Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asymmetric Unit
(-)Biological Unit 1
collapse expand < >
Image Asymmetric Unit
Asymmetric Unit  (Jmol Viewer)
Image Biological Unit 1
Biological Unit 1  (Jmol Viewer)

(-) Description

Title :  A 2.05A X-RAY STRUCTUREOF A BACTERIAL EXTRACELLULAR SOLUTE-BINDING PROTEIN, FAMILY 5 FOR BACILLUS ANTHRACIS STR. AMES
 
Authors :  J. S. Brunzelle, Z. Wawrzak, J. Sandoval, A. Savchenko, W. F. Anderson, For Structural Genomics Of Infectious Diseases (Csgid)
Date :  05 Dec 16  (Deposition) - 08 Mar 17  (Release) - 08 Mar 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.05
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Alpha/Beta Protein, Structural Genomics, Center For Structural Genomics Of Infectious Diseases, Csgid, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. S. Brunzelle, Z. Wawrzak, J. Sandoval, A. Savchenko, W. F. Anderson Center For Structural Genomics Of Infectious Diseases (Csgid)
A 2. 05A X-Ray Structureof A Bacterial Extracellular Solute-Binding Protein, Family 5 For Bacillus Anthracis Str Ames
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - ABC TRANSPORTER SUBSTRATE-BINDING PROTEIN
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPMCSG53
    Expression System StrainBL21(DE3)-MAGIC
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    GeneGSIB, GBAA_4729, A8C77_22970, BASH2_01234
    Organism ScientificBACILLUS ANTHRACIS
    Organism Taxid1392
    SynonymBACTERIAL EXTRACELLULAR SOLUTE-BINDING PROTEIN,FAMILY 5, GLUTATHIONE-BINDING PROTEIN GSIB

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 9)

Asymmetric Unit (1, 9)
No.NameCountTypeFull Name
1MSE9Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 18)
No.NameCountTypeFull Name
1MSE18Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 5U4O)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5U4O)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Lys A:293 -Pro A:294

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5U4O)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5U4O)

(-) Exons   (0, 0)

(no "Exon" information available for 5U4O)

(-) 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:474
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeeee.............hhhhhhhhh.......eee.....eee..eeeeeee...eeeeee............hhhhhhhhhhh..........eeeeeeee..eeeeee.....hhhhhhhhhhhh..hhhhhhh..............eeeeeee...eeeeee............eeeeee..hhhhhhhhhhh....ee...hhhhhhhhhh...eeeeee....eeeeee........hhhhhhhhhhhh.hhhhhhhh............................hhhhhhhhhhhh.....eeeeeeee.hhhhhhhhhhhhhhhhh..eeeeeeeehhhhhhhhhhh....eeeeee.....hhhhhhhhhhhhhhh..........hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh..eeeeee..eeeeee..ee..ee.....ee....ee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5u4o A  42 EGGVLTIARLSDADNLDPHFITNIPSASVVYHKVYENLVQRDKNmDFKPmLAKEWKQIDDLNWEFKLQQGVTFQDGAPFNAEAVKKNFERVLDPKTVYSmIQEIKVIDEYTVQFILKYPYSPLLSIFASNEGSILSPKAIDEKGKGLAQHPVGTGPYTFKSWKPGEEIRLEKNKNYWGEKAKVDEVVFKVVPEDATRIGmIETSEAHIAENLPVTEVERVKNSPSmELIENEGLGVEYIGFNVEKKPFDNPLVRQAIAHAIETKGILKGVYNNVGTEINSVmTPKVFGYTKDVKGYKYDINTAKKLLADAGYPNGFKTTIWTNDSKVRmALVEVIQSQLKGIGVDVEIKVmEYGAFLAATNKSEHAmFVGGWGNATGDGDYNQYNLFHSSSHGATGNQFFYSNPEVDKLIEEARKEKDETKRKELYKQLQEIELKDALLVPIRGINHIAATTKNIKGFWIDPSGYLRLEGVELQ 521
                                    51        61        71        81    |   91       101       111       121       131    || 147       157       167       177       187       197       207       217       227       237       247       257       267     | 277       287       297       307       317       327 |     337       347       357       367       377       387       397|      407      |417       427       437       447       457       467       477       487       497       507       517    
                                                                       86-MSE|                                          136|   |                                                                                                 247-MSE                   273-MSE                                                 329-MSE                                        376-MSE               398-MSE         414-MSE                                                                                                       
                                                                            91-MSE                                       143   |                                                                                                                                                                                                                                                                                                                                                                                      
                                                                                                                             147-MSE                                                                                                                                                                                                                                                                                                                                                                                  

   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 5U4O)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5U4O)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5U4O)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)

 Visualization

(-) Interactive Views

Asymmetric 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
    MSE  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
(no "Sites" information available for 5u4o)
 
  Cis Peptide Bonds
    Lys A:293 - Pro A:294   [ RasMol ]  
 
Biological Unit
  Complete Structure
    Biological Unit 1  [ Jena3D ]

(-) 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
  5u4o
    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
  Q81L97_BACAN | Q81L97
    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
  Q81L97_BACAN | Q81L97
    Protein Disorder PredictionDisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

(no "Entries Sharing at Least One Protein Chain" available for 5U4O)

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5U4O)