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(-) Description

Title :  CRYSTAL STRUCTURE OF ARABIDOPSIS CNFU INVOLVED IN IRON-SULFUR CLUSTER BIOSYNTHESIS
 
Authors :  T. Yabe, E. Yamashita, M. Nakai
Date :  26 Jun 07  (Deposition) - 15 Jul 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.35
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Cnfu, Iron-Sulfur Cluster Biosynthesis, Nif, Metal Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  T. Yabe, E. Yamashita, A. Kikuchi, K. Morimoto, A. Nakagawa, T. Tsukihara, M. Nakai
Structural Analysis Of Arabidopsis Cnfu Protein: An Iron-Sulfur Cluster Biosynthetic Scaffold In Chloroplasts.
J. Mol. Biol. 2008
PubMed-ID: 18585737  |  Reference-DOI: 10.1016/J.JMB.2008.05.072
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - NIFU-LIKE PROTEIN 2, CHLOROPLAST
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET21D
    Expression System Vector TypePLASMID
    FragmentRESIDUES 1-154
    GeneNIFU2, CNFU2, NFU2
    Organism CommonMOUSE-EAR CRESS
    Organism ScientificARABIDOPSIS THALIANA
    SynonymATCNFU2, ATCNFU-V

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit A
Biological Unit 1 (2x)A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1MG2Ligand/IonMAGNESIUM ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:56 , GLU A:143 , HOH A:215 , HOH A:221 , HOH A:239 , HOH A:291 , HOH A:304BINDING SITE FOR RESIDUE MG A 201
2AC2SOFTWAREASN A:35 , GLU A:69 , HOH A:287 , HOH A:315 , HOH A:381 , HOH A:417 , HOH A:452BINDING SITE FOR RESIDUE MG A 202

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2Z51)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Asp A:116 -Pro A:117

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2Z51)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2Z51)

(-) Exons   (0, 0)

(no "Exon" information available for 2Z51)

(-) Sequences/Alignments

Asymmetric 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    
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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:154
 aligned with NIFU2_ARATH | Q93W20 from UniProtKB/Swiss-Prot  Length:235

    Alignment length:154
                                    91       101       111       121       131       141       151       161       171       181       191       201       211       221       231    
          NIFU2_ARATH    82 EVPLTEENVESVLDEIRPYLMSDGGNVALHEIDGNIVRVKLQGACGSCPSSTMTMKMGIERRLMEKIPEIVAVEALPDEETGLELNEENIEKVLEEIRPYLIGTADGSLDLVEIEDPIVKIRITGPAAGVMTVRVAVTQKLREKIPSIAAVQLI 235
               SCOP domains d2z51a1 A:1-82 automated matches                                                  d2z51a2 A:83-154 automated matches                                       SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -----------------------------------------------------------------------------------------NifU-2z51A01 A:90-154                                             Pfam domains (1)
           Pfam domains (2) -----------------------------------------------------------------------------------------NifU-2z51A02 A:90-154                                             Pfam domains (2)
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhh.eeeeeeeee..eeeeeeehhhhhhhhhhhhhhhhhhhhhhhhh....eeee..........hhhhhhhhhhhhhhhhhhhhh.eeeeeeee..eeeeeeehhhhhhhhhhhhhhhhhhhhh....eeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2z51 A   1 MVPLTEENVESVLDEIRPYLMSDGGNVALHEIDGNVVRVKLQGACGSCPSSTMTMKMGIERRLMEKIPEIVAVEALPDEETGLELNEENIEKVLEEIRPYLIGTADGSLDLVEIEDPIVKIRITGPAAGVMTVRVAVTQKLREKIPSIAAVQLI 154
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150    

   Legend:   → Mismatch (orange background)
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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, 2)

Asymmetric Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2Z51)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: NifU (7)

(-) Gene Ontology  (10, 10)

Asymmetric Unit(hide GO term definitions)
Chain A   (NIFU2_ARATH | Q93W20)
molecular function
    GO:0051537    2 iron, 2 sulfur cluster binding    Interacting selectively and non-covalently with a 2 iron, 2 sulfur (2Fe-2S) cluster; this cluster consists of two iron atoms, with two inorganic sulfur atoms found between the irons and acting as bridging ligands.
    GO:0005506    iron ion binding    Interacting selectively and non-covalently with iron (Fe) ions.
    GO:0051536    iron-sulfur cluster binding    Interacting selectively and non-covalently with an iron-sulfur cluster, a combination of iron and sulfur atoms.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0005198    structural molecule activity    The action of a molecule that contributes to the structural integrity of a complex or its assembly within or outside a cell.
biological process
    GO:0009658    chloroplast organization    A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the chloroplast.
    GO:0016226    iron-sulfur cluster assembly    The incorporation of iron and exogenous sulfur into a metallo-sulfur cluster.
cellular component
    GO:0009507    chloroplast    A chlorophyll-containing plastid with thylakoids organized into grana and frets, or stroma thylakoids, and embedded in a stroma.
    GO:0009570    chloroplast stroma    The space enclosed by the double membrane of a chloroplast but excluding the thylakoid space. It contains DNA, ribosomes and some temporary products of photosynthesis.
    GO:0009536    plastid    Any member of a family of organelles found in the cytoplasm of plants and some protists, which are membrane-bounded and contain DNA. Plant plastids develop from a common type, the proplastid.

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