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

(-) Description

Title :  CRYSTAL STRUCTURE OF CANDIDA ALBICANS RAI1
 
Authors :  V. Y. Wang, L. Tong
Date :  03 Jun 15  (Deposition) - 08 Jul 15  (Release) - 05 Aug 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym./Biol. Unit :  A
Keywords :  Rai1, Decapping, Mrna 5'-Processing, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  V. Y. Wang, X. Jiao, M. Kiledjian, L. Tong
Structural And Biochemical Studies Of The Distinct Activity Profiles Of Rai1 Enzymes.
Nucleic Acids Res. V. 43 6596 2015
PubMed-ID: 26101253  |  Reference-DOI: 10.1093/NAR/GKV620

(-) Compounds

Molecule 1 - DECAPPING NUCLEASE RAI1
    ChainsA
    EC Number3.6.1.-
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    GeneRAI1, CAO19.13610, CAO19.6230
    Organism CommonYEAST
    Organism ScientificCANDIDA ALBICANS (STRAIN SC5314 / ATCC MYA- 2876)
    Organism Taxid237561
    StrainSC5314 / ATCC MYA-2876

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 5BTH)

(-) Sites  (0, 0)

(no "Site" information available for 5BTH)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5BTH)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5BTH)

(-) 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:391
                                                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee...........eeeeeeeeeeee.....ee..hhhhhh.ee..hhhhhh.......hhhhh...hhhhhh.hhhhhhhhhhhhhhhhh......eeeehhhhhhhhhhhhh....eeeeeeee..eeeeeehhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhee..hhhhhhhhhhhh..........eeeeeeeeee..eeeeeeeee.ee......hhhhhhh.eeeeeeee...hhhhhhhhhhhhhhhhhhhhhhh..eeeeeee.....eeeeeeee..hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhh........eeeeee....eeeeee.hhhhhhhhhh....hhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5bth A   1 MAKSLPLNSRSKTTALKQPRELFSYARDIDGKYVYDDPENSLSYYYLPDSTIDTGIDLQGGYSKFKKIPDEQNLADFNSLLKAIIKYETSEGKKISSDIITFREIMTKILSLPYNLTDPIDLYVVPFDGQLFIKSDDELDMKRRKEQEVRMKQTNTVERYDYMKRCEYVGYKFETIATIPKPWSQVSRSQIENRNKKVVNNYEQYLSVIRTGIGNVKLVLAGEIDCCWDYLPDEQNKKLNHYVELKTSRIIENNSQVVSFEQKLFKAWCQCFLMGVTKIIYGFRDNNLILKNVELFNTEEIPILIKNNPLTNAATEKKINCTNALKWYGAVVDWLNTTVDKKDEIKSYRLKYDPVRKSFTLSETDSETNEKLRNGQLLTPEFTEWRQSLKK 391
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390 

   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 5BTH)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (12, 12)

Asymmetric/Biological Unit(hide GO term definitions)

 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
(no "Ligands, Modified Residues, Ions" information available for 5bth)
 
  Sites
(no "Sites" information available for 5bth)
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 5bth)
 

(-) 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
  5bth
    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
  DXO_CANAL | Q5AAT0
    Comparative Protein Structure ModelsModBase
    Genomic InformationEnsembl
    Protein-protein InteractionDIP
    Sequence, Family and Domain InformationInterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  3.6.1.-
    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
  DXO_CANAL | Q5AAT0
    Protein Disorder PredictionDisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/Swiss-Prot
        DXO_CANAL | Q5AAT05bud

(-) Related Entries Specified in the PDB File

5btb 5bte 5bto