triangle PDBeMotif: 8icp  
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Classification transferase/dna    | release date: Fri, Dec 15, 1995
Title dna polymerase beta (pol b) (e.c.2.7.7.7) complexed with seven base pairs of dna; soaked in the presence of datp (1 millimolar) and mncl2 (5 millimolar)
Authors H.PELLETIER, M.R.SAWAYA
Method X-RAY DIFFRACTION (resolution: 2.90Å)
PDBe Citation   
Small molecules:    search MN MN binding statistics MN   search NA NA binding statistics NA   search DTP DTP binding statistics DTP
Ligand bond colours:   *  covalent   *  ionic   *  hydrogen   *  electrostatic   *  van-der-waals   *  plane-atom   *  plane-plane   *  undefined  - Click here to show 5Å bonds
Chain A sequence:
MSKRKAPQETLNGGITDMLTELANFEKNVSQAIHKYNAYRKAASVIAKYPHKIKSGAEAKKLPGVGTKIAEKIDEFLATG
KLRKLEKIRQDDTSSSINFLTRVSGIGPSAARKFVDEGIKTLEDLRKNEDKLNHHQRIGLKYFGDFEKRIPREEMLQMQD
IVLNEVKKVDSEYIATVCGSFRRGAESSGDMDVLLTHPSFTSESTKQPKLLHQVVEQLQKVHFITDTLSKGETKFMGVCQ
LPSKNDEKEYPHRRIDIRLIPKDQYYCGVLYFTGSDIFNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSEKDIF
DYIQWKYREPKDRSE
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 : PROTEIN (DNA POLYMERASE BETA (E.C.2.7.7.7))
member of: CATH:search1.10.150.110/search1.10.150.20/search3.30.210.10/search3.30.460.10GENE3D: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  DTP 338A  ..                                                                                                                                            *                             **  *    ***                                                                                                                                                 
JMol viewer RasMol script viewer  NA 342A  ..                                                                                                                                            |                             ||  |    |||                                                                                                                                                 
JMol viewer RasMol script viewer  NA 341A  ..                                                                                            * *  *                                          |                             ||  |    |||                                                                                                                                                 
JMol viewer RasMol script viewer  MN 339A  ..                                                                                            | |  |                                          |                             ||  |    |||                                                                                                                                                 
sec str:  ......hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh......hhhhhhh.....hhhhhhhhhhhhh...hhhhhhhh.hhhhhhhhhhh.....hhhhhhhhhhh...hhhhhhhhhh..hhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh....eeeeehhhhhh......eeeeee...........hhhhhhhhhhhhh...eeee......eeeeee.............eeeeee...hhhhhhhhhhhh..hhhhhhhhhhhhh..eeee..eeee...............hhhhhhhh......hhh...
sequence :  ..ETLNGGITDMLTELANFEKNVSQAIHKYNAYRKAASVIAKYPHKIKSGAEAKKLPGVGTKIAEKIDEFLATGKLRKLEKIRQDDTSSSINFLTRVSGIGPSAARKFVDEGIKTLEDLRKNEDKLNHHQRIGLKYFGDFEKRIPREEMLQMQDIVLNEVKKVDSEYIATVCGSFRRGAESSGDMDVLLTHPSFTSESTKQPKLLHQVVEQLQKVHFITDTLSKGETKFMGVCQLPSKNDEKEYPHRRIDIRLIPKDQYYCGVLYFTGSDIFNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSEKDIFDYIQWKYREPKDRSE
seq num:  ..9         19        29        39        49        59        69        79        89        99        109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329    
search RasMol script viewer Motif-ligand binding stats  ASN_GLYCOSYLATION ..   |   |      |  ||^*** ||  ||      || ||     |  ||  |  ||  | |||     | | |  ||   ||  ||  || || ||   |   || ||| |  ||   |  |  |  ||     |  |  || |||        | |||| ||     || |||| | || |    || |   | |          |  |||||   ||  |          || |   |          |  |      | |||||           | || || | |               | || || | |    |  |  
search RasMol script viewer Motif-ligand binding stats  PKC_PHOSPHO_SITE ..   |   |      |  ||  || ||  ||      || ||     |  ||  |  ||  | |||     ^** |  ||   ||  ||  || || ||   |   || ||| |  ||   |  |  |  ||     |  |  || |||        | |||| ||     |^**||| | || |    || |   ^**          |  |||||   ||  |          || |   |          |  |      | |||||           | || || ^**               ^**| || | |    |  |  
search RasMol script viewer Motif-ligand binding stats  CK2_PHOSPHO_SITE ..   |   |      |  ||  || ||  ||      || ||     ^***|  |  ||  | |||     | | |  ||   ||  ||  || || ||   |   || ||| ^***|   |  |  |  ||     |  |  || |||        | |||| ||     |   ||| ^*** |    || |                |  |||||   |^***          ^***   |          |  |      | ^***|           | |^*** |                 ^*** || | |    |  |  
search RasMol script viewer Motif-ligand binding stats  TYR_PHOSPHO_SITE ..   |   |      |  ||  || ||  ||      || ||         |  |  ||  | |||     | | |  ||   ||  ||  || || ||   |   || ||| |  ||   |  |  |  ||     |  |  || |||        | ******^     |   |||   || |    || |                |  |||||   ||              ******^          |  |      |  || |           | |  |  |                   |  || | |    |  |  
search RasMol script viewer Motif-ligand binding stats  MYRISTYL ..   |   |      |  ||  || ||  ||      || ||         |  |  |^*****||     | | |  ||   ||  ||  || || ^*****   || ||| |  ||   |  |  |  ||     |  |  || |||        |  ||| ||     |   |^*****| |    || |                |  |||||   ||                               |  |      |  || |           | |  |  |                   |  || | |    |  |  
search RasMol script viewer Motif-ligand binding stats  DNA_POLYMERASE_X ..   |   |      |  ||  || ||  ||      || ||         |  |  |   |  ||     | | |  ||   ||  ||  || ||  |       || ||| |  ||   |  |  |  ||     |  |  || |||        |  ||| ||     ****^******^*^****** |                |  |||||   ||                               |  |      |  || |           | |  |  |                   |  || | |    |  |  
search RasMol script viewer Motif-ligand binding stats  alphabetamotif ..   |   |      *****  || |*****      *****         |  |  |   *****     | | *****   |*****  || ||  |       || ||| *****   |  |  *****     |  |  ******        *****| ||         | |           |  |                *****|||   ||                               |  |      |  || |           | |  |  |                   ***** | |    |  |  
search RasMol script viewer Motif-ligand binding stats  asxturn ..   |   |      |  |   || ||  |       || ||         |  |  |   |  |      | | |  |    ||  |   || ||  |       || ||| |  ||   |  |  |  |      |  |  || ||         |  | ***|         | |           |  |                |  |||||   ||                               |  |      |  || |           | |  |  |                   |  |  | |    |  |  
search RasMol script viewer Motif-ligand binding stats  betabulge ..   |   |      |  |   || ||  |       || ||         |  |  |   |  |      | | |  |    ||  |   || ||  |       || ||| |  ||   |  |  |  |      |  |  || ||         |  | |  |         | |           |  |                |  |||||   **                               |  |      |  || |           | |  |  |                   |  |  | |    |  |  
search RasMol script viewer Motif-ligand binding stats  betaturn ..   |   |      ****   || |****       ****|         ****  |   ****      | | ****    |****   *****  |       |****| ****|   |  |  ****      |  |  *****         **** |  |         | |           |  |                ****||||                                    ****      ****| |           | |  |  |                   ****  | |    ****  
search RasMol script viewer Motif-ligand binding stats  gammaturn ..   |   |         |   |***            |  |         |  |  |             ***         |   |    |  |  |       |  | | |   |   |  |            |  |                     |  |         | |           |  |                    ||||                                                  | |           | |  |  |                         | |          
search RasMol script viewer Motif-ligand binding stats  nest ..   |   |         |   |               |  |         |  |  |                         |   |    |  |  |       |  *** |   |   |  |            |  |                     |  |         ***           |  |                    ****                                                  | |           ***  |  |                         ***          
search RasMol script viewer Motif-ligand binding stats  niche ..   |   |         |   |               ****         *******                         |   |    *******       |    ***   |   ****            ****                     ****                       ****                     ***                                                  | |                ****                                      
search RasMol script viewer Motif-ligand binding stats  schellmannloop ..   |   |         |   |                                                            |   |                  ****** |   |                                                                                                                                                     | |                                                          
search RasMol script viewer Motif-ligand binding stats  stmotif ..   |   |         |   |                                                            |   |                         *****                                                                                                                                                     | |                                                          
search RasMol script viewer Motif-ligand binding stats  ststaple ..   *****         *****                                                            *****                                                                                                                                                                                   | |                                                          
search RasMol script viewer Motif-ligand binding stats  stturn ..                                                                                                                                                                                                                                                                          ***                                                          

chain T : DNA (5'-D(*CP*AP*TP*TP*AP*GP*AP*A)-3')
sec str:  ..........
sequence :  ..CATTAGAA
seq num:  ..1       

chain P : DNA (5'-D(*TP*CP*TP*AP*AP*TP*GP*A)-3')
JMol viewer RasMol script viewer  DTP 338A  ..        
JMol viewer RasMol script viewer  NA 341A  ..     *  
JMol viewer RasMol script viewer  MN 339A  ..     |  
sec str:  ..........
sequence :  ..TCTAATGA
seq num:  ..1       

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