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 :  THE N-TERMINAL WD40 DOMAIN OF APC1 (ANAPHASE PROMOTING COMPLEX SUBUNIT 1)
 
Authors :  Q. Li, S. Aibara, D. Barford
Date :  07 Jul 16  (Deposition) - 05 Oct 16  (Release) - 26 Oct 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.15
Chains :  Asym./Biol. Unit :  A
Keywords :  Apc/C, Cell Cycle, Wd40 (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Q. Li, L. Chang, S. Aibara, J. Yang, Z. Zhang, D. Barford
Wd40 Domain Of Apc1 Is Critical For The Coactivator-Induced Allosteric Transition That Stimulates Apc/C Catalytic Activity.
Proc. Natl. Acad. Sci. Usa V. 113 10547 2016
PubMed-ID: 27601667  |  Reference-DOI: 10.1073/PNAS.1607147113

(-) Compounds

Molecule 1 - ANAPHASE-PROMOTING COMPLEX SUBUNIT 1,ANAPHASE-PROMOTING COMPLEX SUBUNIT 1,ANAPHASE-PROMOTING COMPLEX SUBUNIT 1,ANAPHASE- PROMOTING COMPLEX SUBUNIT 1
    Chains: A
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Taxid: 7108
    Gene: ANAPC1, TSG24
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: APC1,CYCLOSOME SUBUNIT 1,MITOTIC CHECKPOINT REGULATOR, TESTIS-SPECIFIC GENE 24 PROTEIN,APC1,CYCLOSOME SUBUNIT 1,MITOTIC CHECKPOINT REGULATOR,TESTIS-SPECIFIC GENE 24 PROTEIN,APC1,CYCLOSOME SUBUNIT 1,MITOTIC CHECKPOINT REGULATOR,TESTIS-SPECIFIC GENE 24 PROTEIN,APC1,CYCLOSOME SUBUNIT 1,MITOTIC CHECKPOINT REGULATOR,TESTIS- SPECIFIC GENE 24 PROTEIN

 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 5LGG)

(-) Sites  (0, 0)

(no "Site" information available for 5LGG)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Asp A:252 -Pro A:253

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5LGG)

(-) 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:378
                                                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .........eee.eeeee..hhhhhhh....eeeeeee..........eeeeeeee..eeeeeeee......eeeeee......eeeeeeeeee...........eeeeeeeee....eeeee....eeee.....eeeeeee..eeeeee..........eeee.......ee.eee.......ee.....eeeeeee....eeeeee....eeeeeeeee...........eeeeeeee............eeee.....eeeeeeehhh.eeeeeeeee......eeeeeeeeee..eeeeehhhheeeee.....eeeee..eeeeeee.....hhhhh.....eeeeeeee..eeeeee....eeeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5lgg A   2 SNFYEERTTMIAARDLQEFVPFGRDHCKHQKESWQLRKGVSEIGEDVDYDEELYVAGNMVIWSKGSKSQALAVYKAFTVDSPVQQALWCDFIISQDKSEKAYSSNEVEKCICILQSSCINMHSIEGKDYIASLPFQVANVWPTKYGLLFERSASPREPLPTMFSMLHPLDEITPLVCKSGSLFRVQYVVDHAMKIVFLNTDPSIVMTYDAVQNVHSVWTLRRVKSEEENIVPELCIDHLWTETIEKNSQASKVFITSDLCGQKFLCFLVESQLQLRCVKFQESNDKTQLIFGSVTNIPAKDAAPVEKIDTMLVLEGSGNLVLYTGVVRVGKVFIPGLPAPSLTMSGTYIHSIRDPVHNRVTLELSNGSMVRITIPEIA 613
                                    11        21        70        80        90       100       110       120       130       140       150       160       170       180       190   ||  208       218       228  ||   241       251       261       271       403       413   ||  427       437       447       457       467       477       487       497       507       517    || 585       595       605        
                                                       30|                                                                                                                         194|                         231|                                          280|           417|                                                                                                 522|                                
                                                        70                                                                                                                          203                          235                                           403            422                                                                                                  581
   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 5LGG)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (14, 15)

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 5lgg)
 
  Sites
(no "Sites" information available for 5lgg)
 
  Cis Peptide Bonds
    Asp A:252 - Pro A:253   [ RasMol ]  
 

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym./Biol. Unit PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  5lgg
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  APC1_HUMAN | Q9H1A4
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  (no 'Enzyme Classificator' available)
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  APC1_HUMAN | Q9H1A4
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/Swiss-Prot
        APC1_HUMAN | Q9H1A4: 4ui9 5a31 5g04 5g05 5khr 5khu 5l9t 5l9u 5lcw

(-) Related Entries Specified in the PDB File

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