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(-) Description

Title :  STRUCTURE OF DNA TOPOISOMERASE III-SALMONELLA TYPHIMURIUM
 
Authors :  R. Sagajkar
Date :  02 May 02  (Deposition) - 05 Jun 02  (Release) - 05 Jun 02  (Revision)
Method :  THEORETICAL MODEL
Resolution :  NOT APPLICABLE
Chains :  Theor. Model :  A
Keywords :  Topoisomerase, Dna-Binding, Complete Proteome (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Sagajkar
Structure Of Dna Topoisomerase Iii
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - DNA TOPOISOMERASE III
    Chains: A
    EC Number: 5.99.1.2
    Organism Common: BACTERIA
    Organism Scientific: SALMONELLA TYPHIMURIUM

 Structural Features

(-) Chains, Units

  
Theoretical Model : 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1LMU)

(-) Sites  (0, 0)

(no "Site" information available for 1LMU)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1LMU)

(-) Cis Peptide Bonds  (2, 2)

Theoretical Model
No.Residues
1Leu A:66 -Pro A:67
2Leu A:359 -Pro A:360

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1LMU)

(-) PROSITE Motifs  (2, 2)

Theoretical Model (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TOPRIMPS50880 Toprim domain profile.TOP3_SALTY1-134  1A:1-134
2TOPOISOMERASE_I_PROKPS00396 Prokaryotic DNA topoisomerase I active site.TOP3_SALTY317-332  1A:317-332

(-) Exons   (0, 0)

(no "Exon" information available for 1LMU)

(-) Sequences/Alignments

Theoretical Model
   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:649
 aligned with TOP3_SALTY | P40687 from UniProtKB/Swiss-Prot  Length:649

    Alignment length:649
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640         
           TOP3_SALTY     1 MRLFIAEKPSLGRAIADVLPKPHRKGDGFIECGNGQVVTWCIGHLLEQAQPDAYDSRYARWNLADLPIVPEKWQLQPRPSVTKQLNVIKRFLHQAGEIIHAGDPDREGQLLVDEVLDYLQLPAEKRQQVRRCLINDLNPQAVERAIDRLRANSDFVPLCVSALARARADWLYGINMTRAYTILGRNAGYQGVLSVGRVQTPVLGLVVRRDEEIENFVAKDFFEVKAHIVTPADERFTAIWQPSEACEPYQDEEGRLLHRPLAEHVVNRINGQPALVTSYNDKRESESAPLPFSLSTLQIEAAKRFGLSAQNVLDICQKLYETHKLITYPRSDCRYLPEEHFAGRQAVMNAISVHAPDLLPQPVVNPDTRNRCWDDKKVDAHHAIIPTARSSSVHLTENEAKVYTLIARQYLMQFCPDAVFRKCVIELEIAKGKFVAKARFLAEAGWRTLLGSKERDEENDGTPLPVVAKGDELLCEKGEVVERQTQPPRHFTDATLLSAMTGIARFVQDKDLKKILRATDGLGTEATRAGIIELLFKRSFLTKKGRYIHSTDAGKALIHSLPEMAARPDMTAHWESVLTQISEKQCRYQDFMQPLVGTLYQLIEQAKRTPVKRFRGIVAPGGGDKKKSAPRKRAGKKSPPAAETGRQTE 649
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee.hhhhhhhhhhhh....ee...eeee...eeeee.....eee.hhhhhhhhhhh..............eee...hhhhhhhhhhhhhhh.eeeee...hhhhhhhhhhhhhhh..hhhhhhhhee......hhhhhhhhhhh.ee...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhh....eeeeeeeeee.....eeeeee..hhhhhhhh.......hhhhhhhhhhhhh..eeeeeeeeeeeeee......hhhhhhhhhhhhhh.hhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhhhh........................................hhhhhhhhhhhhhhhhhh....eeeeeeeeeee....eeeeeeeeeeehhhhhhhhhhhhhh..ee..........eeeeeeeeeeeee.......hhhhhhhhhhhhhhhh.hhhhhhhhhhh......hhhhhhhhhhhhh..eeee..eeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh.hhhhh.................................. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE TOPRIM  PDB: A:1-134 UniProt: 1-134                                                                                                   --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TOPOISOMERASE_I_----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1lmu A   1 MRLFIAEKPSLGRAIADVLPKPHRKGDGFIECGNGQVVTWCIGHLLEQAQPDAYDSRYARWNLADLPIVPEKWQLQPRPSVTKQLNVIKRFLHQAGEIIHAGDPDREGQLLVDEVLDYLQLPAEKRQQVRRCLINDLNPQAVERAIDRLRANSDFVPLCVSALARARADWLYGINMTRAYTILGRNAGYQGVLSVGRVQTPVLGLVVRRDEEIENFVAKDFFEVKAHIVTPADERFTAIWQPSEACEPYQDEEGRLLHRPLAEHVVNRINGQPALVTSYNDKRESESAPLPFSLSTLQIEAAKRFGLSAQNVLDICQKLYETHKLITYPRSDCRYLPEEHFAGRQAVMNAISVHAPDLLPQPVVNPDTRNRCWDDKKVDAHHAIIPTARSSSVHLTENEAKVYTLIARQYLMQFCPDAVFRKCVIELEIAKGKFVAKARFLAEAGWRTLLGSKERDEENDGTPLPVVAKGDELLCEKGEVVERQTQPPRHFTDATLLSAMTGIARFVQDKDLKKILRATDGLGTEATRAGIIELLFKRSFLTKKGRYIHSTDAGKALIHSLPEMAARPDMTAHWESVLTQISEKQCRYQDFMQPLVGTLYQLIEQAKRTPVKRFRGIVAPGGGDKKKSAPRKRAGKKSPPAAETGRQTE 649
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  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 1LMU)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1LMU)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1LMU)

(-) Gene Ontology  (7, 7)

Theoretical Model(hide GO term definitions)
Chain A   (TOP3_SALTY | P40687)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0003916    DNA topoisomerase activity    Catalysis of the transient cleavage and passage of individual DNA strands or double helices through one another, resulting a topological transformation in double-stranded DNA.
    GO:0003917    DNA topoisomerase type I activity    Catalysis of a DNA topological transformation by transiently cleaving one DNA strand at a time to allow passage of another strand; changes the linking number by +1 per catalytic cycle.
    GO:0016853    isomerase activity    Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
    GO:0000287    magnesium ion binding    Interacting selectively and non-covalently with magnesium (Mg) ions.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0006265    DNA topological change    The process in which a transformation is induced in the topological structure of a double-stranded DNA helix, resulting in a change in linking number.

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  Cis Peptide Bonds
    Leu A:359 - Pro A:360   [ RasMol ]  
    Leu A:66 - Pro A:67   [ RasMol ]  
 

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