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4G0U

Human topoisomerase IIbeta in complex with DNA and amsacrine

Functional Information from GO Data
ChainGOidnamespacecontents
A0003677molecular_functionDNA binding
A0003918molecular_functionDNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity
A0005524molecular_functionATP binding
A0006259biological_processDNA metabolic process
A0006265biological_processDNA topological change
B0003677molecular_functionDNA binding
B0003918molecular_functionDNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity
B0005524molecular_functionATP binding
B0006259biological_processDNA metabolic process
B0006265biological_processDNA topological change
Functional Information from PDB Data
site_id1
Number of Residues
Details
ChainResidue

site_idAC1
Number of Residues6
DetailsBINDING SITE FOR RESIDUE MG A 1301
ChainResidue
AASP557
AASP559
AHOH1401
AHOH1485
AHOH1549
CHOH102

site_idAC2
Number of Residues5
DetailsBINDING SITE FOR RESIDUE MG A 1302
ChainResidue
AHOH1560
CHOH114
AASN795
AASN867
AHOH1559

site_idAC3
Number of Residues11
DetailsBINDING SITE FOR RESIDUE ASW B 1301
ChainResidue
BPRO455
BARG503
BGLY504
BLYS505
BALA521
BGLU522
BGLN778
DDA12
DDG13
EDC8
FDT9

site_idAC4
Number of Residues6
DetailsBINDING SITE FOR RESIDUE MG B 1302
ChainResidue
BASP557
BASP559
BHOH1412
BHOH1508
BHOH1554
EHOH107

site_idAC5
Number of Residues5
DetailsBINDING SITE FOR RESIDUE MG B 1303
ChainResidue
BASN795
BHOH1568
BHOH1569
EHOH116
EHOH117

site_idAC6
Number of Residues7
DetailsBINDING SITE FOR RESIDUE MG D 101
ChainResidue
DDG17
DHOH219
DHOH220
DHOH221
DHOH222
EHOH113
EHOH114

site_idAC7
Number of Residues11
DetailsBINDING SITE FOR RESIDUE ASW F 101
ChainResidue
APRO455
AARG503
AGLY504
ALYS505
AALA521
AGLU522
CDC8
DDT9
FDA12
FDG13
FHOH208

site_idAC8
Number of Residues6
DetailsBINDING SITE FOR RESIDUE MG F 102
ChainResidue
CHOH113
FHOH213
FHOH214
FHOH215
FHOH216
FHOH217

Functional Information from PROSITE/UniProt
site_idPS00177
Number of Residues9
DetailsTOPOISOMERASE_II DNA topoisomerase II signature. LTEGDSAKS
ChainResidueDetails
ALEU475-SER483

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues2
DetailsACT_SITE: O-(5'-phospho-DNA)-tyrosine intermediate => ECO:0000255|PROSITE-ProRule:PRU01384, ECO:0000269|PubMed:21778401
ChainResidueDetails
ATYR821
BTYR821

site_idSWS_FT_FI2
Number of Residues2
DetailsBINDING: BINDING => ECO:0000255|PROSITE-ProRule:PRU00995
ChainResidueDetails
AGLU477
BGLU477

site_idSWS_FT_FI3
Number of Residues4
DetailsBINDING: BINDING => ECO:0000255|PROSITE-ProRule:PRU00995, ECO:0000269|PubMed:21778401
ChainResidueDetails
AASP557
AASP559
BASP557
BASP559

site_idSWS_FT_FI4
Number of Residues12
DetailsSITE: Interaction with DNA
ChainResidueDetails
ALYS505
BLYS678
BLYS739
BTRP947
AASN508
AARG677
ALYS678
ALYS739
ATRP947
BLYS505
BASN508
BARG677

site_idSWS_FT_FI5
Number of Residues2
DetailsSITE: Interaction with DNA => ECO:0000255|PROSITE-ProRule:PRU00995
ChainResidueDetails
ATYR773
BTYR773

site_idSWS_FT_FI6
Number of Residues2
DetailsSITE: Transition state stabilizer
ChainResidueDetails
AARG820
BARG820

site_idSWS_FT_FI7
Number of Residues2
DetailsSITE: Important for DNA bending; intercalates between base pairs of target DNA
ChainResidueDetails
AILE872
BILE872

site_idSWS_FT_FI8
Number of Residues14
DetailsCROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) => ECO:0007744|PubMed:28112733
ChainResidueDetails
ALYS595
BLYS630
BLYS641
BLYS671
BLYS707
BLYS1087
ALYS630
ALYS641
ALYS671
ALYS707
ALYS1087
BLYS595

site_idSWS_FT_FI9
Number of Residues4
DetailsCROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) => ECO:0007744|PubMed:25772364, ECO:0007744|PubMed:28112733
ChainResidueDetails
ALYS600
ALYS638
BLYS600
BLYS638

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PDB entries from 2024-10-30

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