triangle PDBeMotif: 1d6m  
  coner Sequences coner   coner 3D motifs coner   coner Ligand environment coner   coner Ligand bonds coner
   
coner
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coner
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Enzyme   5.99.1.2
Classification isomerase    | release date: Thu, Oct 14, 1999
Title crystal structure of e. coli dna topoisomerase iii
Authors A.MONDRAGON, R.DIGATE
Method X-RAY DIFFRACTION (resolution: 3.00Å)
PDBe Citation   
Ligand bond colours:   *  covalent   *  ionic   *  hydrogen   *  electrostatic   *  van-der-waals   *  plane-atom   *  plane-plane   *  undefined  - Click here to show 5Å bonds
Chain A sequence:
MRLFIAEKPSLARAIADVLPKPHRKGDGFIECGNGQVVTWCIGHLLEQAQPDAYDSRYARWNLADLPIVPEKWQLQPRPS
VTKQLNVIKRFLHEASEIVHAGDPDREGQLLVDEVLDYLQLAPEKRQQVQRCLINDLNPQAVERAIDRLRSNSEFVPLCV
SALARARADWLYGINMTRAYTILGRNAGYQGVLSVGRVQTPVLGLVVRRDEEIENFVAKDFFEVKAHIVTPADERFTAIW
QPSEACEPYQDEEGRLLHRPLAEHVVNRISGQPAIVTSYNDKRESESAPLPFSLSALQIEAAKRFGLSAQNVLDICQKLY
ETHKLITYPRSDCRYLPEEHFAGRHAVMNAISVHAPDLLPQPVVDPDIRNRCWDDKKVDAHHAIIPTARSSAINLTENEA
KVYNLIARQYLMQFCPDAVFRKCVIELDIAKGKFVAKARFLAEAGWRTLLGSKERDEENDGTPLPVVAKGDELLCEKGEV
VERQTQPPRHFTDATLLSAMTGIARFVQDKDLKKILRATDGLGTEATRAGIIELLFKRGFLTKKGRYIHSTDAGKALFHS
LPEMATRPDMTAHWESVLTQISEKQCRYQDFMQPLVGTLYQLIDQAKRTPVRQFRGIVAPGSGGSADKKKAAPRKRSAKK
SPPADEVGSGAIA
Residue colours:  hydrophilic   hydrophobic   intermediate 
Assembly 1     View the assembly/model: ( JMolViewer Download PDB file RasMol script viewer AstexViewer™@MSD-EBI )
Motif search   chain:    Sequence numbers: 
   Using:   φ/ψ    residues code    secondary structures   
 coordinates of:  Cαs Side-chain
 
      View the fragment: rasmol script JMol viewer
chain A : DNA TOPOISOMERASE III
member of: CATH:search1.10.290.10/search1.10.460.10/search2.70.20.10/search3.40.50.140GENE3D:searchG3DSA_1.10.460.10/searchG3DSA_2.70.20.10/searchG3DSA_3.40.50.140HAMAP:searchMF_00953PANTHER:searchPTHR11390/searchPTHR11390_SF19PFAM:searchPF01131/searchPF01751PRINTS:searchPRTPISMRASEIPROSITE PATTERNS:searchPS00396, PROSITE PROFILES:searchPS50880, SMART:searchSM00436/searchSM00437/searchSM00493SUPERFAMILY:searchSSF56712TIGRFAMS:searchTIGR01056UniProt:searchP14294
sec str:  ...eeeee.hhhhhhhhhhh.....ee....eee...eeeee.....eee.hhhhhhhhhhh.hhhhh........eee...hhhhhhhhhhhhhhh.eeeee...hhhhhhhhhhhhhhh..hhhhhh..ee......hhhhhhhhhhh.ee...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh... .........hhhhhhhhhhhhhhhhhh....eeeeeeeeee.....eeeeee..hhhhhhh........hhhhhhhhhhhhh..eeeeeeeeeeeeee......hhhhhhhhhhhhhh.hhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhhhh..................hhhhh.................hhhhhhhhhhhhhhhhhh....eeeeeeeeeeee..eeeeeeeeeeeehhhhhh.hhhhhh...............eeeeeeeeeeeee.......hhhhhhhhhhhhhhhh.hhhhhhhh.........hhhhhhhhhhhhh..eeee..eeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh
sequence :  ..MRLFIAEKPSLARAIADVLPKPHRKGDGFIECGNGQVVTWCIGHLLEQAQPDAYDSRYARWNLADLPIVPEKWQLQPRPSVTKQLNVIKRFLHEASEIVHAGDPDREGQLLVDEVLDYLQLAPEKRQQVQRCLINDLNPQAVERAIDRLRSNSEFVPLCVSALARARADWLYGINMTRAYTILG... ..GVLSVGRVQTPVLGLVVRRDEEIENFVAKDFFEVKAHIVTPADERFTAIWQPSEACEPYQDEEGRLLHRPLAEHVVNRISGQPAIVTSYNDKRESESAPLPFSLSALQIEAAKRFGLSAQNVLDICQKLYETHKLITYPRSDCRYLPEEHFAGRHAVMNAISVHAPDLLPQPVVDPDIRNRCWDDKKVDAHHAIIPTARSSAINLTENEAKVYNLIARQYLMQFCPDAVFRKCVIELDIAKGKFVAKARFLAEAGWRTLLGSKERDEENDGTPLPVVAKGDELLCEKGEVVERQTQPPRHFTDATLLSAMTGIARFVQDKDLKKILRATDGLGTEATRAGIIELLFKRGFLTKKGRYIHSTDAGKALFHSLPEMATRPDMTAHWESVLTQISEKQCRYQDFMQPLVGTLYQLIDQAKRT
seq num:  ..1         11        21        31        41        51        61        71        81        91        101       111       121       131       141       151       161       171       181 ... ..191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601      
search RasMol script viewer Motif-ligand binding stats  ASN_GLYCOSYLATION ..      |||  ||  |  |      |  |     |    |   | |   | || | |  |                               |  |       |  |  ||        | | |  |  |      | |            || ||         |      || ^***  ||  ..PS00001..             |  |     |  |             | |||            |  || |||| |        | || |     |  || ||                   | |         |    ||||  | |||| |    |  |                 |  || || |  ||||||  |     | | |  ^*** |            |  |                          |||| || |     |  |        |  |                      |  ||  | || || | | |  ||  |  |    |         ||||| || |   |   |  | || || || |            |||||       | | |||         
search RasMol script viewer Motif-ligand binding stats  CAMP_PHOSPHO_SITE ..      |||  ||  |  |      |  |     |    |   | |   | || | |  |                               |  |       |  |  ||        | | |  |  |      | |            || ||         |      ||   ||  ||  ..PS00004..             |  |     |  |             | |||            |  || |||| |        | || |     |  |**^*                   | |         |    ||||  | |||| |    |  |                 |  || || |  ||||||  |     | | |    |  |            |  |                          |||| || |     |  |        |  |                      |  ||  | || || | | |  ||  |  |    |         ||||| || |   |   |  | || || || |            |||||       | | |||         
search RasMol script viewer Motif-ligand binding stats  PKC_PHOSPHO_SITE ..      |||  ||  |  |      |  |     |    |   | |   | || | |  |                               |  |       |  |  ||        | | |  |  |      | |            || ||         |      ||   ||  ||  ..PS00005..             |  |     |  |             | |||            |  || |||| |        | || |     |  |                       | |         |    ^**|  | |||| |    |  |                 |  || || |  ||||||  |     ^** |    |  |            |  |                          |||| || |     |  |        |  |                      |  ||  | || || | | |  ||  |  |    |         ||||^**| |   |   |  | || || || |            ^**||       | | |||         
search RasMol script viewer Motif-ligand binding stats  CK2_PHOSPHO_SITE ..      |||  ||  |  |      |  |     |    |   | |   | || | |  |                               |  |       |  |  ||        | | |  |  |      | |            ^***|         |      ||   ||  ||  ..PS00006..             |  |     |  |             ^***|            |  || |||| |        | || |     ^***                       | |         |     | |  | |||| |    |  |                 |  || || |  ||||||  |     | | |    ^***            |  |                          |||| || |     |  |        |  |                      |  ||  | || || | | |  ||  |  |    |         ||||   | |   |   |  | ^***| ^***             ||||       | | |||         
search RasMol script viewer Motif-ligand binding stats  TYR_PHOSPHO_SITE ..      |||  ||  |  |      |  |     |    |   | |   | || | |  |                               |  |       |  |  ||        | | |  |  |      | |             |  |         *******^|   ||  ||  ..PS00007..             |  |     |  |             | | |            |  || |||| |        | || |                                | |         |     | |  | |||| |    |  |                 |  || || |  ||||||  |     | | |                    |  |                          |||| || |     |  |        |  |                      |  ||  | || || | | |  ||  |  |    |         ||||   | |   |   |  |  |  |  |               ||||       | | |||         
search RasMol script viewer Motif-ligand binding stats  MYRISTYL ..      |||  ||  |  |      |  |     ^*****   | |   | || | |  |                               |  |       |  |  ||        | | |  |  |      | |             |  |                 ^*****  ||  ..PS00008..             |  |     |  |             | | |            |  || |||| |        | || |                                | |         |     | |  | |||| |    |  |                 |  || || |  ||||||  |     | | |                    |  |                          |||| || |     |  |        |  |                      |  ||  | || || | | |  ||  |  ^*****         ||||   | |   |   |  |  |  |  |               ||||       | | |||         
search RasMol script viewer Motif-ligand binding stats  TOPOISOMERASE_I_PROK ..      |||  ||  |  |      |  |              | |   | || | |  |                               |  |       |  |  ||        | | |  |  |      | |             |  |                 |   ||  ||  ..PS00396..             |  |     |  |             | | |            |  || |||| |        | || |                                | |         ***********^****| |    |  |                 |  || || |  ||||||  |     | | |                    |  |                          |||| || |     |  |        |  |                      |  ||  | || || | | |  ||  |                 ||||   | |   |   |  |  |  |  |               ||||       | | |||         
search RasMol script viewer Motif-ligand binding stats  alphabetamotif ..      ||*****  |  |      |  |              | |   | || | |  |                               |  |       |  *****        | | |  |  |      | |             |  |                 |   |*****  ..alphabetamotif..             |  |     |  |             | | |            |  || |||| |        | || |                                | |               | |  | || | |    |  |                 |  || || |  ||||||  |     | | |                    |  |                          |||| || |     |  |        |  |                      |  ||  | || || | | |  ||  |                 ||||   | |   |   |  |  |  |  |               ||||       | *****         
search RasMol script viewer Motif-ligand binding stats  asxmotif ..      |||  |   |  |      |  |              | |   | || | |  |                               |  |       |  |  |         | | |  |  |      | |             |  |                 |   ||  |   ..asxmotif..             |  |     |  |             | | |            |  || |||| |        | || |                                | |               | |  | || | |    |  |                 |  || || |  |*****  |     | | |                    |  |                          |||| || |     |  |        |  |                      |  ||  | || || *****  ||  |                 ||||   | |   |   |  |  |  |  |               ||||       | | ||          
search RasMol script viewer Motif-ligand binding stats  asxturn ..      |||  |   |  |      |  |              | |   | || | |  |                               |  |       |  |  |         | | |  |  |      ***             |  |                 |   ||  |   ..asxturn..             |  |     |  |             | | |            |  || |||| |        | || |                                | |               | |  | || | |    |  |                 |  |***| |  |***||  |     | | |                    |  |                          |||| || |     |  |        |  |                      |  ||  | || || *** |  ||  |                 ||||   | |   |   |  |  |  |  |               ||||       | | ||          
search RasMol script viewer Motif-ligand binding stats  betabulge ..      |||  |   |  |      |  |              | |   | || | |  |                               |  |       |  |  |         | | |  |  |      | |             |  |                 |   ||  |   ..betabulge..             |  |     |  |             | | |            |  || |||| |        | || |                                | |               | |  | || | |    |  |                 |  ||  | |  ||| ||  |     | | |                    |  |                          **|| || |     |  |        |  |                      |  ||  | || || |   |  ||  |                 ||||   | |   |   |  |  |  |  |               ||||       | | ||          
search RasMol script viewer Motif-ligand binding stats  betabulgeloop ..      |||  |   |  |      |  |              | |   | || | |  |                               |  |       |  |  |         | | |  |  |      | |             |  |                 |   ||  |   ..betabulgeloop..             |  |     |  |             | | |            |  |*****| |        | || |                                | |               | |  | || | |    |  |                 |  ||  | |  ||| ||  |     | | |                    |  |                            || || |     |  |        |  |                      |  ||  | || || |   |  ||  |                 ||||   | |   |   |  |  |  |  |               ||||       | | ||          
search RasMol script viewer Motif-ligand binding stats  betaturn ..      ||****   ****      |  |              | |   **** | |  |                               |  |       |  ****         | | ****  |      | |             ****                 |   |****   ..betaturn..             ****     |  |             | | |            ********|| |        | ****                                | |               | |  | || | |    ****                 |  ||  | |  |****|  |     | | |                    |  |                            ***** |     |  |        ****                      |  ||  | ****| |   |  ||  |                 ||||   | |   |   |  ****  |  |               ||||       | ****          
search RasMol script viewer Motif-ligand binding stats  nest ..      ||       |  |      |  |              | |     |  | |  |                               |  |       |               ***    |  |      | |                                  |   |       ..nest..                      |  |             | ***            |  |  ***| |        | || |                                ***               ***  | || | |                         |  ||  | |  | |  |  |     | | |                    |  |                               |  |     |  |        |  |                      |  ||  |  |  | |   |  ||  |                 ****   | |   |   |  |  |  |  |               ****       |   |           
search RasMol script viewer Motif-ligand binding stats  niche ..      ||       ****      ****              ***     **** ****                               ****       |                      ****      ***                                  |   |       ..niche..                      ****             | |              ****     ***        ******                                                       | |*****                         ******** **** ****  |     *****                    ****                               ****     ****        ****                      |  ||  |  ******   ********                        ***   |   |  ****  ****                          |   |           
search RasMol script viewer Motif-ligand binding stats  stmotif ..      ||                                                                                              |                                                                     |   |       ..stmotif..                                       | |                                                                                               | |                                                  |                                                                                                                |  ||  |                                                 *****                                      |   |           
search RasMol script viewer Motif-ligand binding stats  ststaple ..      ||                                                                                              |                                                                     *****       ..ststaple..                                       | |                                                                                               | |                                                  |                                                                                                                ********                                                                                            *****           
search RasMol script viewer Motif-ligand binding stats  stturn ..      ||                                                                                              |                                                                                 ..stturn..                                       ***                                                                                               | |                                                  |                                                                                                                                                                                                                                    
search RasMol script viewer Motif-ligand binding stats  Catalytic site ..      **                                                                                              *                                                                                 ..REP00000..                                                                                                                                         * *                                                  *                                                                                                                                                                                                                                    

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