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(-) Description

Title :  CRYSTAL STRUCTURE OF HMG_COA SYNTHASE COMPLEXED WITH COA
 
Authors :  Y. H. Liu, T. M. Fu, X. Liu, X. D. Su
Date :  06 Jul 11  (Deposition) - 11 Jul 12  (Release) - 05 Feb 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.20
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Thiolase Fold, Hmg_coa Synthase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. H. Liu, T. M. Fu, X. Liu, X. D. Su
Crystal Structure Of Hmg-Coa Synthase From Streptococcus Mutans
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PUTATIVE HYDROXYMETHYLGLUTARYL-COA SYNTHASE
    Chains: A
    EC Number: 2.3.3.10
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: SMU_943C
    Organism Scientific: STREPTOCOCCUS MUTANS
    Organism Taxid: 1309
    Strain: UA159

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (1x): A
Biological Unit 2 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric Unit (3, 4)
No.NameCountTypeFull Name
1COA1Ligand/IonCOENZYME A
2CSD1Mod. Amino Acid3-SULFINOALANINE
3GOL2Ligand/IonGLYCEROL
Biological Unit 1 (3, 4)
No.NameCountTypeFull Name
1COA1Ligand/IonCOENZYME A
2CSD1Mod. Amino Acid3-SULFINOALANINE
3GOL2Ligand/IonGLYCEROL
Biological Unit 2 (3, 8)
No.NameCountTypeFull Name
1COA2Ligand/IonCOENZYME A
2CSD2Mod. Amino Acid3-SULFINOALANINE
3GOL4Ligand/IonGLYCEROL

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:10 , THR A:11 , SER A:12 , ARG A:332 , HOH A:397 , HOH A:518 , HOH A:592 , HOH A:662 , HOH A:680 , HOH A:729BINDING SITE FOR RESIDUE GOL A 392
2AC2SOFTWARELYS A:250 , VAL A:252 , PRO A:253 , SER A:254 , GLN A:257 , LEU A:379 , HOH A:744BINDING SITE FOR RESIDUE GOL A 393
3AC3SOFTWAREASP A:29 , GLN A:31 , LYS A:32 , GLY A:36 , TYR A:143 , PRO A:148 , GLY A:149 , SER A:151 , THR A:152 , PHE A:185 , GLY A:198 , SER A:201 , LYS A:218 , HIS A:233 , PHE A:236 , LYS A:238 , LEU A:239 , LYS A:242 , SER A:309 , HOH A:573 , HOH A:584 , HOH A:598 , HOH A:600 , HOH A:627 , HOH A:637BINDING SITE FOR RESIDUE COA A 601

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3SQZ)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Gly A:310 -Ala A:311

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3SQZ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3SQZ)

(-) Exons   (0, 0)

(no "Exon" information available for 3SQZ)

(-) 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:389
 aligned with Q8DUI5_STRMU | Q8DUI5 from UniProtKB/TrEMBL  Length:391

    Alignment length:389
                                                                                                                                          112                                                                                                                                                                                                                                                                                    
                                                                                                                                        111 |                                                                                                                                                                                                                                                                                    
                                    10        20        30        40        50        60        70        80        90       100       110| |    119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379         
         Q8DUI5_STRMU     1 MRIGIDKIGFTSSQYVLNMKDLAEARGEDPQKFSKGLLLNALSIAPITDDVVTLAAGSANEILTAEDKEKIDMVILATESSVDQSKAGAVYVHSLLGIQPFARSFEMKEAC-YSATAALNYAKLHVEKHPDTRVLVLASDIAKYGIGTPGESTQGAGSIAMLVKKDPRILILHDETLAQTRDIMDFWRPNYTTTPYVNGMYSTKQYLDMLKTTWAEYQKRFDVSLTDFAAFCFHLPFPKLALKGFNKIMDKQVPSDLQEKLKVNFEASILYSKQIGNIYTGSLFLGLLSLLENSQNLVAGDKIALFSYGSGAVAEIFTGTLVKGFKEQLQTNRLDKLKRRTPLSVENYEKIFFEEAQLDDKGNASFKEYQTGPFALKEILEHQRIYGKV 388
               SCOP domains d3sqza1 A:1-167 automated matches                                                                                                                                       d3sqza2 A:168-388 automated matches                                                                                                                                                                                           SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeee...eeeehhhhhhhhh.hhhhhhh.....eeee.....hhhhhhhhhhhh..hhhhhhheeeeeee.........hhhhhhhhhh......eeeee.....hhhhhhhhhhhhhhhhh...eeeeeeeeee.....hhhhhhheeeeeeeeeee....eee....eeee.....ee........eehhhhhhhhhhhhhhhhhhhhhhhhh.hhhhh.eeee...hhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.......eeeeeeee...eeeeeeeee..hhhhhh..hhhhhhhh.ee.hhhhhhhhhh..........ee........eeeeeee..eeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3sqz A   1 MRIGIDKIGFTSSQYVLNMKDLAEARGEDPQKFSKGLLLNALSIAPITDDVVTLAAGSANEILTAEDKEKIDMVILATESSVDQSKAGAVYVHSLLGIQPFARSFEMKEAcCYSATAALNYAKLHVEKHPDTRVLVLASDIAKYGIGTPGESTQGAGSIAMLVKKDPRILILHDETLAQTRDIMDFWRPNYTTTPYVNGMYSTKQYLDMLKTTWAEYQKRFDVSLTDFAAFCFHLPFPKLALKGFNKIMDKQVPSDLQEKLKVNFEASILYSKQIGNIYTGSLFLGLLSLLENSQNLVAGDKIALFSYGSGAVAEIFTGTLVKGFKEQLQTNRLDKLKRRTPLSVENYEKIFFEEAQLDDKGNASFKEYQTGPFALKEILEHQRIYGKV 388
                                    10        20        30        40        50        60        70        80        90       100       110|      119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379         
                                                                                                                                        111-CSD
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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  (1, 2)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3SQZ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3SQZ)

(-) Gene Ontology  (6, 6)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q8DUI5_STRMU | Q8DUI5)
molecular function
    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:0004421    hydroxymethylglutaryl-CoA synthase activity    Catalysis of the reaction: acetoacetyl-CoA + acetyl-CoA + H(2)O = (S)-3-hydroxy-3-methylglutaryl-CoA + CoA + H(+).
    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.
    GO:0016746    transferase activity, transferring acyl groups    Catalysis of the transfer of an acyl group from one compound (donor) to another (acceptor).
biological process
    GO:0008299    isoprenoid biosynthetic process    The chemical reactions and pathways resulting in the formation of any isoprenoid compound, isoprene (2-methylbuta-1,3-diene) or compounds containing or derived from linked isoprene (3-methyl-2-butenylene) residues.
    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.

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3leh APO ENZYME