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(-) Description

Title :  STRUCTURAL INSIGHTS INTO THE UNIQUE SINGLE-STRANDED DNA BINDING MODE OF DNA PROCESSING PROTEIN A FROM HELICOBACTER PYLORI
 
Authors :  W. Wang
Date :  05 Jul 13  (Deposition) - 01 Jan 14  (Release) - 12 Nov 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Dna Processing A Domain, Rossmann Fold, Ssdna Binding, Complex, Natural Recombination Mediating Protein, Dna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  W. Wang, J. Ding, Y. Zhang, Y. Hu, D. C. Wang
Structural Insights Into The Unique Single-Stranded Dna-Binding Mode Of Helicobacter Pylori Dpra.
Nucleic Acids Res. V. 42 3478 2014
PubMed-ID: 24369431  |  Reference-DOI: 10.1093/NAR/GKT1334

(-) Compounds

Molecule 1 - DNA PROCESSING CHAIN A (DPRA)
    Chains: B, A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET22B
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 5-225
    Gene: HP0333, HP_0333
    Organism Scientific: HELICOBACTER PYLORI
    Organism Taxid: 85962
    Strain: 26695

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 4LJL)

(-) Sites  (0, 0)

(no "Site" information available for 4LJL)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Leu B:93 -Pro B:94
2Tyr B:108 -Pro B:109
3Leu A:93 -Pro A:94
4Tyr A:108 -Pro A:109

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4LJL)

(-) 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:PROTEIN  Length:219
                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eee...hhhhhhh......eeeee.hhhhhh..eeee......hhhhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhh..eeee.........hhhhhhhhhhhhhhheeee..........hhhhhhhhhhhhhh.eeee......hhhhhhhhhhhhh...eee.......hhhhhhhhhh...ee..hhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ljl A   5 MKSHFQYSTLENIPKAFDILKDPPKKLYCVGDTKLLDTPLKVAIIGTRRPTPYSKQHTITLARELAKNGAVIVSGGALGVDIIAQENALPKTIMLSPCSLDFIYPTNNHKVIQEIAQNGLILSEYEKDFMPIKGSFLARNRLVIALSDVVIIPQADLKSGSMSSARLAQKYQKPLFVLPQRLNESDGTNELLEKGQAQGIFNIQNFINTLLKDYHLKEM 223
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214         


Chain B from PDB  Type:PROTEIN  Length:219
                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......ee....hhhhhhh.......eeee.hhhhhh.eeeee......hhhhhhhhhhhhhhhhhh.eeeee....hhhhhhhhhhh..eeee.........hhhhhhhhhhhhhhheeee........hhhhhhhhhhhhhhhh.eeee......hhhhhhhhhhhhh...eee.......hhhhhhhhhh...ee..hhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ljl B   5 MKSHFQYSTLENIPKAFDILKDPPKKLYCVGDTKLLDTPLKVAIIGTRRPTPYSKQHTITLARELAKNGAVIVSGGALGVDIIAQENALPKTIMLSPCSLDFIYPTNNHKVIQEIAQNGLILSEYEKDFMPIKGSFLARNRLVIALSDVVIIPQADLKSGSMSSARLAQKYQKPLFVLPQRLNESDGTNELLEKGQAQGIFNIQNFINTLLKDYHLKEM 223
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → 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 4LJL)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (1, 1)

Asymmetric/Biological Unit(hide GO term definitions)

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  Sites
(no "Sites" information available for 4ljl)
 
  Cis Peptide Bonds
    Leu A:93 - Pro A:94   [ RasMol ]  
    Leu B:93 - Pro B:94   [ RasMol ]  
    Tyr A:108 - Pro A:109   [ RasMol ]  
    Tyr B:108 - Pro B:109   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/TrEMBL
        O25100_HELPY | O25100: 4ljk 4ljr

(-) Related Entries Specified in the PDB File

4ljk 4ljr