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(-) Description

Title :  D298E MUTANT OF FAD SYNTHETASE FROM CORYNEBACTERIUM AMMONIAGENES
 
Authors :  M. Martinez-Julvez, B. Herguedas, M. Milagros
Date :  17 Nov 15  (Deposition) - 30 Nov 16  (Release) - 05 Apr 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.51
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (3x)
Keywords :  Transferase, Riboflavin Kinase, Nucleotide-Binding, Atp- Binding, Multifunctional Enzyme, Nucleotidyltransferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Serrano, M. Sebastian, S. Arilla-Luna, S. Baquedano, B. Herguedas A. Velazquez-Campoy, M. Martinez-Julvez, M. Medina
The Trimer Interface In The Quaternary Structure Of The Bifunctional Prokaryotic Fad Synthetase From Corynebacteriu Ammoniagenes.
Sci Rep V. 7 404 2017
PubMed-ID: 28341845  |  Reference-DOI: 10.1038/S41598-017-00402-6

(-) Compounds

Molecule 1 - RIBOFLAVIN BIOSYNTHESIS PROTEIN RIBF
    Chains: A, B
    EC Number: 2.7.1.26, 2.7.7.2
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 469008
    Expression System Vector: PET28A
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Scientific: CORYNEBACTERIUM AMMONIAGENES
    Organism Taxid: 1697
    Synonym: FLAVOKINASE, FAD PYROPHOSPHORYLASE, FAD SYNTHASE

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (3x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
1PPV2Ligand/IonPYROPHOSPHATE
2SO42Ligand/IonSULFATE ION
Biological Unit 1 (2, 12)
No.NameCountTypeFull Name
1PPV6Ligand/IonPYROPHOSPHATE
2SO46Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREVAL A:23 , PHE A:24 , HIS A:28 , HIS A:31 , ASN A:125 , SER A:163 , SER A:164 , HOH A:2034BINDING SITE FOR RESIDUE PPV A 1339
2AC2SOFTWAREGLY B:22 , VAL B:23 , PHE B:24 , HIS B:28 , HIS B:31 , ASN B:125 , SER B:163 , SER B:164 , HOH B:2005BINDING SITE FOR RESIDUE PPV B 1339
3AC3SOFTWARETHR A:73 , LEU A:74 , ARG B:195 , TYR B:279BINDING SITE FOR RESIDUE SO4 A 1340
4AC4SOFTWARETYR A:279 , THR B:73 , LEU B:74BINDING SITE FOR RESIDUE SO4 B 1340

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5FO0)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Asp A:55 -Pro A:56
2Asp B:55 -Pro B:56
3Glu B:263 -Gln B:264

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5FO0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5FO0)

(-) Exons   (0, 0)

(no "Exon" information available for 5FO0)

(-) Sequences/Alignments

Asymmetric 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:334
                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee.hhhh......eeeee......hhhhhhhhhhhhhhhhhhh.eeeeeee..hhhhhhh.........hhhhhhhhhhhh...eeeee.........hhhhhhhhhh.....eeeeeee.....hhhhh.hhhhhhhhh....eeeee...ee..ee.hhhhhhhhhhhhhhhhhhhhhh...eeeee................eeeee.........eeeeeeeee.......ee......eeeeeeeeee....eeeeeee....ee....eeeeeeeeeee......hhhhhhhhhhhhhhhhhhhhhhhhhh.......ee..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5fo0 A   1 MDIWYGTAAVPKDLDNSAVTIGVFDGVHRGHQKLINATVEKAREVGAKAIMVTFDPHPVSVFLPRRAPLGITTLAERFALAESFGIDGVLVIDFTRELSGTSPEKYVEFLLEDTLHASHVVVGANFTFGENAAGTADSLRQICQSRLTVDVIDLLDDEGVRISSTTVREFLSEGDVARANWALGRHFYVTGPVVRGAGRGGKELGFPTANQYFHDTVALPADGVYAGWLTILPTEAPVSGNMEPEVAYAAAISVGTNPEQRSVESFVLDRDADLYGHDVKVEFVDHVRAMEKFESVEQLLEVMAKDVQKTRTLLAQDVQAHKMAPETYFLQAES 338
                                    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       264       274       284       294       304       314       324       334    
                                                                                                                                                                                                                                                                                           258|                                                                           
                                                                                                                                                                                                                                                                                            263                                                                           


Chain B from PDB  Type:PROTEIN  Length:334
                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee.hhhh......eeeee......hhhhhhhhhhhhhhhhhhh.eeeeeee..hhhhhhh.........hhhhhhhhhhhh...eeeee.........hhhhhhhhhh.....eeeeeee.....hhhhh.hhhhhhhhh....eeeee..eee..eeehhhhhhhhhhhhhhhhhhhhhh..eeeeee................eeeee.........eeeeeeeee.......ee......eeeeeeeee.....eeeeeee....ee....eeeeeeeeeee......hhhhhhhhhhhhhhhhhhhhhhhhhh.......ee..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5fo0 B   1 MDIWYGTAAVPKDLDNSAVTIGVFDGVHRGHQKLINATVEKAREVGAKAIMVTFDPHPVSVFLPRRAPLGITTLAERFALAESFGIDGVLVIDFTRELSGTSPEKYVEFLLEDTLHASHVVVGANFTFGENAAGTADSLRQICQSRLTVDVIDLLDDEGVRISSTTVREFLSEGDVARANWALGRHFYVTGPVVRGAGRGGKELGFPTANQYFHDTVALPADGVYAGWLTILPTEAPVSGNMEPEVAYAAAISVGTNPEQRSVESFVLDRDADLYGHDVKVEFVDHVRAMEKFESVEQLLEVMAKDVQKTRTLLAQDVQAHKMAPETYFLQAES 338
                                    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       264       274       284       294       304       314       324       334    
                                                                                                                                                                                                                                                                                           258|                                                                           
                                                                                                                                                                                                                                                                                            263
   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 5FO0)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5FO0)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5FO0)

(-) Gene Ontology  (13, 13)

Asymmetric Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Asp A:55 - Pro A:56   [ RasMol ]  
    Asp B:55 - Pro B:56   [ RasMol ]  
    Glu B:263 - Gln B:264   [ RasMol ]  
 
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 Related Entries

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

UniProtKB/Swiss-Prot
        RIBF_CORAM | Q59263: 2x0k 3zug 4uze 4uzf 5a88 5a89 5a8a 5fnz 5fo1

(-) Related Entries Specified in the PDB File

5fnz F206W MUTANT OF FAD SYNTHETASE FROM CORYNEBACTERIUM AMMONIAGENES
5fo1 E301A MUTANT OF FAD SYNTHETASE FROM CORYNEBACTERIUM AMMONIAGENES