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(-) Description

Title :  CRYSTAL STRUCTURE OF OXIDIZED SHEWANELLA YELLOW ENZYME 4 (SYE4) IN COMPLEX WITH P-HYDROXYBENZALDEHYDE
 
Authors :  J. Elegheert, A. Brige, S. -N. Savvides
Date :  18 May 16  (Deposition) - 07 Jun 17  (Release) - 07 Jun 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.30
Chains :  Asym./Biol. Unit :  A
Keywords :  Oxidoreductase, Cofactor-Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Elegheert, S. -N. Savvides
Structural Basis For The Substrate Promiscuity Of The Old Yellow Enzyme Homologue Sye4 From Shewanella Oneidensis
To Be Published
PubMed: search

(-) Compounds

Molecule 1
    Chains: A
    EC Number: 1.5.1.30, 1.6.99.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PACYC-DUET
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: SYE4, SO_3392
    Organism Scientific: SHEWANELLA ONEIDENSIS MR-1
    Organism Taxid: 211586
    Synonym: SHEWANELLA YELLOW ENZYME 4

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 7)

Asymmetric/Biological Unit (3, 7)
No.NameCountTypeFull Name
18K61Ligand/IonOCTADECANE
2FMN1Ligand/IonFLAVIN MONONUCLEOTIDE
3HBA5Ligand/IonP-HYDROXYBENZALDEHYDE

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:32 , PRO A:33 , LEU A:34 , THR A:35 , ALA A:66 , GLN A:108 , HIS A:182 , ASN A:185 , ARG A:234 , ILE A:272 , PHE A:273 , VAL A:301 , SER A:303 , GLY A:324 , ARG A:325 , LEU A:351 , HBA A:403 , 8K6 A:407 , HOH A:633 , HOH A:648 , HOH A:663 , HOH A:758binding site for residue FMN A 401
2AC2SOFTWAREASP A:40 , ASN A:42 , VAL A:44 , ARG A:140 , HOH A:537binding site for residue HBA A 402
3AC3SOFTWARETHR A:35 , HIS A:182 , ASN A:185 , TYR A:187 , PHE A:241 , FMN A:401 , 8K6 A:407binding site for residue HBA A 403
4AC4SOFTWAREGLU A:58 , VAL A:171 , PHE A:176 , GLY A:178 , ILE A:226 , ARG A:230 , ARG A:338 , HOH A:735binding site for residue HBA A 404
5AC5SOFTWAREARG A:70 , PRO A:71 , PHE A:83 , THR A:201 , HOH A:504 , HOH A:574 , HOH A:961binding site for residue HBA A 405
6AC6SOFTWAREVAL A:154 , GLU A:203 , GLU A:349 , SER A:353 , HOH A:751binding site for residue HBA A 406
7AC7SOFTWAREMET A:38 , ALA A:39 , ASP A:40 , ALA A:41 , ASN A:42 , ASN A:78 , ARG A:140 , TYR A:240 , PHE A:241 , PHE A:279 , ASP A:348 , FMN A:401 , HBA A:403 , HOH A:832binding site for residue 8K6 A 407

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5K1K)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5K1K)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5K1K)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5K1K)

(-) Exons   (0, 0)

(no "Exon" information available for 5K1K)

(-) 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:347
                                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhh.ee.....ee...eee..............hhhhhhhhhh.....eeeeeeee.hhhhh.........hhhhhhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhh....ee.....................ee.hhhhhhhhhhhhhhhhhhhhhh...eeeeee...hhhhhhhh............hhhhhhhhhhhhhhhhhhhhh...eeeee............hhhhhhhhhhhhhhhh...eeee.......eehhhheehhhhhhhhh...eee....hhhhhhhhhhh....eeeehhhhhhh.hhhhhhhh.......hhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5k1k A   9 SVENLFDTYKLNDTITLKNRILMAPLTRCMADANLVPTDDMVAYYARRAEAGLIISEATIIRPDAQGYPNTPGIFTQAQIAGWRKVTDAVHANGGKIFVQLWHTGRVAHPHFFGGGDVLAPSAQKIEGSVPRMRELTYVTPKAVTVEDIQGLVRDYAKAAENVIEAGFDGVEIHGANGYLIDQFLHHDSNRRTDEYGGTPVNMSRFALEVVDAIIARIGHDRTGLRISPGAYFNMASDSRDRVVFDYLLPELEKRDLAFVHIGIFDDSIEFDYLGGTASSYVRAHYGKTLVGVGSYSAETASKAIAEDKFDLIAIGRPFIANPDYVAKVRNSEELVAYSDEMLASLI 355
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348
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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 5K1K)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5K1K)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5K1K)

(-) Gene Ontology  (8, 8)

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
        Q8EBV3_SHEON | Q8EBV3: 5k0r 5k1m 5k1q 5k1u 5k1w
UniProtKB/TrEMBL
        Q8EBV3_SHEON | Q8EBV3: 4b5n

(-) Related Entries Specified in the PDB File

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