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(-) Description

Title :  EXONUCLEASE X IN COMPLEX WITH 3' OVERHANGING DUPLEX DNA
 
Authors :  T. Wang, H. Sun, F. Cheng, L. Bi, T. Jiang
Date :  08 Jul 12  (Deposition) - 03 Jul 13  (Release) - 09 Oct 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Exo, Dnaq Family, Deddh, Exonuclease, Nuclease, Mismatch Repair, Uv Repair, Homologous Recombination, Stabilization Of Tandem Repeat, Hydrolase-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  T. Wang, H. L. Sun, F. Cheng, X. E. Zhang, L. Bi, T. Jiang
Recognition And Processing Of Double-Stranded Dna By Exox, Distributive 3'-5' Exonuclease
Nucleic Acids Res. V. 41 7556 2013
PubMed-ID: 23771145  |  Reference-DOI: 10.1093/NAR/GKT495

(-) Compounds

Molecule 1 - DNA (5'- D(P*GP*TP*CP*AP*TP*TP*GP*TP*GP*GP*AP*TP*CP*CP*GP*AP*G)-3')
    ChainsB
    EngineeredYES
    SyntheticYES
 
Molecule 2 - DNA (5'- D(P*CP*GP*GP*AP*TP*CP*CP*AP*CP*AP*AP*TP*GP*AP*CP*CP*T)-3')
    ChainsA
    EngineeredYES
    SyntheticYES
 
Molecule 3 - EXODEOXYRIBONUCLEASE 10
    ChainsC, D
    EC Number3.1.11.-
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    FragmentUNP RESIDUES 1-167
    GeneEXOX
    Organism ScientificESCHERICHIA COLI
    Organism Taxid83333
    StrainK12
    SynonymEXODEOXYRIBONUCLEASE X, EXO X, EXONUCLEASE X

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 22)

Asymmetric/Biological Unit (2, 22)
No.NameCountTypeFull Name
1MSE18Mod. Amino AcidSELENOMETHIONINE
2NA4Ligand/IonSODIUM ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREDA B:16 , DG B:17 , ASP C:6 , NA C:201 , HOH C:308 , HOH C:376 , HOH C:377BINDING SITE FOR RESIDUE NA B 101
2AC2SOFTWAREDC A:16 , DT A:17 , HOH A:204 , ASP D:6 , HOH D:307 , HOH D:360BINDING SITE FOR RESIDUE NA A 101
3AC3SOFTWAREDG B:17 , NA B:101 , ASP C:6 , GLU C:8 , ASP C:139 , HOH C:378BINDING SITE FOR RESIDUE NA C 201
4AC4SOFTWAREDT A:17 , ASP D:6 , GLU D:8 , ASP D:139BINDING SITE FOR RESIDUE NA D 201

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4FZX)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4FZX)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4FZX)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4FZX)

(-) Exons   (0, 0)

(no "Exon" information available for 4FZX)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   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:DNA  Length:17
                                                 
                 4fzx A   1 CGGATCCACAATGACCT  17
                                    10       

Chain B from PDB  Type:DNA  Length:17
                                                 
                 4fzx B   1 GTCATTGTGGATCCGAG  17
                                    10       

Chain C from PDB  Type:PROTEIN  Length:166
                                                                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee......eeeeeeeeee..eeeeeeeee.......hhhhhhhhh.hhhhhh...hhhhhhhhhh...eeee.hhhhhhhhh.....eeeehhhhhhhhh.....hhhhhhhhh.............hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fzx C   1 mLRIIDTETCGLQGGIVEIASVDVIDGKIVNPmSHLVRPDRPISPQAmAIHRITEAmVADKPWIEDVIPHYYGSEWYVAHNASFDRRVLPEmPGEWICTmKLARRLWPGIKYSNmALYKTRKLNVQTPPGLHHHRALYDCYITAALLIDImNTSGWTAEQmADITG 166
                            |       10        20        30  |     40       |50      | 60        70        80        90 |     100       110    |  120       130       140       150|      160|     
                            1-MSE                          33-MSE         48-MSE   57-MSE                             92-MSE 100-MSE        115-MSE                             151-MSE   161-MSE 

Chain D from PDB  Type:PROTEIN  Length:166
                                                                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee......eeeeeeeeee..eeeeeeeee.......hhhhhhhhh.hhhhhh...hhhhhhhhhh...eeee..hhhhhhhh.....eeeehhhhhhhhh.....hhhhhhhhh.............hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fzx D   1 mLRIIDTETCGLQGGIVEIASVDVIDGKIVNPmSHLVRPDRPISPQAmAIHRITEAmVADKPWIEDVIPHYYGSEWYVAHNASFDRRVLPEmPGEWICTmKLARRLWPGIKYSNmALYKTRKLNVQTPPGLHHHRALYDCYITAALLIDImNTSGWTAEQmADITG 166
                            |       10        20        30  |     40       |50      | 60        70        80        90 |     100       110    |  120       130       140       150|      160|     
                            1-MSE                          33-MSE         48-MSE   57-MSE                             92-MSE 100-MSE        115-MSE                             151-MSE   161-MSE 

   Legend:   → Mismatch (orange background)
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    → 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 4FZX)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4FZX)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4FZX)

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        EXOX_ECOLI | P0AEK04fzy 4fzz

(-) Related Entries Specified in the PDB File

4fzy 4fzz