eF-site ID 5gwi-B
PDB Code 5gwi
Chain B

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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 B:  SKIKGIPKLDDANDAGGKHSLECTLILTEGDSAKSLAVSG
LGVIGRDRYGVFPLRGKILNVREASHKQIMENAEINNIIK
IVGLQYKKSYDDAESLKTLRYGKIMIMTDQDQDGSHIKGL
LINFIHHNWPSLLKHGFLEEFITPAKEAKEYFADMERHRI
LFRYAGPEDDAAITLAFSKKKIDDRKEWLTNFMEDRRQRR
LHGTKHLTYNDFINKELILFSNSDNERSIPSLVDGFKPGQ
RKVLFTCFKRNDKREVKVAQLAGSVAEMSAYHHGEQALMM
TIVNLAQNFVGSNNINLLQPIGQFGTRLHGGKDAASPRYI
FTMLSTLARLLFPAVDDNLLKFLYDDNQRVEPEWYIPIIP
MVLINGAEGIGTGWACKLPNYDAREIVNNVRRMLDGLDPH
PMLPNYKNFKGTIQELGQNQYAVSGEIFVVDRNTVEITEL
PVRTWTQVYKEQVLEPMLNGPALISDYKEYHTDTTVKFVV
KMTEEKLAQAEAAGLHKVFKLQTTLTCNSMVLFDHMGCLK
KYETVQDILKEFFDLRLSYYGLRKEWLVGMLGAESTKLNN
QARFILEKIQGKITIENRSKKDLIQMLVQRGYESDPVKAW
KEAQGPDFNYILNMSLWSLTKEKVEELIKQRDAKGREVND
LKRKSPSDLWKEDLAAFVEELDKVESQERED
Description


Functional site

1) chain B
residue 478
type
sequence G
description binding site for residue N2R B 1301
source : AC5

2) chain B
residue 479
type
sequence D
description binding site for residue N2R B 1301
source : AC5

3) chain B
residue 503
type
sequence R
description binding site for residue N2R B 1301
source : AC5

4) chain B
residue 778
type
sequence Q
description binding site for residue N2R B 1301
source : AC5

5) chain B
residue 782
type
sequence M
description binding site for residue N2R B 1301
source : AC5

6) chain B
residue 557
type
sequence D
description binding site for residue MG B 1303
source : AC6

7) chain B
residue 559
type
sequence D
description binding site for residue MG B 1303
source : AC6

8) chain B
residue 478
type
sequence G
description binding site for residue N2N B 1302
source : AC7

9) chain B
residue 479
type
sequence D
description binding site for residue N2N B 1302
source : AC7

10) chain B
residue 503
type
sequence R
description binding site for residue N2N B 1302
source : AC7

11) chain B
residue 778
type
sequence Q
description binding site for residue N2N B 1302
source : AC7

12) chain B
residue 781
type
sequence M
description binding site for residue N2N B 1302
source : AC7

13) chain B
residue 782
type
sequence M
description binding site for residue N2N B 1302
source : AC7

14) 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

15) chain B
residue 477
type BINDING
sequence E
description BINDING => ECO:0000255|PROSITE-ProRule:PRU00995
source Swiss-Prot : SWS_FT_FI2

16) 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

17) 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

18) chain B
residue 678
type SITE
sequence K
description Interaction with DNA
source Swiss-Prot : SWS_FT_FI4

19) chain B
residue 739
type SITE
sequence K
description Interaction with DNA
source Swiss-Prot : SWS_FT_FI4

20) chain B
residue 947
type SITE
sequence W
description Interaction with DNA
source Swiss-Prot : SWS_FT_FI4

21) chain B
residue 505
type SITE
sequence K
description Interaction with DNA
source Swiss-Prot : SWS_FT_FI4

22) chain B
residue 508
type SITE
sequence N
description Interaction with DNA
source Swiss-Prot : SWS_FT_FI4

23) chain B
residue 677
type SITE
sequence R
description Interaction with DNA
source Swiss-Prot : SWS_FT_FI4

24) chain B
residue 773
type SITE
sequence Y
description Interaction with DNA => ECO:0000255|PROSITE-ProRule:PRU00995
source Swiss-Prot : SWS_FT_FI5

25) chain B
residue 820
type SITE
sequence R
description Transition state stabilizer
source Swiss-Prot : SWS_FT_FI6

26) 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

27) 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

28) 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

29) 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

30) 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

31) 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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