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(-) Description

Title :  THE CRYSTAL STRUCTURE OF AT5G51720 (AT-NEET)
 
Authors :  O. Livnah, Y. Eisenberg-Domovich, R. Nechushtai
Date :  17 May 11  (Deposition) - 23 May 12  (Release) - 23 May 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.75
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  A,B  (2x)
Keywords :  Redox, Fe-S Cluster, Metal Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Nechushtai, A. R. Conlan, L. Song, Y. Harir, O. Yogev, Y. Eisenberg-Domovich, O. Livnah, D. Michaeli, R. Rosen, V. Ma, L. Yuting, J. A. Zuris, V. Shulaev, M. L. Paddock, Z. Y. Cabantchik, P. A. Jennings, R. Mittler
Arabidopsis Thaliana Chloroneet, A Member Of The New Neet Family Of Human Proteins, Is Involved In Development, Senescence And Iron Metabolism.
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - AT5G51720/MIO24_14
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 30-108
    Gene: AT5G51720
    Organism Common: MOUSE-EAR CRESS,THALE-CRESS
    Organism Scientific: ARABIDOPSIS THALIANA
    Organism Taxid: 3702

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): AB
Biological Unit 2 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
1FES2Ligand/IonFE2/S2 (INORGANIC) CLUSTER
2ZN2Ligand/IonZINC ION
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1FES2Ligand/IonFE2/S2 (INORGANIC) CLUSTER
2ZN-1Ligand/IonZINC ION
Biological Unit 2 (1, 4)
No.NameCountTypeFull Name
1FES4Ligand/IonFE2/S2 (INORGANIC) CLUSTER
2ZN-1Ligand/IonZINC ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:74 , ARG A:75 , CYS A:76 , SER A:79 , CYS A:85 , ASP A:86 , SER A:88 , HIS A:89BINDING SITE FOR RESIDUE FES A 500
2AC2SOFTWAREHOH A:11 , HIS A:89 , GLU B:49 , LYS B:56 , HOH B:149BINDING SITE FOR RESIDUE ZN A 501
3AC3SOFTWARELYS A:56 , HIS B:89 , HOH B:139 , HOH B:153BINDING SITE FOR RESIDUE ZN B 501
4AC4SOFTWARECYS B:74 , ARG B:75 , CYS B:76 , SER B:79 , CYS B:85 , ASP B:86 , GLY B:87 , SER B:88 , HIS B:89BINDING SITE FOR RESIDUE FES B 500

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3S2Q)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Phe A:82 -Pro A:83
2Phe B:82 -Pro B:83

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3S2Q)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3S2Q)

(-) Exons   (0, 0)

(no "Exon" information available for 3S2Q)

(-) 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    
   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:65
 aligned with NEET_ARATH | Q9FLI7 from UniProtKB/Swiss-Prot  Length:108

    Alignment length:65
                                    53        63        73        83        93       103     
           NEET_ARATH    44 GGINPEIRKNEDKVVDSVVVTELSKNITPYCRCWRSGTFPLCDGSHVKHNKANGDNVGPLLLKKQ 108
               SCOP domains ----------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------- Pfam domains
         Sec.struct. author .............eeeeee.hhh...eeee..............hhhhhhhhhh..eeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------- Transcript
                 3s2q A  44 GGINPEIRKNEDKVVDSVVVTELSKNITPYCRCWRSGTFPLCDGSHVKHNKANGDNVGPLLLKKQ 108
                                    53        63        73        83        93       103     


Chain B from PDB  Type:PROTEIN  Length:65
 aligned with NEET_ARATH | Q9FLI7 from UniProtKB/Swiss-Prot  Length:108

    Alignment length:65
                                    53        63        73        83        93       103     
           NEET_ARATH    44 GGINPEIRKNEDKVVDSVVVTELSKNITPYCRCWRSGTFPLCDGSHVKHNKANGDNVGPLLLKKQ 108
               SCOP domains ----------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------- Pfam domains
         Sec.struct. author .............eeeeee.hhh...eeee..............hhhhhhhhhh..eeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------- Transcript
                 3s2q B  44 GGINPEIRKNEDKVVDSVVVTELSKNITPYCRCWRSGTFPLCDGSHVKHNKANGDNVGPLLLKKQ 108
                                    53        63        73        83        93       103
   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 3S2Q)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3S2Q)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3S2Q)

(-) Gene Ontology  (11, 11)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (NEET_ARATH | Q9FLI7)
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: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.
biological process
    GO:0055072    iron ion homeostasis    Any process involved in the maintenance of an internal steady state of iron ions within an organism or cell.
    GO:0010150    leaf senescence    The process that occurs in a leaf near the end of its active life that is associated with the dismantling of cell components and membranes, loss of functional chloroplasts, and an overall decline in metabolism.
    GO:0072593    reactive oxygen species metabolic process    The chemical reactions and pathways involving a reactive oxygen species, any molecules or ions formed by the incomplete one-electron reduction of oxygen. They contribute to the microbicidal activity of phagocytes, regulation of signal transduction and gene expression, and the oxidative damage to biopolymers.
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:0043231    intracellular membrane-bounded organelle    Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane and occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane.
    GO:0005739    mitochondrion    A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.
    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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