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(-) Description

Title :  CRYSTAL STRUCTURE OF THE WILD-TYPE STAPHYLOCOCCUS AUREUS N-ACETYLNEURMINIC ACID LYASE IN COMPLEX WITH FLUOROPYRUVATE
 
Authors :  J. Stockwell, A. D. Daniels, C. L. Windle, T. Harman, T. Woodhall, C. H. T T. Lebel, A. R. Pearson, K. Mulholland, A. Berry, A. Nelson
Date :  15 Jul 15  (Deposition) - 18 Nov 15  (Release) - 13 Jan 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.72
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Stockwell, A. D. Daniels, C. L. Windle, T. A. Harman, T. Woodhall, T. Lebl, C. H. Trinh, K. Mulholland, A. R. Pearson, A. Berry, A. Nelson
Evaluation Of Fluoropyruvate As Nucleophile In Reactions Catalysed By N-Acetyl Neuraminic Acid Lyase Variants: Scope, Limitations And Stereoselectivity.
Org. Biomol. Chem. V. 14 105 2016
PubMed-ID: 26537532  |  Reference-DOI: 10.1039/C5OB02037A

(-) Compounds

Molecule 1 - N-ACETYLNEURAMINATE LYASE
    Atcc: NCTC 8325-4
    Chains: A, B
    EC Number: 4.1.3.3
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PKK223-3
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Organism Scientific: STAPHYLOCOCCUS AUREUS SUBSP. AUREUS NCTC 8325
    Organism Taxid: 93061
    Other Details: SCHIFF BASE BETWEEN K165 AND FLUOROPYRUVATE
    Other Details - Source: STANDARD LABORATORY STRAIN
    Synonym: N-ACETYLNEURAMINIC ACID LYASE, NAL, NEU5AC LYASE, N-ACETYLNEURAMINATE PYRUVATE-LYASE, N-ACETYLNEURAMINIC ACID ALDOLASE, SIALATE LYASE, SIALIC ACID ALDOLASE, SIALIC ACID LYASE

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1KPF2Mod. Amino AcidN-(1-CARBOXY-2-FLUORO-ETHENYL) LYSINE
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1KPF4Mod. Amino AcidN-(1-CARBOXY-2-FLUORO-ETHENYL) LYSINE

(-) Sites  (0, 0)

(no "Site" information available for 5A8G)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5A8G)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Arg A:271 -Pro A:272
2Arg B:271 -Pro B:272

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5A8G)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5A8G)

(-) Exons   (0, 0)

(no "Exon" information available for 5A8G)

(-) 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:291
                                                                                                                                                                                                                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee...........hhhhhhhhhhhhhhh....eeee.hhhhhhhhhhhhhhhhhhhhhhhh.....eeeee....hhhhhhhhhhhhhhhh..eeeee.......hhhhhhhhhhhhhhhhh..eeee.hhhhhh...hhhhhhhhhh...eeee.....hhhhhhhhhhhh...eeee.hhhhhhhhhhh...eeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5a8g A   3 KDLKGLYAALLVPFDENGQVNEQGLKQIAQNAIETEELDGLYVNGSSGENFLLNTEQKKQVFKVAKEAVGDKVKLIAQVGSLDLNEAIELGKYATELGYDALSAVTPFYYPFTFEEIRDYYFDIIEATQNNMIIYAIPDLTGVNISIEQFSELFNHEKIVGVkYTAPNFFLLERIRKAFPDKLILSGFDEMLVQATISGVDGAIGSTYNVNGRRARKIFDLARQGQIQEAYQLQHDSNDIIETVLSMGIYPTLKEILRHRGIDAGLPKRPFKPFNEAHRQTLDQLIAKYDL 293
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162  |    172       182       192       202       212       222       232       242       252       262       272       282       292 
                                                                                                                                                                                            165-KPF                                                                                                                            


Chain B from PDB  Type:PROTEIN  Length:291
                                                                                                                                                                                                                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee...........hhhhhhhhhhhhhhh....eeee.hhhhhhhhhhhhhhhhhhhhhhhhh....eeeee....hhhhhhhhhhhhhhhh..eeeee.......hhhhhhhhhhhhhhhhh..eeee.hhhhhh...hhhhhhhhhh...eeee.....hhhhhhhhhhhh...eeee.hhhhhhhhhhh...eeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5a8g B   3 KDLKGLYAALLVPFDENGQVNEQGLKQIAQNAIETEELDGLYVNGSSGENFLLNTEQKKQVFKVAKEAVGDKVKLIAQVGSLDLNEAIELGKYATELGYDALSAVTPFYYPFTFEEIRDYYFDIIEATQNNMIIYAIPDLTGVNISIEQFSELFNHEKIVGVkYTAPNFFLLERIRKAFPDKLILSGFDEMLVQATISGVDGAIGSTYNVNGRRARKIFDLARQGQIQEAYQLQHDSNDIIETVLSMGIYPTLKEILRHRGIDAGLPKRPFKPFNEAHRQTLDQLIAKYDL 293
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162  |    172       182       192       202       212       222       232       242       252       262       272       282       292 
                                                                                                                                                                                            165-KPF
   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 5A8G)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5A8G)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5A8G)

(-) Gene Ontology  (7, 7)

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  Cis Peptide Bonds
    Arg A:271 - Pro A:272   [ RasMol ]  
    Arg B:271 - Pro B:272   [ RasMol ]  
 
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 Related Entries

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UniProtKB/Swiss-Prot
        NANA_STAA8 | Q2G160: 4ah7 4aho 4ahp 4ahq 4ama 5kzd 5kze 5lky

(-) Related Entries Specified in the PDB File

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