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(-) Description

Title :  CRYSTAL STRUCTURE OF BACTEROIDES PIF1 BOUND TO SSDNA
 
Authors :  X. Zhou, W. Ren, S. R. Bharath, H. Song
Date :  22 Dec 15  (Deposition) - 30 Mar 16  (Release) - 30 Mar 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.90
Chains :  Asym./Biol. Unit :  A,C
Keywords :  Pif1 Helicase, Dna Helicase, Hydrolase-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  X. Zhou, W. Ren, S. R. Bharath, X. Tang, Y. He, C. Chen, Z. Liu, D. Li, H. Song
Structural And Functional Insights Into The Unwinding Mechanism Of Bacteroides Sp Pif1
Cell Rep V. 14 2030 2016
PubMed-ID: 26904952  |  Reference-DOI: 10.1016/J.CELREP.2016.02.008

(-) Compounds

Molecule 1 - UNCHARACTERIZED PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: HMPREF0101_01022
    Organism Scientific: BACTEROIDES SP. 2_1_16
    Organism Taxid: 469587
    Synonym: PIF1
 
Molecule 2 - DNA (5'-D(P*TP*TP*TP*TP*TP*TP*TP*TP*TP*T)-3')
    Chains: C
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 3)

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
2ALF1Ligand/IonTETRAFLUOROALUMINATE ION
3MG1Ligand/IonMAGNESIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREILE A:5 , ALA A:30 , GLY A:31 , GLY A:33 , LYS A:34 , THR A:35 , THR A:36 , PHE A:187 , ARG A:188 , THR A:367 , ARG A:392 , MG A:502 , ALF A:503binding site for residue ADP A 501
2AC2SOFTWARETHR A:35 , ASP A:105 , GLU A:106 , ADP A:501 , ALF A:503binding site for residue MG A 502
3AC3SOFTWAREALA A:30 , GLY A:31 , LYS A:34 , THR A:35 , GLU A:106 , GLN A:145 , ARG A:188 , GLY A:365 , ARG A:390 , ADP A:501 , MG A:502binding site for residue ALF A 503

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5FHE)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Ser A:224 -Ser A:225

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5FHE)

(-) 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:426
                                                                                                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....hhhhhhhhh.....eeeeee....hhhhhhhhhhhh....eeeee.hhhhhhhhh.eehhhhhh................hhhhhhhhhhh.eeee.hhhhhhhhhhhhhhhhhhhhh...hhhhh.eeeee...........hhhhhhhhh.....hhhhhhhhhh.eeeeeee.......hhhhhhhhhhhhh.....hhhhhhhh............eeee.hhhhhhhhhhhh......eeee.ee.............eeee....eeee.............eeeeeee....eeeee....eeee..eeeeeeeeee....eeeeeeeeeee..eee..eee...........eeee.......hhhhhhhhh......eee....hhhhh..hhhhhhhhhhhhhh..eee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5fhe A   3 DMILTEEMQKIMNLIQENNVFVTGKAGSGKTTFLKYLIEKSGKNCIVAAPTGIAAINAGGVTLHSLFGIPFGPITPYDRLENKFSEYKVELLLKMELLIIDEISMVRPDILDTIDRKLRWVYESDEPFGGVQVVMFGDLFQLPPVTKKQEREILSDFYDGFFFFNALVFKRTGFHIVELTKIFRQTEPEFINVLNNIRNYQVTSDELDLLSELKDRKISSSNEYIHICTHKADVEKINADKLGEQEIRNYDIVIKDKFPESSIPCDLHLKLRVGARVMSLVNDSLKGYYNGMLGIVTALEDNVITVRMDNGRTIKFERYTWSNTQYTLKDNEIVKEEIGSCTQFPLTLAWAITIHKSQGLTFDKIIIHVSHTFCPGQLYVALSRCRTLEGIVSDAFITKQMIIPEYALIDFERAYKSEGNYYGKRL 432
                                    12     || 24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224||     236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426      
                                          18|                                                                                                                                                                                                         225|                                                                                                                                                                                                            
                                           21                                                                                                                                                                                                          228                                                                                                                                                                                                            


Chain C from PDB  Type:DNA  Length:6
                                      
                 5fhe C   3 TTTTTT   8
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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 5FHE)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Ser A:224 - Ser A:225   [ RasMol ]  
 

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 Related Entries

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UniProtKB/TrEMBL
        D1JM21_9BACE | D1JM21: 5fhd 5fhf 5fhg

(-) Related Entries Specified in the PDB File

5fhd 5fhf 5fhg 5fhh