triangle PDBeMotif: 4tur  
  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   2.7.7.7   4.2.99.
Classification transferase,lyase/dna    | release date: Tue, Jun 24, 2014
Title human dna polymerase beta inserting dcmpnpp opposite the 5'g cisplatin crosslinked gs (pt-gg2)
Authors M.C.KOAG, S.LEE
Method X-RAY DIFFRACTION (resolution: 2.17Å)
PDBe Citation   
Small molecules:    search MG MG binding statistics MG   search 0KX 0KX binding statistics 0KX   search CPT CPT binding statistics CPT   search NA NA binding statistics NA
Ligand bond colours:   *  covalent   *  ionic   *  hydrogen   *  electrostatic   *  van-der-waals   *  plane-atom   *  plane-plane   *  undefined  - Click here to show 5Å bonds
Chain A sequence:
PQETLNGGITDMLTELANFEKNVSQAIHKYNAYRKAASVIAKYPHKIKSGAEAKKLPGVGTKIAEKIDEFLATGKLRKLE
KIRQDDTSSSINFLTRVSGIGPSAARKFVDEGIKTLEDLRKNEDKLNHHQRIGLKYFGDFEKRIPREEMLQMQDIVLNEV
KKVDSEYIATVCGSFRRGAESSGDMDVLLTHPSFTSESTKQPKLLHQVVEQLQKVHFITDTLSKGETKFMGVCQLPSKND
EKEYPHRRIDIRLIPKDQYYCGVLYFTGSDIFNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSEKDIFDYIQWK
YREPKDRSE
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 POLYMERASE BETA
member of: GENE3D:searchG3DSA_1.10.150.20/searchG3DSA_1.10.8.310/searchG3DSA_3.30.210.10/searchG3DSA_3.30.460.10PANTHER:searchPTHR11276PFAM:searchPF10391/searchPF14716/searchPF14791/searchPF14792PRINTS:searchDNAPOLX/searchDNAPOLXBETAPROSITE PATTERNS:searchPS00522, SMART:searchSM00278/searchSM00483SUPERFAMILY:searchSSF47802/searchSSF81301/searchSSF81585UniProt:searchP06746
JMol viewer RasMol script viewer  CPT 101T  ..                                                                                                                                                                                                      ..CPT ..                                                                                                                                 
JMol viewer RasMol script viewer  0KX 405A  ..                                                                                                                                                                            **  *    *** *            ..0KX ..                                                                ** ***  *                                                        
JMol viewer RasMol script viewer  NA 404A  ..                                                     * *  *                                                                                                                 ||  |    ||| |            ..NA ..                                                                || |||  |                                                        
JMol viewer RasMol script viewer  NA 403A  ..                                                     | |  |                                   * *  *                                                                        ||  |    ||| |            ..NA ..                                                                || |||  |                                                        
JMol viewer RasMol script viewer  MG 402A  ..                                                     | |  |                                   | |  |                                                                        ||  |    ||* *            ..MG ..                                                                || |||  |                                                        
JMol viewer RasMol script viewer  MG 401A  ..                                                     | |  |                                   | |  |                                                                        ||  |    ||* |            ..MG ..                                                                || |||  |                                                        
sec str:  .......hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh......hhhhhhh....hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhh..eehhhhhhhhhhhhhhhhhhh...eeeehhhhhh...ee..eeeeee........... ...hhhhhhhhhhhhhh..eeeeeee...eeeeee.............eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eee....eee..............hhhhhhhhh.....hhhhh..
sequence :  ..PQETLNGGITDMLTELANFEKNVSQAIHKYNAYRKAASVIAKYPHKIKSGAEAKKLPGVGTKIAEKIDEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAARKFVDEGIKTLEDLRKNEDKLNHHQRIGLKYFGDFEKRIPREEMLQMQDIVLNEVKKVDSEYIATVCGSFRRGAESSGDMDVLLTHPSFTSES... ..QPKLLHQVVEQLQKVHFITDTLSKGETKFMGVCQLPSKNDEKEYPHRRIDIRLIPKDQYYCGVLYFTGSDIFNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSEKDIFDYIQWKYREPKDRSE
seq num:  ..7         17        27        37        47        57        67        77        87        97        107       117       127       137       147       157       167       177       187       197     ... ..207       217       227       237       247       257       267       277       287       297       307       317       327      
search RasMol script viewer Motif-ligand binding stats  ASN_GLYCOSYLATION ..                     ^***|             |  |     |  ||  |  ||    |   |   | |      |  ||  ||   |  | ||   |      | | |  ||  ||  ||   |       |  |                  |  | ||     ||||||| | || |    || |   |..PS00001..            | ||||   || || |        |||||  |          |  |    |   | ||  |   |  || |||| || | |  | |||        | ||    | |   |  |   
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  DNA_POLYMERASE_X ..                       | |             |  |     |   |  |  |         |   | |      |  ||  ||   |  |  |          | | |   |  ||  ||   |       |  |                     | ||     ****^******^*^****** |    ..PS00522..            | ||||   || |  |          | |             |  |    |   | |   |   |  || |||  |  |    | |||                | |   |  |   
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  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  schellmannloop ..                                                |   |               |   | |         ||  ||                        |   |                                                      ******                   ..schellmannloop..                                                              |   | |   |      ******                                            
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..                                                                                                                                 

chain T : DNA (5'-D(*CP*CP*CP*AP*CP*GP*GP*CP*CP*CP*AP*TP*CP3');
JMol viewer RasMol script viewer  CPT 101T  ..     **         
JMol viewer RasMol script viewer  0KX 405A  ..     **         
sec str:  ..................
sequence :  ..CCCACGGCCCATCACC
seq num:  ..1         11    

chain P : DNA (5'-D(*GP*GP*TP*GP*AP*TP*GP*GP*GP*C)-3')
JMol viewer RasMol script viewer  0KX 405A  ..         *
JMol viewer RasMol script viewer  NA 403A  ..        *|
JMol viewer RasMol script viewer  MG 402A  ..        |*
sec str:  ............
sequence :  ..GGTGATGGGC
seq num:  ..1         

chain D : DNA (5'-D(P*GP*TP*GP*GP*G)-3')
JMol viewer RasMol script viewer  NA 404A  ..  *  
sec str:  .......
sequence :  ..GTGGG
seq num:  ..1    

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