Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asym./Biol. Unit
(-)Asym./Biol. Unit - sites
collapse expand < >
Image Asym./Biol. Unit
Asym./Biol. Unit  (Jmol Viewer)
Image Asym./Biol. Unit - sites
Asym./Biol. Unit - sites  (Jmol Viewer)

(-) Description

Title :  SALMONELLA ENTERICA SADA 483-523 FUSED TO GCN4 ADAPTORS ( SADAK3B-V1, OUT-OF-REGISTER FUSION)
 
Authors :  M. D. Hartmann, O. Ridderbusch, A. N. Lupas, B. Hernandez Alvarez
Date :  09 Aug 09  (Deposition) - 03 Nov 09  (Release) - 03 Nov 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.65
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Membrane Protein, Ion Coordination, Hydrophobic Core, Trimeric Autotransporter Adhesin, Taa, Stutter, Stammer, Coiled Coil, Protein Export, Polar Core Residues (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. D. Hartmann, O. Ridderbusch, K. Zeth, R. Albrecht, O. Testa, D. N. Woolfson, G. Sauer, S. Dunin-Horkawicz, A. N. Lupas, B. H. Alvarez
A Coiled-Coil Motif That Sequesters Ions To The Hydrophobic Core.
Proc. Natl. Acad. Sci. Usa V. 106 16950 2009
PubMed-ID: 19805097  |  Reference-DOI: 10.1073/PNAS.0907256106

(-) Compounds

Molecule 1 - TRIMERIC AUTOTRANSPORTER ADHESIN FRAGMENT
    ChainsA, B, C
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    FragmentRESIDUES 483-523 FUSED TO GCN4 ADAPTORS
    Organism ScientificSALMONELLA ENTERICA SUBSP. ENTERICA SEROVAR TYPHIMURIUM
    Organism Taxid90371
    Other DetailsN- AND C-TERMINAL OUT-OF-REGISTER FUSION TO GCN4 ADAPTORS

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric/Biological Unit (1, 4)
No.NameCountTypeFull Name
1CL4Ligand/IonCHLORIDE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:488 , ASN B:488 , ASN C:488BINDING SITE FOR RESIDUE CL B1554
2AC2SOFTWAREASN A:495 , ASN B:495 , ASN C:495BINDING SITE FOR RESIDUE CL A1554
3AC3SOFTWAREASN A:502 , ASN B:502 , ASN C:502BINDING SITE FOR RESIDUE CL B1555
4AC4SOFTWAREASN A:509 , ASN B:509 , ASN C:509BINDING SITE FOR RESIDUE CL A1555

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2WPR)

(-) 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:97
 aligned with SADA_SALTY | Q8ZL64 from UniProtKB/Swiss-Prot  Length:1461

    Alignment length:216
                                   403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603      
           SADA_SALTY   394 INQNTTDIAANTTSINQNTTDIATNTTNINSLSDSVTTLTDDALLWDAASGAFSAKHNGSDSKITNLAAGTLAADSTDAVNGSQLFDTNEKVDQNTADITTNTNSINQNTTDIATNTTNINNLSDSITTLTDDALLWDAASGAFSANHNGSASKITNLAAGTLAADSTDAVNGSQLFATNENVSQNTADITTNTNSINQNTTDIATNTTSINNLSD 609
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains 2wprA00 A:457-553                                                                                                                                                                                                        CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhh---hhhh----hhhh--------------------------------------------------------hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh-------------------------------------------------hhhhhhhhhhhhhhhhhh---hhhh----hhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2wpr A 457 IEDKIEEILSKIYHIEN---EIAR----IKKL--------------------------------------------------------IEKVDQNTADITTNTNSINQNTTDIATNTTNINNLSDSITTLMK-------------------------------------------------QIEDKIEEILSKIYHIEN---EIAR----IKKLIK 553
                                   466      |  -|  |   479 |       -         -         -         -         -       483       493       503       513       523 |       -         -         -         -         - |     534        |-  |  |   -|     
                                          473 474  |  478  |                                                      482                                        525                                               526              543 544  |  548     
                                                 477     481                                                                                                                                                                           547          

Chain B from PDB  Type:PROTEIN  Length:97
 aligned with SADA_SALTY | Q8ZL64 from UniProtKB/Swiss-Prot  Length:1461

    Alignment length:216
                                   403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603      
           SADA_SALTY   394 INQNTTDIAANTTSINQNTTDIATNTTNINSLSDSVTTLTDDALLWDAASGAFSAKHNGSDSKITNLAAGTLAADSTDAVNGSQLFDTNEKVDQNTADITTNTNSINQNTTDIATNTTNINNLSDSITTLTDDALLWDAASGAFSANHNGSASKITNLAAGTLAADSTDAVNGSQLFATNENVSQNTADITTNTNSINQNTTDIATNTTSINNLSD 609
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains 2wprB00 B:457-553                                                                                                                                                                                                        CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhh---hhhh----hhhh--------------------------------------------------------hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh-------------------------------------------------hhhhhhhhhhhhhhhhhh---hhhh----hhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2wpr B 457 IEDKIEEILSKIYHIEN---EIAR----IKKL--------------------------------------------------------IEKVDQNTADITTNTNSINQNTTDIATNTTNINNLSDSITTLMK-------------------------------------------------QIEDKIEEILSKIYHIEN---EIAR----IKKLIK 553
                                   466      |  -|  |   479 |       -         -         -         -         -       483       493       503       513       523 |       -         -         -         -         - |     534        |-  |  |   -|     
                                          473 474  |  478  |                                                      482                                        525                                               526              543 544  |  548     
                                                 477     481                                                                                                                                                                           547          

Chain C from PDB  Type:PROTEIN  Length:97
 aligned with SADA_SALTY | Q8ZL64 from UniProtKB/Swiss-Prot  Length:1461

    Alignment length:216
                                   403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603      
           SADA_SALTY   394 INQNTTDIAANTTSINQNTTDIATNTTNINSLSDSVTTLTDDALLWDAASGAFSAKHNGSDSKITNLAAGTLAADSTDAVNGSQLFDTNEKVDQNTADITTNTNSINQNTTDIATNTTNINNLSDSITTLTDDALLWDAASGAFSANHNGSASKITNLAAGTLAADSTDAVNGSQLFATNENVSQNTADITTNTNSINQNTTDIATNTTSINNLSD 609
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains 2wprC00 C:457-553                                                                                                                                                                                                        CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhh---hhhh----hhhh--------------------------------------------------------hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh-------------------------------------------------hhhhhhhhhhhhhhhhhh---hhhh----hhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2wpr C 457 IEDKIEEILSKIYHIEN---EIAR----IKKL--------------------------------------------------------IEKVDQNTADITTNTNSINQNTTDIATNTTNINNLSDSITTLMK-------------------------------------------------QIEDKIEEILSKIYHIEN---EIAR----IKKLIK 553
                                   466      |  -|  |   479 |       -         -         -         -         -       483       493       503       513       523 |       -         -         -         -         - |     534        |-  |  |   -|     
                                          473 474  |  478  |                                                      482                                        525                                               526              543 544  |  548     
                                                 477     481                                                                                                                                                                           547          

   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 2WPR)

(-) CATH Domains  (1, 3)

Asymmetric/Biological Unit

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2WPR)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C   (SADA_SALTY | Q8ZL64)
biological process
    GO:0009405    pathogenesis    The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
cellular component
    GO:0019867    outer membrane    The external membrane of Gram-negative bacteria or certain organelles such as mitochondria and chloroplasts; freely permeable to most ions and metabolites.

 Visualization

(-) Interactive Views

Asymmetric/Biological Unit
  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
    CL  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
    AC3  [ RasMol ]  +environment [ RasMol ]
    AC4  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 2wpr)
 

(-) 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
  2wpr
    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
  SADA_SALTY | Q8ZL64
    Comparative Protein Structure ModelsModBase
    Genomic InformationEnsembl
    Protein-protein InteractionDIP
    Sequence, Family and Domain InformationInterPro | Pfam | SMART | UniProtKB/SwissProt
 
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
  SADA_SALTY | Q8ZL64
    Protein Disorder PredictionDisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/Swiss-Prot
        SADA_SALTY | Q8ZL642wpq 2wps 2yny 2ynz 2yo0 2yo1 2yo2 2yo3 3zmf

(-) Related Entries Specified in the PDB File

2wpq SALMONELLA ENTERICA SADA 479-519 FUSED TO GCN4 ADAPTORS (SADAK3, IN-REGISTER FUSION)
2wps SALMONELLA ENTERICA SADA 483-523 FUSED TO GCN4 ADAPTORS (SADAK3B-V2, OUT-OF-REGISTER FUSION)
2wpy GCN4 LEUCINE ZIPPER MUTANT WITH ONE VXXNXXX MOTIF COORDINATING CHLORIDE
2wpz GCN4 LEUCINE ZIPPER MUTANT WITH TWO VXXNXXX MOTIFS COORDINATING CHLORIDE
2wq0 GCN4 LEUCINE ZIPPER MUTANT WITH THREE IXXNTXX MOTIFS COORDINATING CHLORIDE
2wq1 GCN4 LEUCINE ZIPPER MUTANT WITH THREE IXXNTXX MOTIFS COORDINATING BROMIDE
2wq2 GCN4 LEUCINE ZIPPER MUTANT WITH THREE IXXNTXX MOTIFS COORDINATING IODIDE
2wq3 GCN4 LEUCINE ZIPPER MUTANT WITH THREE IXXNTXX MOTIFS COORDINATING CHLORIDE AND NITRATE