Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)NMR Structure - model 1
(-)NMR Structure - all models
collapse expand < >
Image NMR Structure - model 1
NMR Structure - model 1  (Jmol Viewer)
Image NMR Structure - all models
NMR Structure - all models  (Jmol Viewer)

(-) Description

Title :  SOLUTION STRUCTURE OF C-TERMINAL DOMAIN OF REDUCED NLEG2-3 (RESIDUES 90-191) FROM PATHOGENIC E. COLI O157:H7. NORTHEAST STRUCTURAL GENOMICS CONSORTIUM AND MIDWEST CENTER FOR STRUCTURAL GENOMICS TARGET ET109A
 
Authors :  B. Wu, A. Yee, C. Fares, A. Lemak, A. Semest, M. Claude, A. Singer, A. Edwa A. Savchenko, G. T Montelione, A. Joachimiak, C. H. Arrowsmith, Nort Structural Genomics Consortium (Nesg), Ontario Centre For St Proteomics (Ocsp), Midwest Center For Structural Genomics (M
Date :  29 Jun 09  (Deposition) - 25 Aug 09  (Release) - 18 Jan 12  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
NMR Structure *:  A  (1x)
Keywords :  Methods Development, U-Box Domain, Structural Genomics, Psi-2, Protein Structure Initiative, Northeast Structural Genomics Consortium, Nesg, Ontario Centre For Structural Proteomics, Ocsp, Midwest Center For Structural Genomics, Mcsg, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  B. Wu, T. Skarina, A. Yee, M. C. Jobin, R. Dileo, A. Semesi, C. Fares, A. Lemak, B. K. Coombes, C. H. Arrowsmith, A. U. Singer, A. Savchenko
Nleg Type 3 Effectors From Enterohaemorrhagic Escherichia Coli Are U-Box E3 Ubiquitin Ligases.
Plos Pathog. V. 6 00960 2010
PubMed-ID: 20585566  |  Reference-DOI: 10.1371/JOURNAL.PPAT.1000960
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - UNCHARACTERIZED PROTEIN ECS2156
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    Expression System VectorPET15B
    FragmentRESIDUES 90-191
    GeneECS2156, Z2149
    Organism ScientificESCHERICHIA COLI
    Organism Taxid83334

 Structural Features

(-) Chains, Units

  1
NMR Structure (20x)A
NMR Structure * (1x)A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2KKX)

(-) Sites  (0, 0)

(no "Site" information available for 2KKX)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2KKX)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2KKX)

(-) 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:102
 aligned with Q8X509_ECO57 | Q8X509 from UniProtKB/TrEMBL  Length:191

    Alignment length:102
                                    99       109       119       129       139       149       159       169       179       189  
         Q8X509_ECO57    90 SQESIQNKISQCKFSVCPERLQCPLEAIQCPITLEQPEKGIFVKNSDGSDVCTLFDAAAFSRLVGEGLPHPLTREPITASIIVKHEECIYDDTRGNFIIKGN 191
               SCOP domains ------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains DUF1076-2kkxA01 A:90-189                                                                            -- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhee.........hhhhh.........eeeeeee.....eeeeeehhhhhhhhhhh..............ee....eeee....eeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------ Transcript
                 2kkx A  90 SQESIQNKISQCKFSVCPERLQCPLEAIQCPITLEQPEKGIFVKNSDGSDVCTLFDAAAFSRLVGEGLPHPLTREPITASIIVKHEECIYDDTRGNFIIKGN 191
                                    99       109       119       129       139       149       159       169       179       189  

   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 2KKX)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 1)

NMR Structure

(-) Gene Ontology  (3, 3)

NMR Structure(hide GO term definitions)
Chain A   (Q8X509_ECO57 | Q8X509)
molecular function
    GO:0004842    ubiquitin-protein transferase activity    Catalysis of the transfer of ubiquitin from one protein to another via the reaction X-Ub + Y --> Y-Ub + X, where both X-Ub and Y-Ub are covalent linkages.
biological process
    GO:0072519    parasitism    An interaction between two organisms living together in more or less intimate association in a relationship in which association is disadvantageous or destructive to one of the organisms.
    GO:0016567    protein ubiquitination    The process in which one or more ubiquitin groups are added to a protein.

 Visualization

(-) Interactive Views

NMR Structure
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
(no "Ligands, Modified Residues, Ions" information available for 2kkx)
 
  Sites
(no "Sites" information available for 2kkx)
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 2kkx)
 

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  2kkx
    Family and Domain InformationProDom | SYSTERS
    General Structural InformationGlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in MembranesOPM
    Protein SurfaceSURFACE
    Secondary StructureDSSP (structure derived) | HSSP (homology derived)
    Structural GenomicsGeneCensus
    Structural NeighboursCE | VAST
    Structure ClassificationCATH | Dali | SCOP
    Validation and Original DataBMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  Q8X509_ECO57 | Q8X509
    Comparative Protein Structure ModelsModBase
    Genomic InformationEnsembl
    Protein-protein InteractionDIP
    Sequence, Family and Domain InformationInterPro | Pfam | SMART | UniProtKB/TrEMBL
 
Access by Enzyme Classificator   (EC Number)
  (no 'Enzyme Classificator' available)
    General Enzyme InformationBRENDA | EC-PDB | Enzyme | IntEnz
    PathwayKEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease InformationOMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related InformationGenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain InformationXDom
    Interatomic Contacts of Structural UnitsCSU
    Ligand-protein ContactsLPC
    Protein CavitiescastP
    Sequence and Secondary StructurePDBCartoon
    Structure AlignmentSTRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence BrowserSTING
 
Access by UniProt ID/Accession number
  Q8X509_ECO57 | Q8X509
    Protein Disorder PredictionDisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/TrEMBL
        Q8X509_ECO57 | Q8X5092kky

(-) Related Entries Specified in the PDB File

2kky OXIDIZED NLEG2-3 RELATED ID: 16374 RELATED DB: BMRB