eF-site ID 5zrf-AB PDB Code 5zrf Chain A, B 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 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 A residue 478 type sequence G description binding site for residue EVP F 1301 source : AC7 15) chain A residue 479 type sequence D description binding site for residue EVP F 1301 source : AC7 16) chain A residue 503 type sequence R description binding site for residue EVP F 1301 source : AC7 17) chain A residue 782 type sequence M description binding site for residue EVP F 1301 source : AC7 18) chain A residue 479 type sequence D description binding site for Di-nucleotide IU D 9 and DG D 10 source : AC9 19) chain B residue 820 type sequence R description binding site for Di-nucleotide IU D 9 and DG D 10 source : AC9 20) chain B residue 821 type sequence Y description binding site for Di-nucleotide IU D 9 and DG D 10 source : AC9 21) chain B residue 505 type sequence K description binding site for Di-nucleotide DC D 14 and IU D 15 source : AD1 22) chain B residue 506 type sequence I description binding site for Di-nucleotide DC D 14 and IU D 15 source : AD1 23) chain B residue 507 type sequence L description binding site for Di-nucleotide DC D 14 and IU D 15 source : AD1 24) chain B residue 508 type sequence N description binding site for Di-nucleotide DC D 14 and IU D 15 source : AD1 25) chain B residue 516 type sequence Q description binding site for Di-nucleotide DC D 14 and IU D 15 source : AD1 26) chain B residue 564 type sequence H description binding site for Di-nucleotide DC D 14 and IU D 15 source : AD1 27) chain B residue 506 type sequence I description binding site for Di-nucleotide IU D 15 and DC D 16 source : AD2 28) chain B residue 507 type sequence L description binding site for Di-nucleotide IU D 15 and DC D 16 source : AD2 29) chain B residue 508 type sequence N description binding site for Di-nucleotide IU D 15 and DC D 16 source : AD2 30) chain B residue 564 type sequence H description binding site for Di-nucleotide IU D 15 and DC D 16 source : AD2 31) chain B residue 669 type sequence F description binding site for Di-nucleotide IU D 15 and DC D 16 source : AD2 32) chain B residue 872 type sequence I description binding site for Di-nucleotide IU D 15 and DC D 16 source : AD2 33) chain B residue 873 type sequence G description binding site for Di-nucleotide IU D 15 and DC D 16 source : AD2 34) chain B residue 874 type sequence T description binding site for Di-nucleotide IU D 15 and DC D 16 source : AD2 35) chain A residue 897 type sequence D description binding site for Di-nucleotide DC D 19 and IU D 20 source : AD3 36) chain A residue 899 type sequence L description binding site for Di-nucleotide DC D 19 and IU D 20 source : AD3 37) chain B residue 879 type sequence K description binding site for Di-nucleotide DC D 19 and IU D 20 source : AD3 38) chain B residue 1010 type sequence T description binding site for Di-nucleotide DC D 19 and IU D 20 source : AD3 39) chain B residue 1011 type sequence L description binding site for Di-nucleotide DC D 19 and IU D 20 source : AD3 40) chain B residue 1012 type sequence T description binding site for Di-nucleotide DC D 19 and IU D 20 source : AD3 41) chain B residue 1014 type sequence N description binding site for Di-nucleotide DC D 19 and IU D 20 source : AD3 42) chain A residue 821 type sequence Y description binding site for Di-nucleotide IU F 9 and DG F 10 source : AD4 43) chain B residue 479 type sequence D description binding site for Di-nucleotide IU F 9 and DG F 10 source : AD4 44) chain A residue 505 type sequence K description binding site for Di-nucleotide DC F 14 and IU F 15 source : AD5 45) chain A residue 506 type sequence I description binding site for Di-nucleotide DC F 14 and IU F 15 source : AD5 46) chain A residue 507 type sequence L description binding site for Di-nucleotide DC F 14 and IU F 15 source : AD5 47) chain A residue 508 type sequence N description binding site for Di-nucleotide DC F 14 and IU F 15 source : AD5 48) chain A residue 516 type sequence Q description binding site for Di-nucleotide DC F 14 and IU F 15 source : AD5 49) chain A residue 564 type sequence H description binding site for Di-nucleotide DC F 14 and IU F 15 source : AD5 50) chain A residue 506 type sequence I description binding site for Di-nucleotide IU F 15 and DC F 16 source : AD6 51) chain A residue 507 type sequence L description binding site for Di-nucleotide IU F 15 and DC F 16 source : AD6 52) chain A residue 508 type sequence N description binding site for Di-nucleotide IU F 15 and DC F 16 source : AD6 53) chain A residue 564 type sequence H description binding site for Di-nucleotide IU F 15 and DC F 16 source : AD6 54) chain A residue 669 type sequence F description binding site for Di-nucleotide IU F 15 and DC F 16 source : AD6 55) chain A residue 872 type sequence I description binding site for Di-nucleotide IU F 15 and DC F 16 source : AD6 56) chain A residue 873 type sequence G description binding site for Di-nucleotide IU F 15 and DC F 16 source : AD6 57) chain A residue 874 type sequence T description binding site for Di-nucleotide IU F 15 and DC F 16 source : AD6 58) chain A residue 879 type sequence K description binding site for Di-nucleotide DC F 19 and IU F 20 source : AD7 59) chain A residue 1010 type sequence T description binding site for Di-nucleotide DC F 19 and IU F 20 source : AD7 60) chain A residue 1011 type sequence L description binding site for Di-nucleotide DC F 19 and IU F 20 source : AD7 61) chain A residue 1012 type sequence T description binding site for Di-nucleotide DC F 19 and IU F 20 source : AD7 62) chain A residue 1014 type sequence N description binding site for Di-nucleotide DC F 19 and IU F 20 source : AD7 63) chain A residue 1015 type sequence S description binding site for Di-nucleotide DC F 19 and IU F 20 source : AD7 64) chain A residue 475-483 type prosite sequence LTEGDSAKS description TOPOISOMERASE_II DNA topoisomerase II signature. LTEGDSAKS source prosite : PS00177 65) 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 66) 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 67) chain A residue 477 type BINDING sequence E description BINDING => ECO:0000255|PROSITE-ProRule:PRU00995 source Swiss-Prot : SWS_FT_FI2 68) chain B residue 477 type BINDING sequence E description BINDING => ECO:0000255|PROSITE-ProRule:PRU00995 source Swiss-Prot : SWS_FT_FI2 69) 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 70) 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 71) 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 72) 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 73) chain A residue 505 type SITE sequence K description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 74) chain B residue 678 type SITE sequence K description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 75) chain B residue 739 type SITE sequence K description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 76) chain B residue 947 type SITE sequence W description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 77) chain A residue 508 type SITE sequence N description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 78) chain A residue 677 type SITE sequence R description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 79) chain A residue 678 type SITE sequence K description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 80) chain A residue 739 type SITE sequence K description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 81) chain A residue 947 type SITE sequence W description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 82) chain B residue 505 type SITE sequence K description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 83) chain B residue 508 type SITE sequence N description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 84) chain B residue 677 type SITE sequence R description Interaction with DNA source Swiss-Prot : SWS_FT_FI4 85) chain A residue 773 type SITE sequence Y description Interaction with DNA => ECO:0000255|PROSITE-ProRule:PRU00995 source Swiss-Prot : SWS_FT_FI5 86) chain B residue 773 type SITE sequence Y description Interaction with DNA => ECO:0000255|PROSITE-ProRule:PRU00995 source Swiss-Prot : SWS_FT_FI5 87) chain A residue 820 type SITE sequence R description Transition state stabilizer source Swiss-Prot : SWS_FT_FI6 88) chain B residue 820 type SITE sequence R description Transition state stabilizer source Swiss-Prot : SWS_FT_FI6 89) 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 90) 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 91) 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 92) 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 93) 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 94) 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 95) 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 96) 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 97) 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 98) 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 99) 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 100) 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

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