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(-) Description

Title :  CRYSTAL STRUCTURE OF ACC SYNTHASE COMPLEXED WITH COFACTOR PLP AND INHIBITOR AVG
 
Authors :  Q. Huai, Y. Xia, Y. Chen, B. Callahan, N. Li, H. Ke
Date :  24 Mar 01  (Deposition) - 04 Apr 01  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Protein-Cofactor-Inhibitor Complex, V6-Dependent Enzyme, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  Q. Huai, Y. Xia, Y. Chen, B. Callahan, N. Li, H. Ke
Crystal Structures Of 1-Aminocyclopropane-1-Carboxylate (Acc) Synthase In Complex With Aminoethoxyvinylglycine And Pyridoxal-5'-Phosphate Provide New Insight Into Catalytic Mechanisms
J. Biol. Chem. V. 276 38210 2001
PubMed-ID: 11431475  |  Reference-DOI: 10.1074/JBC.M008127200

(-) Compounds

Molecule 1 - 1-AMINOCYCLOPROPANE-1-CARBOXYLATE SYNTHASE 2
    ChainsA
    EC Number4.4.1.14
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21
    Expression System PlasmidPET11D
    Expression System StrainBL21
    Expression System Taxid511693
    Expression System Vector TypePLASMID
    FragmentRESIDUES 11-438
    Organism ScientificSOLANUM LYCOPERSICUM
    Organism Taxid4081
    SynonymACC SYNTHASE 2

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 2)
No.NameCountTypeFull Name
1AVG1Ligand/Ion2-AMINO-4-(2-AMINO-ETHOXY)-BUTYRIC ACID
2PLP1Ligand/IonPYRIDOXAL-5'-PHOSPHATE
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1AVG2Ligand/Ion2-AMINO-4-(2-AMINO-ETHOXY)-BUTYRIC ACID
2PLP2Ligand/IonPYRIDOXAL-5'-PHOSPHATE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:126 , ALA A:127 , THR A:128 , TYR A:152 , ASN A:209 , ASP A:237 , ILE A:239 , TYR A:240 , SER A:275 , SER A:277 , LYS A:278 , ARG A:286BINDING SITE FOR RESIDUE PLP A 500
2AC2SOFTWARELEU A:53 , ALA A:54 , TYR A:152 , ALA A:154 , LYS A:278 , ARG A:412 , HOH A:503BINDING SITE FOR RESIDUE AVG A 501

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1IAY)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Ser A:149 -Pro A:150
2Asn A:206 -Pro A:207
3Asn A:209 -Pro A:210
4Thr A:247 -Pro A:248

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1IAY)

(-) PROSITE Motifs  (1, 1)

Asymmetric Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1AA_TRANSFER_CLASS_1PS00105 Aminotransferases class-I pyridoxal-phosphate attachment site.1A12_SOLLC275-288  1A:275-288
Biological Unit 1 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1AA_TRANSFER_CLASS_1PS00105 Aminotransferases class-I pyridoxal-phosphate attachment site.1A12_SOLLC275-288  2A:275-288

(-) Exons   (0, 0)

(no "Exon" information available for 1IAY)

(-) 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:419
 aligned with 1A12_SOLLC | P18485 from UniProtKB/Swiss-Prot  Length:485

    Alignment length:428
                                    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       310       320       330       340       350       360       370       380       390       400       410       420       430        
           1A12_SOLLC    11 ILSKLATNEEHGENSPYFDGWKAYDSDPFHPLKNPNGVIQMGLAENQLCLDLIEDWIKRNPKGSICSEGIKSFKAIANFQDYHGLPEFRKAIAKFMEKTRGGRVRFDPERVVMAGGATGANETIIFCLADPGDAFLVPSPYYPAFNRDLRWRTGVQLIPIHCESSNNFKITSKAVKEAYENAQKSNIKVKGLILTNPSNPLGTTLDKDTLKSVLSFTNQHNIHLVCDEIYAATVFDTPQFVSIAEILDEQEMTYCNKDLVHIVYSLSKDMGLPGFRVGIIYSFNDDVVNCARKMSSFGLVSTQTQYFLAAMLSDEKFVDNFLRESAMRLGKRHKHFTNGLEVVGIKCLKNNAGLFCWMDLRPLLRESTFDSEMSLWRVIINDVKLNVSPGSSFECQEPGWFRVCFANMDDGTVDIALARIRRFVGVEK 438
               SCOP domains d1iaya_ A     : 1-aminocyclopropane-1-carboxylate synthase (ACC syn    thase)                                                                                                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains 1iayA01 A     :11-70,A:325-434                              1iayA02     A:71-324 Type I PLP-dependent aspartate aminotransferase-like (Major domain)                                                                                                                                                                      1iayA01 A:11-70,A:325-434 Aspartate Aminotransferase, domain 1                                                ---- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhh-----...hhhhhhhhhh...........ee........hhhhhhhhhhhh.......----hhhhhhhh.....hhhhhhhhhhhhhhhh...........eeeehhhhhhhhhhhhhh....eeeee.....hhhhhh......eeeee..........hhhhhhhhhhhhhhh...eeeeeee..........hhhhhhhhhhhhhh...eeeee..hhhhh.......hhhhhhhhhhhh......eeeeee......hhhh.eeeeee.hhhhhhhhhhhhh....hhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...........eeeee.hhhh...hhhhhhhhhhhhhhh..ee.ee.hhhh.....eeeee....hhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AA_TRANSFER_CL------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1iay A  11 ILSKLATNE-----SPYFDGWKAYDSDPFHPLKNPNGVIQMGLAENQLCLDLIEDWIKRNPKGSICS----SFKAIANFQDYHGLPEFRKAIAKFMEKTRGGRVRFDPERVVMAGGATGANETIIFCLADPGDAFLVPSPYYPAFNRDLRWRTGVQLIPIHCESSNNFKITSKAVKEAYENAQKSNIKVKGLILTNPSNPLGTTLDKDTLKSVLSFTNQHNIHLVCDEIYAATVFDTPQFVSIAEILDEQEMTYCNKDLVHIVYSLSKDMGLPGFRVGIIYSFNDDVVNCARKMSSFGLVSTQTQYFLAAMLSDEKFVDNFLRESAMRLGKRHKHFTNGLEVVGIKCLKNNAGLFCWMDLRPLLRESTFDSEMSLWRVIINDVKLNVSPGSSFECQEPGWFRVCFANMDDGTVDIALARIRRFVGVEK 438
                                    |-    |   30        40        50        60        70      |  - |      90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430        
                                   19    25                                                  77   82                                                                                                                                                                                                                                                                                                                                                                    

   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  (1, 1)

Asymmetric Unit

(-) CATH Domains  (2, 2)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1IAY)

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)
Chain A   (1A12_SOLLC | P18485)
molecular function
    GO:0016847    1-aminocyclopropane-1-carboxylate synthase activity    Catalysis of the reaction: S-adenosyl-L-methionine(1+) = 1-aminocyclopropane-1-carboxylate + S-methyl-5'-thioadenosine + H(+).
    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:0016829    lyase activity    Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
    GO:0030170    pyridoxal phosphate binding    Interacting selectively and non-covalently with pyridoxal 5' phosphate, 3-hydroxy-5-(hydroxymethyl)-2-methyl4-pyridine carboxaldehyde 5' phosphate, the biologically active form of vitamin B6.
biological process
    GO:0042218    1-aminocyclopropane-1-carboxylate biosynthetic process    The chemical reactions and pathways resulting in the formation of 1-aminocyclopropane-1-carboxylate, a natural product found in plant tissues. It is a key intermediate in the biosynthesis of ethylene (ethene), a fruit-ripening hormone in plants.
    GO:0009058    biosynthetic process    The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.
    GO:0009693    ethylene biosynthetic process    The chemical reactions and pathways resulting in the formation of ethylene (C2-H4, ethene), a simple hydrocarbon gas that can function in plants as a growth regulator.
    GO:0009835    fruit ripening    An aging process that has as participant a fruit. Ripening causes changes in one or more characteristics of a fruit (color, aroma, flavor, texture, hardness, cell wall structure) and may make it more attractive to animals and aid in seed dispersal.

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 Related Entries

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        1A12_SOLLC | P184851iax

(-) Related Entries Specified in the PDB File

1iax CRYSTAL STRUCTURE OF ACC SYNTHASE COMPLEXED WITH PLP