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(-) Description

Title :  HUMAN TOPOISOMERASE II ALPHA BOUND TO DNA
 
Authors :  T. J. Wendorff, B. H. Schmidt, P. Heslop, C. A. Austin, J. M. Berger
Date :  15 Jun 12  (Deposition) - 08 Aug 12  (Release) - 12 Dec 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.90
Chains :  Asym. Unit :  A,C,D
Biol. Unit 1:  A,C,D  (2x)
Keywords :  Topoisomerase, Dna-Binding, Protein-Dna Complex, Isomerase-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. J. Wendorff, B. H. Schmidt, P. Heslop, C. A. Austin, J. M. Berger
The Structure Of Dna-Bound Human Topoisomerase Ii Alpha: Conformational Mechanisms For Coordinating Inter-Subunit Interactions With Dna Cleavage.
J. Mol. Biol. V. 424 109 2012
PubMed-ID: 22841979  |  Reference-DOI: 10.1016/J.JMB.2012.07.014

(-) Compounds

Molecule 1 - DNA TOPOISOMERASE 2-ALPHA
    Chains: A
    EC Number: 5.99.1.3
    Engineered: YES
    Expression System: SACCHAROMYCES CEREVISIAE
    Expression System Plasmid: PGAL
    Expression System Strain: BCY123
    Expression System Taxid: 4932
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 431-1193
    Gene: TOP2, TOP2A
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: DNA TOPOISOMERASE II, ALPHA ISOZYME
 
Molecule 2 - DNA (5'-D(P*GP*AP*GP*GP*AP*TP*GP*AP*CP*GP*AP*TP*G)-3')
    Chains: C
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES
 
Molecule 3 - DNA (5'- D(*CP*GP*CP*GP*CP*AP*TP*CP*GP*TP*CP*AP*TP*CP*CP*TP*C)-3')
    Chains: D
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ACD
Biological Unit 1 (2x): ACD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2MG2Ligand/IonMAGNESIUM ION
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL
2MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:541 , ASP A:543 , LYS A:614 , TYR A:805 , HOH A:1301 , HOH A:1327 , HOH C:202BINDING SITE FOR RESIDUE MG A 1201
2AC2SOFTWARESER A:547 , SER A:591 , LEU A:592 , GLU A:702BINDING SITE FOR RESIDUE GOL A 1202

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4FM9)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4FM9)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4FM9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4FM9)

(-) Exons   (0, 0)

(no "Exon" information available for 4FM9)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:727
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..................hhhh.eeeeeehhhhhhhhhhhhhhhh...eeeeee..........hhhhhhhhhhhhhhhhhhh........hhhhhhhh...eeeee...hhhhhhhhhhhhhhhhhhhhhhhhh..eeee....eeee....eeee.hhhhhhhhhhhh......eeee..hhhhhhhhhhhhhhhhhhhheeeee...hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh............eeehhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhh.....eehhhhhhhhhhhh.....hhhhhhhhhhhhh.................................ee..hhhhhhhh..hhhhh....hhhhh..................eeee....eeee...hhhhhhhhhhhhhhh...............eeeeee..eeeee..ee......eee.......hhhhhhhhhhhhhhh..........eeee........eeee.hhhhhhhhhhhhhhhhh..eeeee....eee.....eee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhh...hhhhhhhh.hhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4fm9 A  433 NRIKGIPKLDDANDAGGRNSTECTLILTEGDSAKTLAVSGLGVVGRDKYGVFPLRGKILNVREASHKQIMENAEINNIIKIVGLQYKKNYEDEDSLKTLRYGKIMIMTDQDQDGSHIKGLLINFIHHNWPSLLRHRFLEEFITPIVKVSKNKQEMAFYSLPEFEEWKSSTPNHKKWKVKYYKGLGTSTSKEAKEYFADMKRHRIQFKYSGPEDDAAISLAFSKKQIDDRKEWLTNFMEDRRQRKLLGLPEDYLYGQTTTYLTYNDFINKELILFSNSDNERSIPSMVDGLKPGQRKVLFTCFKRNDKREVKVAQLAGSVAEMSSYHHGEMSLMMTIINLAQNFVGSNNLNLLQPIGQFGTRLHGGKDSASPRYIFTMLSSLARLLFPPKDDHTLKFLYDDNQRVEPEWYIPIIPMVLINGAEGIGTGWSCKIPNFDVREIVNNIRRLMDGEEPLPMLPSYKNFKGTIEELAPNQYVISGEVAILNSTTIEISELPVRTWTQTYKEQVLEPMLNGTEKTPPLITDYREYHTDTTVKFVVKMTEEKLAEAERVGLHKVFKLQTSLTCNSMVLFDHVGCLKKYDTVLDILRDFFELRLKYYGLRKEWLLGMLGAESAKLNNQARFILEKIDGKIIIENKPKKELIKVLIQRGYDSDPVKAWKETFNYLLDMPLWYLTKEKKDELCRLRNEKEQELDTLKRKSPSDLWKEDLATFIEELEAVEAKEKQDEQ 1190
                                   442       452       462       472       482       492       502       512       522       532       542       552       562       572       582       592       602       612       622       632       642       652       662       672       682       692       702       712       722       732       742       752       762       772       782       792       802       812       822       832       842       852       862       872       882       892       902       912       922       932       942       952       962       972       982       992      1002      1012      1022      1032      1042      1052      1062      1072      1082      1092|     1133      1143      1153      1163      1173      1183       
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            1092|                                                                  
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             1124                                                                  


Chain C from PDB  Type:DNA  Length:13
                                              
                4fm9 C    1 GAGGATGACGATG   13
                                    10   


Chain D from PDB  Type:DNA  Length:17
                                                  
                4fm9 D    1 CGCGCATCGTCATCCTC   17
                                    10
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4FM9)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4FM9)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4FM9)

(-) Gene Ontology  (52, 52)

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  5.99.1.3
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        TOP2A_HUMAN | P11388: 1lwz 1zxm 1zxn 4r1f

(-) Related Entries Specified in the PDB File

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