSKKDLIQMLVQRGYESDPVKAWKEA QEGPDFNYILNMSLWSLTKEKVEELIKQRDAKGREVNDLK RKSPSDLWKEDLAAFVEELDKVESQERED B:  SKIKGIPKLDDANDAGGKHSLECTLILTEGDSAKSLAVSG LGVIGRDRYGVFPLRGKILNVREASHKQIMENAEINNIIK IVGLQYKKSYDDAESLKTLRYGKIMIMTDQDQDGSHIKGL LINFIHHNWPSLLKHGFLEEFITPAKEAKEYFADMERHRI LFRYAGPEDDAAITLAFSKKKIDDRKEWLTNFMEDRRQRR LHGTKHLTYNDFINKELILFSNSDNERSIPSLVDGFKPGQ RKVLFTCFKRNDKREVKVAQLAGSVAEMSAYHHGEQALMM TIVNLAQNFVGSNNINLLQPIGQFGTRLHGGKDAASPRYI FTMLSTLARLLFPAVDDNLLKFLYDDNQRVEPEWYIPIIP MVLINGAEGIGTGWACKLPNYDAREIVNNVRRMLDGLDPH PMLPNYKNFKGTIQELGQNQYAVSGEIFVVDRNTVEITEL PVRTWTQVYKEQVLEPMLNGPALISDYKEYHTDTTVKFVV KMTEEKLAQAEAAGLHKVFKLQTTLTCNSMVLFDHMGCLK KYETVQDILKEFFDLRLSYYGLRKEWLVGMLGAESTKLNN QARFILEKIQGKITIENRSKKDLIQMLVQRGYESDPVKAW KEAQGPDFNYILNMSLWSLTKEKVEELIKQRDAKGREVND LKRKSPSDLWKEDLAAFVEELDKVESQERED C:  AGCCGAGC D:  XGCAGCXCGGCX E:  AGCCGAGC F:  XGCAGCXCGGCX Description Functional site 1) chain A residue 557 type sequence D description binding site for residue MG A 1301 source : AC1 2) chain A residue 559 type sequence D description binding site for residue MG A 1301 source : AC1 3) chain A residue 867 type sequence N description binding site for residue MG A 1302 source : AC2 4) chain A residue 868 type sequence G description binding site for residue MG A 1302 source : AC2 5) chain B residue 867 type sequence N description binding site for residue MG B 1301 source : AC3 6) chain B residue 868 type sequence G description binding site for residue MG B 1301 source : AC3 7) chain B residue 557 type sequence D description binding site for residue MG B 1302 source : AC4 8) chain B residue 559 type sequence D description binding site for residue MG B 1302 source : AC4 9) chain B residue 478 type sequence G description binding site for residue EVP D 101 source : AC5 10) chain B residue 479 type sequence D description binding site for residue EVP D 101 source : AC5 11) chain B residue 503 type sequence R description binding site for residue EVP D 101 source : AC5 12) chain B residue 778 type sequence Q description binding site for residue EVP D 101 source : AC5 13) chain B residue 782 type sequence M description binding site for residue EVP D 101 source : AC5 14) chain D residue 12 type sequence A description binding site for residue EVP D 101 source : AC5 15) chain D residue 13 type sequence G description binding site for residue EVP D 101 source : AC5 16) chain E residue 8 type sequence C description binding site for residue EVP D 101 source : AC5 17) chain F residue 9 type sequence X description binding site for residue EVP D 101 source : AC5 18) chain F residue 10 type sequence G description binding site for residue EVP D 101 source : AC5 19) chain A residue 478 type sequence G description binding site for residue EVP F 1301 source : AC7 20) chain A residue 479 type sequence D description binding site for residue EVP F 1301 source : AC7 21) chain A residue 503 type sequence R description binding site for residue EVP F 1301 source : AC7 22) chain A residue 782 type sequence M description binding site for residue EVP F 1301 source : AC7 23) chain C residue 8 type sequence C description binding site for residue EVP F 1301 source : AC7 24) chain D residue 9 type sequence X description binding site for residue EVP F 1301 source : AC7 25) chain D residue 10 type sequence G description binding site for residue EVP F 1301 source : AC7 26) chain F residue 12 type sequence A description binding site for residue EVP F 1301 source : AC7 27) chain F residue 13 type sequence G description binding site for residue EVP F 1301 source : AC7 28) chain A residue 479 type sequence D description binding site for Di-nucleotide IU D 9 and DG D 10 source : AC9 29) chain B residue 820 type sequence R description binding site for Di-nucleotide IU D 9 and DG D 10 source : AC9 30) chain B residue 821 type sequence Y description binding site for Di-nucleotide IU D 9 and DG D 10 source : AC9 31) chain D residue 11 type sequence C description binding site for Di-nucleotide IU D 9 and DG D 10 source : AC9 32) chain F residue 10 type sequence G description binding site for Di-nucleotide IU D 9 and DG D 10 source : AC9 33) chain F residue 11 type sequence C description binding site for Di-nucleotide IU D 9 and DG D 10 source : AC9 34) chain F residue 12 type sequence A description binding site for Di-nucleotide IU D 9 and DG D 10 source : AC9 35) chain B residue 505 type sequence K description binding site for Di-nucleotide DC D 14 and IU D 15 source : AD1 36) chain B residue 506 type sequence I description binding site for Di-nucleotide DC D 14 and IU D 15 source : AD1 37) chain B residue 507 type sequence L description binding site for Di-nucleotide DC D 14 and IU D 15 source : AD1 38) chain B residue 508 type sequence N description binding site for Di-nucleotide DC D 14 and IU D 15 source : AD1 39) chain B residue 516 type sequence Q description binding site for Di-nucleotide DC D 14 and IU D 15 source : AD1 40) chain B residue 564 type sequence H description binding site for Di-nucleotide DC D 14 and IU D 15 source : AD1 41) chain D residue 13 type sequence G description binding site for Di-nucleotide DC D 14 and IU D 15 source : AD1 42) chain D residue 16 type sequence C description binding site for Di-nucleotide DC D 14 and IU D 15 source : AD1 43) chain E residue 5 type sequence G description binding site for Di-nucleotide DC D 14 and IU D 15 source : AD1 44) chain E residue 6 type sequence A description binding site for Di-nucleotide DC D 14 and IU D 15 source : AD1 45) chain E residue 7 type sequence G description binding site for Di-nucleotide DC D 14 and IU D 15 source : AD1 46) chain B residue 506 type sequence I description binding site for Di-nucleotide IU D 15 and DC D 16 source : AD2 47) chain B residue 507 type sequence L description binding site for Di-nucleotide IU D 15 and DC D 16 source : AD2 48) chain B residue 508 type sequence N description binding site for Di-nucleotide IU D 15 and DC D 16 source : AD2 49) chain B residue 564 type sequence H description binding site for Di-nucleotide IU D 15 and DC D 16 source : AD2 50) chain B residue 669 type sequence F description binding site for Di-nucleotide IU D 15 and DC D 16 source : AD2 51) chain B residue 872 type sequence I description binding site for Di-nucleotide IU D 15 and DC D 16 source : AD2 52) chain B residue 873 type sequence G description binding site for Di-nucleotide IU D 15 and DC D 16 source : AD2 53) chain B residue 874 type sequence T description binding site for Di-nucleotide IU D 15 and DC D 16 source : AD2 54) chain D residue 14 type sequence C description binding site for Di-nucleotide IU D 15 and DC D 16 source : AD2 55) chain D residue 17 type sequence G description binding site for Di-nucleotide IU D 15 and DC D 16 source : AD2 56) chain E residue 4 type sequence C description binding site for Di-nucleotide IU D 15 and DC D 16 source : AD2 57) chain E residue 5 type sequence G description binding site for Di-nucleotide IU D 15 and DC D 16 source : AD2 58) chain E residue 6 type sequence A description binding site for Di-nucleotide IU D 15 and DC D 16 source : AD2 59) chain E residue 7 type sequence G description binding site for Di-nucleotide IU D 15 and DC D 16 source : AD2 60) chain A residue 897 type sequence D description binding site for Di-nucleotide DC D 19 and IU D 20 source : AD3 61) chain A residue 899 type sequence L description binding site for Di-nucleotide DC D 19 and IU D 20 source : AD3 62) chain B residue 879 type sequence K description binding site for Di-nucleotide DC D 19 and IU D 20 source : AD3 63) chain B residue 1010 type sequence T description binding site for Di-nucleotide DC D 19 and IU D 20 source : AD3 64) chain B residue 1011 type sequence L description binding site for Di-nucleotide DC D 19 and IU D 20 source : AD3 65) chain B residue 1012 type sequence T description binding site for Di-nucleotide DC D 19 and IU D 20 source : AD3 66) chain B residue 1014 type sequence N description binding site for Di-nucleotide DC D 19 and IU D 20 source : AD3 67) chain D residue 18 type sequence G description binding site for Di-nucleotide DC D 19 and IU D 20 source : AD3 68) chain E residue 1 type sequence A description binding site for Di-nucleotide DC D 19 and IU D 20 source : AD3 69) chain E residue 2 type sequence G description binding site for Di-nucleotide DC D 19 and IU D 20 source : AD3 70) chain A residue 821 type sequence Y description binding site for Di-nucleotide IU F 9 and DG F 10 source : AD4 71) chain B residue 479 type sequence D description binding site for Di-nucleotide IU F 9 and DG F 10 source : AD4 72) chain D residue 10 type sequence G description binding site for Di-nucleotide IU F 9 and DG F 10 source : AD4 73) chain D residue 11 type sequence C description binding site for Di-nucleotide IU F 9 and DG F 10 source : AD4 74) chain D residue 12 type sequence A description binding site for Di-nucleotide IU F 9 and DG F 10 source : AD4 75) chain F residue 11 type sequence C description binding site for Di-nucleotide IU F 9 and DG F 10 source : AD4 76) chain A residue 505 type sequence K description binding site for Di-nucleotide DC F 14 and IU F 15 source : AD5 77) chain A residue 506 type sequence I description binding site for Di-nucleotide DC F 14 and IU F 15 source : AD5 78) chain A residue 507 type sequence L description binding site for Di-nucleotide DC F 14 and IU F 15 source : AD5 79) chain A residue 508 type sequence N description binding site for Di-nucleotide DC F 14 and IU F 15 source : AD5 80) chain A residue 516 type sequence Q description binding site for Di-nucleotide DC F 14 and IU F 15 source : AD5 81) chain A residue 564 type sequence H description binding site for Di-nucleotide DC F 14 and IU F 15 source : AD5 82) chain C residue 5 type sequence G description binding site for Di-nucleotide DC F 14 and IU F 15 source : AD5 83) chain C residue 6 type sequence A description binding site for Di-nucleotide DC F 14 and IU F 15 source : AD5 84) chain C residue 7 type sequence G description binding site for Di-nucleotide DC F 14 and IU F 15 source : AD5 85) chain F residue 13 type sequence G description binding site for Di-nucleotide DC F 14 and IU F 15 source : AD5 86) chain F residue 16 type sequence C description binding site for Di-nucleotide DC F 14 and IU F 15 source : AD5 87) chain A residue 506 type sequence I description binding site for Di-nucleotide IU F 15 and DC F 16 source : AD6 88) chain A residue 507 type sequence L description binding site for Di-nucleotide IU F 15 and DC F 16 source : AD6 89) chain A residue 508 type sequence N description binding site for Di-nucleotide IU F 15 and DC F 16 source : AD6 90) chain A residue 564 type sequence H description binding site for Di-nucleotide IU F 15 and DC F 16 source : AD6 91) chain A residue 669 type sequence F description binding site for Di-nucleotide IU F 15 and DC F 16 source : AD6 92) chain A residue 872 type sequence I description binding site for Di-nucleotide IU F 15 and DC F 16 source : AD6 93) chain A residue 873 type sequence G description binding site for Di-nucleotide IU F 15 and DC F 16 source : AD6 94) chain A residue 874 type sequence T description binding site for Di-nucleotide IU F 15 and DC F 16 source : AD6 95) chain C residue 5 type sequence G description binding site for Di-nucleotide IU F 15 and DC F 16 source : AD6 96) chain C residue 6 type sequence A description binding site for Di-nucleotide IU F 15 and DC F 16 source : AD6 97) chain C residue 7 type sequence G description binding site for Di-nucleotide IU F 15 and DC F 16 source : AD6 98) chain F residue 14 type sequence C description binding site for Di-nucleotide IU F 15 and DC F 16 source : AD6 99) chain F residue 17 type sequence G description binding site for Di-nucleotide IU F 15 and DC F 16 source : AD6 100) chain A residue 879 type sequence K description binding site for Di-nucleotide DC F 19 and IU F 20 source : AD7 101) chain A residue 1010 type sequence T description binding site for Di-nucleotide DC F 19 and IU F 20 source : AD7 102) chain A residue 1011 type sequence L description binding site for Di-nucleotide DC F 19 and IU F 20 source : AD7 103) chain A residue 1012 type sequence T description binding site for Di-nucleotide DC F 19 and IU F 20 source : AD7 104) chain A residue 1014 type sequence N description binding site for Di-nucleotide DC F 19 and IU F 20 source : AD7 105) chain A residue 1015 type sequence S description binding site for Di-nucleotide DC F 19 and IU F 20 source : AD7 106) chain C residue 1 type sequence A description binding site for Di-nucleotide DC F 19 and IU F 20 source : AD7 107) chain C residue 2 type sequence G description binding site for Di-nucleotide DC F 19 and IU F 20 source : AD7 108) chain F residue 18 type sequence G description binding site for Di-nucleotide DC F 19 and IU F 20 source : AD7 109) 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 110) 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 111) 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 112) 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 113) 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 114) 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 115) 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 116) 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 117) 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 118) 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 119) chain A residue 475-483 type prosite sequence LTEGDSAKS description TOPOISOMERASE_II DNA topoisomerase II signature. LTEGDSAKS source prosite : PS00177 120) 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 121) 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 122) chain A residue 477 type BINDING sequence E description BINDING => ECO:0000255|PROSITE-ProRule:PRU00995 source Swiss-Prot : SWS_FT_FI2 123) chain B residue 477 type BINDING sequence E description BINDING => ECO:0000255|PROSITE-ProRule:PRU00995 source Swiss-Prot : SWS_FT_FI2 124) 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 125) 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 126) 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 127) 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 128) chain A residue 505 type SITE sequence K description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 129) chain A residue 508 type SITE sequence N description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 130) chain A residue 677 type SITE sequence R description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 131) chain A residue 678 type SITE sequence K description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 132) chain A residue 739 type SITE sequence K description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 133) chain A residue 947 type SITE sequence W description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 134) chain B residue 505 type SITE sequence K description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 135) chain B residue 508 type SITE sequence N description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 136) chain B residue 677 type SITE sequence R description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 137) chain B residue 678 type SITE sequence K description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 138) chain B residue 739 type SITE sequence K description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 139) chain B residue 947 type SITE sequence W description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 140) chain A residue 773 type SITE sequence Y description Interaction with DNA => ECO:0000255|PROSITE-ProRule:PRU00995 source Swiss-Prot : SWS_FT_FI5 141) chain B residue 773 type SITE sequence Y description Interaction with DNA => ECO:0000255|PROSITE-ProRule:PRU00995 source Swiss-Prot : SWS_FT_FI5 142) chain A residue 820 type SITE sequence R description Transition state stabilizer source Swiss-Prot : SWS_FT_FI6 143) chain B residue 820 type SITE sequence R description Transition state stabilizer source Swiss-Prot : SWS_FT_FI6 144) 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 145) 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

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