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(-) Description

Title :  CRYSTAL STRUCTURE OF THE G308E MUTANT OF HUMAN APOPTOSIS INDUCING FACTOR
 
Authors :  I. Sevrioukova
Date :  31 Dec 15  (Deposition) - 11 May 16  (Release) - 28 Sep 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.40
Chains :  Asym./Biol. Unit :  A
Keywords :  Mitochondria, Flavoprotein, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  I. Sevrioukova
Structure/Function Relations In Aifm1 Variants Associated With Neurodegenerative Disorders
J. Mol. Biol. V. 428 3650 2016
PubMed-ID: 27178839  |  Reference-DOI: 10.1016/J.JMB.2016.05.004

(-) Compounds

Molecule 1 - APOPTOSIS-INDUCING FACTOR 1, MITOCHONDRIAL
    Chains: A
    EC Number: 1.1.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector: PKK233-3
    Expression System Vector Type: PLASMID
    Fragment: CATALYTIC DOMAIN, RESIDUES 103-613
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Other Details: ADDITIONAL C-TERMINAL RESIDUES L614-V615-P616-R617 ARE PART OF THE THROMBIN SITE. RESIDUES 104-124,546-558 AND 612-617 ARE DISORDERED
    Synonym: PROGRAMMED CELL DEATH PROTEIN 8, APOPTOSIS INDUCING FACTOR

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1FAD1Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:138 , GLY A:139 , GLY A:140 , THR A:141 , ALA A:142 , VAL A:162 , GLU A:164 , ASP A:165 , ARG A:172 , PRO A:173 , SER A:176 , LYS A:177 , LYS A:231 , LYS A:232 , VAL A:233 , ALA A:259 , THR A:260 , GLY A:261 , ARG A:285 , LYS A:286 , ASN A:403 , GLY A:437 , ASP A:438 , GLU A:453 , HIS A:454 , HIS A:455 , ALA A:458 , PHE A:482 , TRP A:483 , HOH A:2013 , HOH A:2016 , HOH A:2017 , HOH A:2019 , HOH A:2058 , HOH A:2233 , HOH A:2237 , HOH A:2304 , HOH A:2350 , HOH A:2453 , HOH A:2521BINDING SITE FOR RESIDUE FAD A1000

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5FS8)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5FS8)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5FS8)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5FS8)

(-) Exons   (0, 0)

(no "Exon" information available for 5FS8)

(-) 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    
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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 ......eeeeeee..hhhhhhhhhhhhhhh...eeeee.........hhhhhhhhhh....hhhhhheee.....eee....hhhhh............eeeee....eeeee....eeee....eeeeeeeee...eee..hhhhhh.hhhhhhheee..hhhhhhhhhhhhhhh.eeeee..hhhhhhhhhhhhhhhhhhh.eeeee...........hhhhhhhhhhhhhhh..eee....eeeeeee..eeeeee....eeee.eeee...eee...hhhhhh.........ee.....eee..eee....eeeee...eee...hhhhhhhhhhhhhhhh...........eeeee.....eeeeee.......eeeeee......hhhhhhhhhh..hhhhhhh..............eeeeeeee..eeeeeeee....hhhhhhhhhhhh....hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5fs8 A 125 QDKAPSHVPFLLIGGGTAAFAAARSIRARDPGARVLIVSEDPELPYMRPPLSKELWFSDDPNVTKTLRFKQWNGKERSIYFQPPSFYVSAQDLPHIENGGVAVLTGKKVVQLDVRDNMVKLNDGSQITYEKCLIATGGTPRSLSAIDRAGAEVKSRTTLFRKIGDFRSLEKISREVKSITIIGEGFLGSELACALGRKARALGTEVIQLFPEKGNMGKILPEYLSNWTMEKVRREGVKVMPNAIVQSVGVSSGKLLIKLKDGRKVETDHIVAAVGLEPNVELAKTGGLEIDSDFGGFRVNAELQARSNIWVAGDAACFYDIKLGRRRVEHHDHAVVSGRLAGENMTGAAKPYWHQSMFWSDLGPDVGYEAIGLVDSSLPTVGVFAKATAQDNPKSATEQSGTGIRSESETESRASEITIPPDYGKGVIFYLRDKVVVGIVLWNIFNRMPIARKIIKDGEQHEDLNEVAKLFNIH 611
                                   134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514       524       534       544||     567       577       587       597       607    
                                                                                                                                                                                                                                                                                                                                                                                                                                                              545|                                                    
                                                                                                                                                                                                                                                                                                                                                                                                                                                               559
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  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 5FS8)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5FS8)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5FS8)

(-) Gene Ontology  (39, 39)

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  AIFM1_HUMAN | O95831
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 Related Entries

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

UniProtKB/Swiss-Prot
        AIFM1_HUMAN | O95831: 1m6i 4bur 4bv6 4fdc 4lii 5fmh 5fs6 5fs7 5fs9 5kvh 5kvi

(-) Related Entries Specified in the PDB File

5fs6 CRYSTAL STRUCTURE OF THE V243L MUTANT OF HUMAN APOPTOSIS INDUCING FACTOR
5fs7 CRYSTAL STRUCTURE OF THE G262S MUTANT OF HUMAN APOPTOSIS INDUCING FACTOR
5fs9 CRYSTAL STRUCTURE OF THE G338E MUTANT OF HUMAN APOPTOSIS INDUCING FACTOR