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(-) Description

Title :  CRYSTAL STRUCTURE OF MONOMERIC HUMAN APOPTOSIS-INDUCING FACTOR WITH E413A/R422A/R430A MUTATIONS
 
Authors :  C. A. Brosey, J. Nix, T. Ellenberger, J. A. Tainer
Date :  14 Jul 16  (Deposition) - 16 Nov 16  (Release) - 14 Dec 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Oxidoreductase, Flavoprotein, Mitochondria Cell Death (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. A. Brosey, C. Ho, W. Z. Long, S. Singh, K. Burnett, G. L. Hura, J. C. Nix G. R. Bowman, T. Ellenberger, J. A. Tainer
Defining Nadh-Driven Allostery Regulating Apoptosis-Inducin Factor.
Structure V. 24 2067 2016
PubMed-ID: 27818101  |  Reference-DOI: 10.1016/J.STR.2016.09.012

(-) Compounds

Molecule 1 - APOPTOSIS-INDUCING FACTOR 1, MITOCHONDRIAL
    Chains: A
    EC Number: 1.1.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET24B
    Expression System Strain: ROSETTA2 (DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: AIFM1, AIF, PDCD8
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Other Details: EXPRESSED AS AIF(78-613). RESIDUES L614-Q619 REMAIN FROM PRESCISSION PROTEASE CLEAVAGE.
    Synonym: PROGRAMMED CELL DEATH PROTEIN 8

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 3)

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
1EPE1Ligand/Ion4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
2FAD1Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE
3GOL1Ligand/IonGLYCEROL

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
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:232 , VAL A:233 , ALA A:259 , THR A:260 , GLY A:261 , ARG A:285 , LYS A:286 , LEU A:311 , 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:823 , HOH A:830 , HOH A:840 , HOH A:843 , HOH A:848 , HOH A:857 , HOH A:866 , HOH A:883 , HOH A:964 , HOH A:1007 , HOH A:1009binding site for residue FAD A 701
2AC2SOFTWAREARG A:265 , LYS A:342 , ILE A:343 , VAL A:398 , GLY A:399 , HIS A:454 , PHE A:482 , HOH A:942 , HOH A:1050 , HOH A:1091binding site for residue EPE A 702
3AC3SOFTWAREVAL A:423 , ASN A:424 , ARG A:449 , HOH A:804 , HOH A:807 , HOH A:1150 , HOH A:1197binding site for residue GOL A 703

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5KVI)

(-) 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:479
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee..hhhhhhhhhhhhhhh...eeeeee........hhhhhhhhhh....hhhhhheee.....eee....hhhhh............eeeeee...eeeee....eeee....eeeeeeeee...eee..hhhhhhhhhhhhhheee..hhhhhhhhhhhhhhh.eeeee..hhhhhhhhhhhhhhhhhhh.eeeee...........hhhhhhhhhhhhhhh..eee....eeeeeee..eeeeee....eeee.eeee...eee.hhhhhhh..........ee.....eee..eee....eeeee...eee...hhhhhhhhhhhhhhhh...........eeeee.....eeeeee.......eeeeee......hhhhhhhhhh..hhhhhhh...eeeee.......eeeeeeee..eeeeeeee....hhhhhhhhhhhh....hhhhhhhhhhh....eeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5kvi A 129 PSHVPFLLIGGGTAAFAAARSIRARDPGARVLIVSEDPELPYMRPPLSKELWFSDDPNVTKTLRFKQWNGKERSIYFQPPSFYVSAQDLPHIENGGVAVLTGKKVVQLDVRDNMVKLNDGSQITYEKCLIATGGTPRSLSAIDRAGAEVKSRTTLFRKIGDFRSLEKISREVKSITIIGGGFLGSELACALGRKARALGTEVIQLFPEKGNMGKILPEYLSNWTMEKVRREGVKVMPNAIVQSVGVSSGKLLIKLKDGRKVETDHIVAAVGLEPNVELAKTGGLAIDSDFGGFAVNAELQAASNIWVAGDAACFYDIKLGRRRVEHHDHAVVSGRLAGENMTGAAKPYWHQSMFWSDLGPDVGYEAIGLVDSSLPTVGVFAKATAQDNPKSATEQSGTGIRSESETESEASEITIPGEDYGKGVIFYLRDKVVVGIVLWNIFNRMPIARKIIKDGEQHEDLNEVAKLFNIHEDLEVLFQ 619
                                   138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508       518       528       538     ||560       570       580       590       600       610         
                                                                                                                                                                                                                                                                                                                                                                                                                                                         544|                                                              
                                                                                                                                                                                                                                                                                                                                                                                                                                                          557
   Legend:   → Mismatch (orange background)
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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 5KVI)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (39, 39)

Asymmetric/Biological Unit(hide GO term definitions)

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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 5fs8 5fs9 5kvh

(-) Related Entries Specified in the PDB File

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