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(-) Description

Title :  CRYSTAL STRUCTURE OF THE HELICASE DOMAIN OF HUMAN DNA POLYMERASE THETA IN COMPLEX WITH AMPPNP
 
Authors :  J. A. Newman, C. D. O. Cooper, H. Aitkenhead, D. M. Pinkas, K. Kupinska, N. Burgess-Brown, F. Von Delft, C. H. Arrowsmith, A. Edwards, C. Boun O. Gileadi
Date :  29 Jan 15  (Deposition) - 25 Feb 15  (Release) - 16 Dec 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.90
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (4x)
Biol. Unit 2:  A  (1x)
Keywords :  Transferase, Polq, Dna Repair (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. A. Newman, C. D. O. Cooper, H. Aitkenhead, O. Gileadi
Structure Of The Helicase Domain Of Dna Polymerase Theta Reveals A Possible Role In The Microhomology-Mediated End- Joining Pathway.
Structure V. 23 2319 2015
PubMed-ID: 26636256  |  Reference-DOI: 10.1016/J.STR.2015.10.014

(-) Compounds

Molecule 1 - DNA POLYMERASE THETA
    Chains: A
    EC Number: 2.7.7.7
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Cell Line: SF9
    Expression System Common: FALL ARMYWORM
    Expression System Taxid: 7108
    Expression System Vector Type: BACULOVIRUS
    Fragment: HELICASE DOMAIN, RESIDUES 67-894
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: DNA POLYMERASE ETA

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (4x): A
Biological Unit 2 (1x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 4)

Asymmetric Unit (4, 4)
No.NameCountTypeFull Name
1ANP1Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2FLC1Ligand/IonCITRATE ANION
3K1Ligand/IonPOTASSIUM ION
4MG1Ligand/IonMAGNESIUM ION
Biological Unit 1 (2, 8)
No.NameCountTypeFull Name
1ANP4Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2FLC4Ligand/IonCITRATE ANION
3K-1Ligand/IonPOTASSIUM ION
4MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
1ANP1Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2FLC1Ligand/IonCITRATE ANION
3K-1Ligand/IonPOTASSIUM ION
4MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREVAL A:89 , LYS A:91 , GLN A:96 , THR A:117 , SER A:118 , ALA A:119 , GLY A:120 , LYS A:121 , THR A:122 , LEU A:123 , MG A:1895BINDING SITE FOR RESIDUE ANP A1892
2AC2SOFTWAREPRO A:410 , TRP A:411 , GLY A:412BINDING SITE FOR RESIDUE FLC A1893
3AC3SOFTWAREPHE A:787 , VAL A:797 , VAL A:799 , SER A:800 , LEU A:802BINDING SITE FOR RESIDUE K A1894
4AC4SOFTWARELYS A:121 , ASP A:216 , ANP A:1892BINDING SITE FOR RESIDUE MG A1895

(-) SS Bonds  (1, 1)

Asymmetric Unit
No.Residues
1A:247 -A:377

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5AGA)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5AGA)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5AGA)

(-) Exons   (0, 0)

(no "Exon" information available for 5AGA)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
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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:785
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhh..hhhhhhhhhh......hhhhhhhhhh........eeee.....hhhhhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhhhhhhhhhhh..eeee........hhhhh.eeeeehhhhhhhhhhhhhh.hhh.eeeeee.hhhhhh.....hhhhhhhhhhhhhhhhhhhhh......eeeeee....hhhhhhhhh..eeee.......eeeeeee..eee.....eeee............hhhhhhhhhhhh...eeee..hhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhh.....hhhhhhhh...eeee....hhhhhhhhhhhhhh....eeeehhhhhh.......eeee...ee..ee.hhhhhhhhhh..........eeeeeee...hhhhhhhhhhh...............hhhhhhhhhhhhhh....hhhhhhhhhhhh......hhhhhhhhhhhhh..eeee....eeeehhhhhhhhhh..hhhhhhhhhhhhhhhh.......hhhhhhhh..........hhhhhhhhhhh.hhhhhhhhhhhh.hhhhhhhhhh...........hhhhhhhhhhhhhhhhhhh...hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh.hhhhhhhhhh...hhhhhhhhhh....hhhhhhh.hhhhhhhhhhh.............................hhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5aga A  67 DKLLLANWGLPKAVLEKYHSFGVKKMFEWQAECLLLGQVLEGKNLVYSAPTSAGKTLVAELLILKRVLEMRKKALFILPFVSVAKEKKYYLQSLFQEVGIKVDGYMGSTSPSRHFSSLDIAVCTIERANGLINRLIEENKMDLLGMVVVDELHMLGDSHRGYLLELLLTKICYITRKSASCQADSNAVQIVGMSATLPNLELVASWLNAELYHTDFRPVPLLESVKVGNSIYDSSMKLVREFEPMLQVKGDEDHVVSLCYETICDNHSVLLFCPSKKWCEKLADIIAREFYNLHHQASECPPVILEQKELLEVMDQLRRLPSGLDSVLQKTVPWGVAFHHAGLTFEERDIIEGAFRQGLIRVLAATSTLSSGVNLPARRVIIRTPIFGGRPLDILTYKQMVGRAGRKGVDTVGESILICKNSEKSKGIALLQGSLKPVRSCLQRGEEVTGSMIRAILEIIVGGVASTSQDMHTYAACTFLAASMGAIEACVMWLLENEFIQSTEEGKVYHPTHLGSATLSSSLSPADTLDIFADLQRAMKGFVLENDLHILYLVTPMFEDWTTIDWYRFFCLWEKLPTSMKRVAELVGVEEGFLARCVKGKVVARTERQHRQMAIHKRFFTSLVLLDLISEVPLREINQKYGCNRGQIQSLQQSAAVYAGMITVFSNRLGWHNMELLLSQFQKRLTFGIQRELCDLVRVSLLNAQRARVLYASGFHTVADLARANIVEVEVILKNAVPFKSARKEAVEERRNMRTIWVTGRKGLTEREAAALIVEEARMILQQDL 891
                                    76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246   ||  261       271       281       291       301       311       321       331       341       351       361      |377       387       397       407       417       427       437       447       457       467       477       487       497       507       517   ||  529       539       549       559   ||  585       595   ||  610       620       630       640       650       660       670       680       690       700       710       720       730       740       750       760       770       780       790       800       810       820       830       840   ||  856       866       876       886     
                                                                                                                                                                                                                 250|                                                                                                             368|                                                                                                                                               521|                                    563|                599|                                                                                                                                                                                                                                            844|                                        
                                                                                                                                                                                                                  256                                                                                                              375                                                                                                                                                524                                     580                 605                                                                                                                                                                                                                                             851
   Legend:   → Mismatch (orange background)
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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 5AGA)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5AGA)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5AGA)

(-) Gene Ontology  (27, 27)

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  5aga
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  DPOLQ_HUMAN | O75417
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  2.7.7.7
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 Related Entries

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UniProtKB/Swiss-Prot
        DPOLQ_HUMAN | O75417: 4x0p 4x0q 5a9f 5a9j

(-) Related Entries Specified in the PDB File

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