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(-) Description

Title :  DEAD-BOX HELICASE MSS116 BOUND TO SSRNA AND UDP-BEF
 
Authors :  A. L. Mallam, D. J. Sidote, A. M. Lambowitz
Date :  09 Jul 14  (Deposition) - 28 Jan 15  (Release) - 04 Mar 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.21
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Dead-Box, Rna Helicase, Hydrolase, Rna Binding Protein-Rna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  A. L. Mallam, D. J. Sidote, A. M. Lambowitz
Molecular Insights Into Rna And Dna Helicase Evolution From The Determinants Of Specificity For A Dead-Box Rna Helicase
Elife V. 3 04630 2014
PubMed-ID: 25497230  |  Reference-DOI: 10.7554/ELIFE.04630

(-) Compounds

Molecule 1 - ATP-DEPENDENT RNA HELICASE MSS116, MITOCHONDRIAL
    ChainsA
    EC Number3.6.4.13
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPMAL-C2T
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentUNP RESIDUES 88-596
    GeneMSS116, YDR194C, YD9346.05C
    Organism CommonBAKER'S YEAST
    Organism ScientificSACCHAROMYCES CEREVISIAE (STRAIN ATCC 204508 / S288C)
    Organism Taxid559292
    StrainATCC 204508 / S288C
 
Molecule 2 - RNA (5'-R(P*AP*AP*AP*AP*AP*AP*A)-3')
    ChainsB
    EngineeredYES
    Organism ScientificSACCHAROMYCES CEREVISIAE
    Organism Taxid4932
    SyntheticYES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
1BEF1Ligand/IonBERYLLIUM TRIFLUORIDE ION
2MG1Ligand/IonMAGNESIUM ION
3UDP1Ligand/IonURIDINE-5'-DIPHOSPHATE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:154 , LYS A:158 , GLU A:268 , GLY A:439 , ARG A:466 , ARG A:469 , UDP A:602 , MG A:603binding site for residue BEF A 601
2AC2SOFTWAREPHE A:126 , GLY A:128 , LEU A:129 , GLN A:133 , GLY A:155 , THR A:156 , GLY A:157 , LYS A:158 , THR A:159 , ARG A:469 , SER A:470 , BEF A:601 , MG A:603binding site for residue UDP A 602
3AC3SOFTWAREASP A:267 , GLU A:268 , BEF A:601 , UDP A:602binding site for residue MG A 603

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4TZ6)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Ser A:88 -Lys A:89

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4TZ6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4TZ6)

(-) Exons   (0, 0)

(no "Exon" information available for 4TZ6)

(-) 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:504
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeee.....hhhhhhhh...hhhhhhhhhh......hhhhhhhhhhhhh...eeeeee......hhhhhhhhhhhhhhh..........eeee..hhhhhhhhhhhhhhhhhhhhhhh...eeee....hhhhhhhhhhhhh..eeeehhhhhhhhhhhhhhhhh....eeeeehhhhhh...hhhhhhhhhhhhhhhh.......eeeeee....hhhhhhh.......eeeeee............eeeeeeee...hhhhhhhhhhhhhhhhhh....eeeee..hhhhhhhhhhhhhhhhh....eeee....hhhhhhhhhhhhhhh..eeeee.hhhh.........eeeee.....hhhhhhhhh........eeeeeeee..hhhhhhhhhhhhh....eeeee..hhhhhhhhhhh...hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhh......eeehhhhhhhhh...hhhhhhheee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4tz6 A  88 SKLIHVPKEEVTLDSLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNIVIAKQEKYEPSEEIKSEVLEAVTEEPEDISDIVISLISSYRSCIKEYRFSERRILPEIASTYGVLLNDPQLKIPVSRRFLDKLGLSRSPIGKAMFEIR 595
                                   101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591    
                                   96|                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
                                   101                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              

Chain B from PDB  Type:RNA  Length:7
                                       
                 4tz6 B  -1 AAAAAAA   5

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  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 4TZ6)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4TZ6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4TZ6)

(-) Gene Ontology  (18, 18)

Asymmetric/Biological Unit(hide GO term definitions)

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    Ser A:88 - Lys A:89   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        MS116_YEAST | P154243i5x 3i5y 3i61 3i62 3sqw 3sqx 4db2 4db4 4tyn 4tyw 4tyy 4tz0

(-) Related Entries Specified in the PDB File

4tyn 4tyw 4tyy 4tz0