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(-) Description

Title :  CRYSTAL STRUCTURE OF THE GLUTAREDOXIN-LIKE PROTEIN SH3BGRL3 AT 1.6 A RESOLUTION
 
Authors :  M. Nardini, M. Mazzocco, M. Massaro, M. Maffei, A. Vergano, A. Donadini M. Scartezzini, M. Bolognesi
Date :  19 Apr 04  (Deposition) - 29 Jun 04  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Glutaredoxin; Thioredoxin Fold; Protein 3D-Structure; X-Ray Crystallography, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Nardini, M. Mazzocco, M. Massaro, M. Maffei, A. Vergano, A. Donadini, M. Scartezzini, M. Bolognesi
Crystal Structure Of The Glutaredoxin-Like Protein Sh3Bgrl3 At 1. 6 A Resolution
Biochem. Biophys. Res. Commun. V. 318 470 2004
PubMed-ID: 15120624  |  Reference-DOI: 10.1016/J.BBRC.2004.04.050

(-) Compounds

Molecule 1 - SH3 DOMAIN-BINDING GLUTAMIC ACID-RICH PROTEIN-LIKE 3
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: SH3BGRL3

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric/Biological Unit (3, 4)
No.NameCountTypeFull Name
1ACY1Ligand/IonACETIC ACID
2GOL1Ligand/IonGLYCEROL
3SO42Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR B:12 , GLY B:13BINDING SITE FOR RESIDUE SO4 B 1001
2AC2SOFTWARESER B:14 , ARG B:15 , GLU B:16 , ARG B:32 , HOH B:2018 , HOH B:2046 , HOH B:2079BINDING SITE FOR RESIDUE SO4 B 1002
3AC3SOFTWARETYR B:35 , GLN B:36 , HOH B:2023BINDING SITE FOR RESIDUE ACY B 2001
4AC4SOFTWAREARG A:15 , LYS A:31 , ASP A:84 , LEU A:86 , GLN A:87 , ARG B:15BINDING SITE FOR RESIDUE GOL A 3001

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1T1V)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Pro A:61 -Pro A:62
2Pro B:61 -Pro B:62

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1T1V)

(-) PROSITE Motifs  (1, 2)

Asymmetric/Biological Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1GLUTAREDOXIN_2PS51354 Glutaredoxin domain profile.SH3L3_MOUSE1-93
 		  2A:1-93
B:1-93

(-) Exons   (0, 0)

(no "Exon" information available for 1T1V)

(-) 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:93
 aligned with SH3L3_MOUSE | Q91VW3 from UniProtKB/Swiss-Prot  Length:93

    Alignment length:93
                                    10        20        30        40        50        60        70        80        90   
           SH3L3_MOUSE    1 MSGLRVYSTSVTGSREIKSQQSEVTRILDGKRIQYQLVDISQDNALRDEMRTLAGNPKATPPQIVNGNHYCGDYELFVEAVEQDTLQEFLKLA 93
               SCOP domains d1t1va_ A: SH3BGRL3                                                                           SCOP domains
               CATH domains 1t1vA00 A:1-93 Glutaredoxin                                                                   CATH domains
               Pfam domains --------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee.....hhhhhhhhhhhhhhhhhh....eeee...hhhhhhhhhhhh........eeee..eeeeehhhhhhhhhh.hhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE GLUTAREDOXIN_2  PDB: A:1-93 UniProt: 1-93                                                     PROSITE
                 Transcript --------------------------------------------------------------------------------------------- Transcript
                  1t1v A  1 MSGLRVYSTSVTGSREIKSQQSEVTRILDGKRIQYQLVDISQDNALRDEMRTLAGNPKATPPQIVNGNHYCGDYELFVEAVEQDTLQEFLKLA 93
                                    10        20        30        40        50        60        70        80        90   


Chain B from PDB  Type:PROTEIN  Length:93
 aligned with SH3L3_MOUSE | Q91VW3 from UniProtKB/Swiss-Prot  Length:93

    Alignment length:93
                                    10        20        30        40        50        60        70        80        90   
           SH3L3_MOUSE    1 MSGLRVYSTSVTGSREIKSQQSEVTRILDGKRIQYQLVDISQDNALRDEMRTLAGNPKATPPQIVNGNHYCGDYELFVEAVEQDTLQEFLKLA 93
               SCOP domains d1t1vb_ B: SH3BGRL3                                                                           SCOP domains
               CATH domains 1t1vB00 B:1-93 Glutaredoxin                                                                   CATH domains
           Pfam domains (1) -SH3BGR-1t1vB01 B:2-93                                                                        Pfam domains (1)
           Pfam domains (2) -SH3BGR-1t1vB02 B:2-93                                                                        Pfam domains (2)
         Sec.struct. author ...eeeee.....hhhhhhhhhhhhhhhhhh....eeee...hhhhhhhhhhhh........eeee..eeeeehhhhhhhhhh.hhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE GLUTAREDOXIN_2  PDB: B:1-93 UniProt: 1-93                                                     PROSITE
                 Transcript --------------------------------------------------------------------------------------------- Transcript
                  1t1v B  1 MSGLRVYSTSVTGSREIKSQQSEVTRILDGKRIQYQLVDISQDNALRDEMRTLAGNPKATPPQIVNGNHYCGDYELFVEAVEQDTLQEFLKLA 93
                                    10        20        30        40        50        60        70        80        90
   Legend:   → Mismatch (orange background)
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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  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: Thioredoxin (367)

(-) Gene Ontology  (14, 14)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (SH3L3_MOUSE | Q91VW3)
molecular function
    GO:0005096    GTPase activator activity    Binds to and increases the activity of a GTPase, an enzyme that catalyzes the hydrolysis of GTP.
    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:0015035    protein disulfide oxidoreductase activity    Catalysis of the reaction: a protein with reduced sulfide groups = a protein with oxidized disulfide bonds.
    GO:0030215    semaphorin receptor binding    Interacting selectively and non-covalently with semaphorin receptors.
biological process
    GO:0045454    cell redox homeostasis    Any process that maintains the redox environment of a cell or compartment within a cell.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
    GO:0043547    positive regulation of GTPase activity    Any process that activates or increases the activity of a GTPase.
    GO:0032956    regulation of actin cytoskeleton organization    Any process that modulates the frequency, rate or extent of the formation, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising actin filaments and their associated proteins.
    GO:0030834    regulation of actin filament depolymerization    Any process that modulates the frequency, rate or extent of the disassembly of actin filaments by the removal of actin monomers from a filament.
    GO:0043535    regulation of blood vessel endothelial cell migration    Any process that modulates the frequency, rate or extent of the migration of the endothelial cells of blood vessels.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0070062    extracellular exosome    A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
    GO:0030027    lamellipodium    A thin sheetlike process extended by the leading edge of a migrating cell or extending cell process; contains a dense meshwork of actin filaments.
    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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  SH3L3_MOUSE | Q91VW3
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 Related Entries

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

UniProtKB/Swiss-Prot
        SH3L3_MOUSE | Q91VW3: 1j0f

(-) Related Entries Specified in the PDB File

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