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(-) Description

Title :  X-RAY STRUCTURE OF PROTEIN FROM ARABIDOPSIS THALIANA AT1G79260 WITH BOUND HEME
 
Authors :  C. M. Bianchetti, C. A. Bingman, G. E. Wesenberg, G. N. Phillips Jr. , Center For Eukaryotic Structural Genomics (Cesg)
Date :  24 Sep 08  (Deposition) - 14 Oct 08  (Release) - 02 Feb 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.36
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Biol. Unit 2:  A  (1x)
Keywords :  Heme, Unknown Function, Structural Genomics Functional Follow-Up Study, Structural Genomics, Protein Structure Initiative, Psi, Center For Eukaryotic Structural Genomics, Cesg (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. M. Bianchetti, G. C. Blouin, E. Bitto, J. S. Olson, G. N. Phillips
The Structure And No Binding Properties Of The Nitrophorin-Like Heme-Binding Protein From Arabidopsis Thaliana Gene Locus At1G79260. 1.
Proteins V. 78 917 2010
PubMed-ID: 19938152  |  Reference-DOI: 10.1002/PROT.22617

(-) Compounds

Molecule 1 - UNCHARACTERIZED PROTEIN AT1G79260
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PVP 16
    Expression System Strain: B834 P(RARE2)
    Expression System Vector Type: PLASMID
    Gene: AT1G79260, YUP8H12R.14
    Organism Common: MOUSE-EAR CRESS,THALE-CRESS
    Organism Scientific: ARABIDOPSIS THALIANA
    Organism Taxid: 3702

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 2)
No.NameCountTypeFull Name
1EDO1Ligand/Ion1,2-ETHANEDIOL
2HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1EDO2Ligand/Ion1,2-ETHANEDIOL
2HEM2Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
1EDO1Ligand/Ion1,2-ETHANEDIOL
2HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:40 , PHE A:44 , TYR A:46 , THR A:66 , HIS A:76 , GLN A:96 , LYS A:127 , VAL A:128 , ARG A:133 , VAL A:146 , MET A:148 , HIS A:158 , LEU A:159 , HOH A:3428 , HOH A:3432 , HOH A:3482BINDING SITE FOR RESIDUE HEM A 200
2AC2SOFTWAREHIS A:54 , SER A:55 , HOH A:3324 , HOH A:3386 , HOH A:3407 , HOH A:3571BINDING SITE FOR RESIDUE EDO A3318

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3EMM)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3EMM)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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  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:153
 aligned with Y1926_ARATH | O64527 from UniProtKB/Swiss-Prot  Length:166

    Alignment length:153
                                    23        33        43        53        63        73        83        93       103       113       123       133       143       153       163   
          Y1926_ARATH    14 PPVHPFVAPLSYLLGTWRGQGEGEYPTIPSFRYGEEIRFSHSGKPVIAYTQKTWKLESGAPMHAESGYFRPRPDGSIEVVIAQSTGLVEVQKGTYNVDEQSIKLKSDLVGNASKVKEISREFELVDGKLSYVVRMSTTTNPLQPHLKAILDKL 166
               SCOP domains d3emma_ A: Hypothetical protein At1g79260                                                                                                                 SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhheeeeeeeeeee..eeeeeeeeeeeee......eeeeeeee......eeeeeeeeeee....eeeeeeee....eeeeeeeee....eeeeeeeeee....eeeeeeeeeee..eeeeeeeeee.....eeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3emm A  14 PPVHPFVAPLSYLLGTWRGQGEGEYPTIPSFRYGEEIRFSHSGKPVIAYTQKTWKLESGAPMHAESGYFRPRPDGSIEVVIAQSTGLVEVQKGTYNVDEQSIKLKSDLVGNASKVKEISREFELVDGKLSYVVRMSTTTNPLQPHLKAILDKL 166
                                    23        33        43        53        63        73        83        93       103       113       123       133       143       153       163
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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)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A   (Y1926_ARATH | O64527)
molecular function
    GO:0003674    molecular_function    Elemental activities, such as catalysis or binding, describing the actions of a gene product at the molecular level. A given gene product may exhibit one or more molecular functions.
biological process
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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 Related Entries

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

UniProtKB/Swiss-Prot
        Y1926_ARATH | O64527: 2a13 2q4n 3wjb 3wjc 3wjd 3wje 3wjf 3wjg 4ymy

(-) Related Entries Specified in the PDB File

2a13 SELENOMETHIONINE SUBSTITUTED AT1G79260 WITHOUT HEME RELATED ID: GO.6462 RELATED DB: TARGETDB