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(-) Description

Title :  SOLUTION STRUCTURE OF YBL071W-A FROM SACCHAROMYCES CEREVISIAE.
 
Authors :  J. A. Lukin, V. Guido, C. H. Arrowsmith, Northeast Structural Genomics Consortium (Nesg)
Date :  18 Feb 05  (Deposition) - 08 Mar 05  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Zinc Finger, Structural Genomics, Psi, Protein Structure Initiative, Northeast Structural Genomics Consortium, Nesg, Ontario Centre For Structural Proteomics, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. A. Lukin, V. Guido, C. H. Arrowsmith
Solution Structure Of Ybl071W-A From Saccharomyces Cerevisiae
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PROTEIN YBL071W-A
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET11
    Expression System Strain: BL21 (DE3) GOLD MAGIC
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: YBL071W-A, KTI11
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 4932

 Structural Features

(-) Chains, Units

  
NMR Structure (20x): 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

NMR Structure (1, 1)
No.NameCountTypeFull Name
1ZN1Ligand/IonZINC ION

(-) Sites  (1, 1)

NMR Structure (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:25 , CYS A:27 , ASP A:29 , CYS A:47 , CYS A:50BINDING SITE FOR RESIDUE ZN A 83

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1YWS)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1YWS)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1YWS)

(-) PROSITE Motifs  (1, 1)

NMR Structure (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ZF_DPHPS51074 Zinc finger DPH-type profile.DPH3_YEAST3-59  1A:3-59

(-) Exons   (1, 1)

NMR Structure (1, 1)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1YBL071W-A1YBL071W-A.1II:89976-90224249DPH3_YEAST1-82821A:1-8282

(-) Sequences/Alignments

NMR Structure
   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:82
 aligned with DPH3_YEAST | Q3E840 from UniProtKB/Swiss-Prot  Length:82

    Alignment length:82
                                    10        20        30        40        50        60        70        80  
            DPH3_YEAST    1 MSTYDEIEIEDMTFEPENQMFTYPCPCGDRFQIYLDDMFEGEKVAVCPSCSLMIDVVFDKEDLAEYYEEAGIHPPEPIAAAA 82
               SCOP domains d1ywsa1 A:1-82 Diphthamide biosynthesis protein 3, DPH3                            SCOP domains
               CATH domains ---------------------------------------------------------------------------------- CATH domains
               Pfam domains ----zf-CSL-1ywsA01 A:5-59                                  ----------------------- Pfam domains
         Sec.struct. author .....eee....eee....eeee.......eeeehhhhhh...eeee....eeeeee.hhhhhhhhhhhhh........... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --ZF_DPH  PDB: A:3-59 UniProt: 3-59                        ----------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: A:1-82 UniProt: 1-82                                                Transcript 1
                  1yws A  1 MSTYDEIEIEDMTFEPENQMFTYPCPCGDRFQIYLDDMFEGEKVAVCPSCSLMIDVVFDKEDLAEYYEEAGIHPPEPIAAAA 82
                                    10        20        30        40        50        60        70        80
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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  (1, 1)

NMR Structure
(-)
Class: Small proteins (3458)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1YWS)

(-) Pfam Domains  (1, 1)

NMR Structure
(-)
Clan: no clan defined [family: zf-CSL] (4)

(-) Gene Ontology  (8, 8)

NMR Structure(hide GO term definitions)
Chain A   (DPH3_YEAST | Q3E840)
molecular function
    GO:0009055    electron carrier activity    Any molecular entity that serves as an electron acceptor and electron donor in an electron transport chain. An electron transport chain is a process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
    GO:0005506    iron ion binding    Interacting selectively and non-covalently with iron (Fe) ions.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    GO:0017183    peptidyl-diphthamide biosynthetic process from peptidyl-histidine    The modification of peptidyl-histidine to 2'-(3-carboxamido-3-(trimethylammonio)propyl)-L-histidine, known as diphthamide, found in translation elongation factor EF-2. The process occurs in eukaryotes and archaea but not eubacteria.
    GO:0002098    tRNA wobble uridine modification    The process in which a uridine in position 34 of a tRNA is post-transcriptionally modified.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

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  1yws
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 Related Entries

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

UniProtKB/Swiss-Prot
        DPH3_YEAST | Q3E840: 1yop 4d4o 4d4p 4x33 5ax2

(-) Related Entries Specified in the PDB File

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