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(-) Description

Title :  CRYSTAL STRUCTURE OF YEAST FAD SYNTHETASE (FAD1) IN COMPLEX WITH FAD
 
Authors :  N. Leulliot, H. Van Tilbeurgh
Date :  07 Sep 09  (Deposition) - 26 May 10  (Release) - 26 May 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A
Keywords :  Transferase, Nucleotidyltransferase, Nucleotide-Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Leulliot, K. Blondeau, J. Keller, N. Ulryck, S. Quevillon-Cheruel, H. Van Tilbeurgh
Crystal Structure Of Yeast Fad Synthetase (Fad1) In Complex With Fad.
J. Mol. Biol. V. 398 641 2010
PubMed-ID: 20359485  |  Reference-DOI: 10.1016/J.JMB.2010.03.040

(-) Compounds

Molecule 1 - FAD SYNTHETASE
    Chains: A
    EC Number: 2.7.7.2
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: ROSETTA
    Expression System Taxid: 562
    Expression System Vector: PET9
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 4932
    Synonym: FMN ADENYLYLTRANSFERASE, FAD PYROPHOSPHORYLASE, FLAVIN ADENINE DINUCLEOTIDE SYNTHETASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 2)

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1FAD1Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE
2SO41Ligand/IonSULFATE ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:59 , TYR A:60 , ASN A:61 , CYS A:66 , VAL A:105 , PHE A:106 , ILE A:107 , MET A:144 , PHE A:148 , ILE A:163 , GLY A:164 , ILE A:165 , THR A:181 , ASP A:182 , TRP A:185 , ARG A:190 , ARG A:300 , HOH A:2106 , HOH A:2198 , HOH A:2202 , HOH A:2203 , HOH A:2204 , HOH A:2205 , HOH A:2206 , HOH A:2207 , HOH A:2208 , HOH A:2209BINDING SITE FOR RESIDUE FAD A2762
2AC2SOFTWAREGLY A:63 , LYS A:64 , ASP A:65 , TYR A:217 , SER A:223 , ILE A:224 , HOH A:2143 , HOH A:2200 , HOH A:2201 , HOH A:2204BINDING SITE FOR RESIDUE SO4 A1305

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2WSI)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2WSI)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2WSI)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2WSI)

(-) Exons   (0, 0)

(no "Exon" information available for 2WSI)

(-) 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:285
 aligned with FAD1_YEAST | P38913 from UniProtKB/Swiss-Prot  Length:306

    Alignment length:304
                                    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    
           FAD1_YEAST     1 MQLSKAAEMCYEITNSYLHIDQKSQIIASTQEAIRLTRKYLLSEIFVRWSPLNGEISFSYNGGKDCQVLLLLYLSCLWEYFFIKAQNSQFDFEFQSFPMQRLPTVFIDQEETFPTLENFVLETSERYCLSLYESQRQSGASVNMADAFRDFIKIYPETEAIVIGIRHTDPFGEALKPIQRTDSNWPDFMRLQPLLHWDLTNIWSFLLYSNEPICGLYGKGFTSIGGINNSLPNPHLRKDSNNPALHFEWEIIHAFGKDAEGERSSAINTSPISVVDKERFSKYHDNYYPGWYLVDDTLERAGRI 304
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------PAPS_reduct-2wsiA01 A:55-232                                                                                                                                                      --------------------------    ---------------------  ------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh...........eeee...hhhhhhhhhhhhhhhhhhhhhhhhhh--------.....eeeee......hhhhhhhhhhhhhhh.eeeee...-----.hhhhhhhhhhhhh....eee...............eee........eee......hhhhhhhhhhhhh...hhhhhh.............hhhhhhhhh.....hhhhhhh.....----..........hhhhhhhh...--...hhhhh.hhhhh..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2wsi A   1 MQLSKAAEMCYEITNSYLHIDQKSQIIASTQEAIRLTRKYLLSEIFVRWSPLNGEISFSYNGGKDCQVLLLLYLSCLWEYFFIKAQNS--------FPMQRLPTVFIDQEETFPTLENFVLETSERYCLSLYESQR-----VNMADAFRDFIKIYPETEAIVIGIRHTDPFGEALKPIQRTDSNWPDFMRLQPLLHWDLTNIWSFLLYSNEPICGLYGKGFTSIGGINNSLPNPHLRKDSNNPALHFEWEIIHAFGKD----RSSAINTSPISVVDKERFSKY--NYYPGWYLVDDTLERAGRI 304
                                    10        20        30        40        50        60        70        80       | -      |100       110       120       130     |   - |     150       160       170       180       190       200       210       220       230       240       250       | -  |    270       280  |  | 290       300    
                                                                                                                  88       97                                    136   142                                                                                                                 258  263                 283  |                  
                                                                                                                                                                                                                                                                                                                       286
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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 2WSI)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2WSI)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: HUP (230)

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (FAD1_YEAST | P38913)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0003919    FMN adenylyltransferase activity    Catalysis of the reaction: ATP + FMN = diphosphate + FAD.
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0016779    nucleotidyltransferase activity    Catalysis of the transfer of a nucleotidyl group to a reactant.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:0006747    FAD biosynthetic process    The chemical reactions and pathways resulting in the formation of FAD, the oxidized form of flavin-adenine dinucleotide.
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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