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(-) Description

Title :  CRYSTAL STRUCTURE OF WILD TYPE ESCHERICHIA COLI ADENYLOSUCCINATE LYASE
 
Authors :  M. Tsai, P. L. Howell
Date :  08 May 07  (Deposition) - 03 Jul 07  (Release) - 16 Nov 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (4x)
Keywords :  Adenylosuccinate Lyase, Wild-Type-Selenomethionine Substituted, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. Tsai, J. Koo, P. Yip, R. F. Colman, M. L. Segall, P. L. Howell
Substrate And Product Complexes Of Escherichia Coli Adenylosuccinate Lyase Provide New Insights Into The Enzymatic Mechanism.
J. Mol. Biol. V. 370 541 2007
PubMed-ID: 17531264  |  Reference-DOI: 10.1016/J.JMB.2007.04.052

(-) Compounds

Molecule 1 - ADENYLOSUCCINATE LYASE
    ChainsA
    EC Number4.3.2.2
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET-28A
    Expression System StrainB834 (DE3)
    Expression System Taxid562
    Expression System Vector TypePLASMID
    GenePURB
    Organism ScientificESCHERICHIA COLI
    Organism Taxid562
    SynonymADENYLOSUCCINATE, ASL

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit A
Biological Unit 1 (4x)A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 9)

Asymmetric Unit (1, 9)
No.NameCountTypeFull Name
1MSE9Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 36)
No.NameCountTypeFull Name
1MSE36Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 2PTS)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2PTS)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2PTS)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2PTS)

(-) PROSITE Motifs  (1, 1)

Asymmetric Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1FUMARATE_LYASESPS00163 Fumarate lyases signature.PUR8_ECOLI294-303  1A:298-303
Biological Unit 1 (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1FUMARATE_LYASESPS00163 Fumarate lyases signature.PUR8_ECOLI294-303  4A:298-303

(-) Exons   (0, 0)

(no "Exon" information available for 2PTS)

(-) 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:447
 aligned with PUR8_ECOLI | P0AB89 from UniProtKB/Swiss-Prot  Length:456

    Alignment length:458
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 456  
                                    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       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450     |  
           PUR8_ECOLI     1 MELSSLTAVSPVDGRYGDKVSALRGIFSEYGLLKFRVQVEVRWLQKLAAHAAIKEVPAFAADAIGYLDAIVASFSEEDAARIKTIERTTNHDVKAVEYFLKEKVAEIPELHAVSEFIHFACTSEDINNLSHALMLKTARDEVILPYWRQLIDGIKDLAVQYRDIPLLSRTHGQPATPSTIGKEMANVAYRMERQYRQLNQVEILGKINGAVGNYNAHIAAYPEVDWHQFSEEFVTSLGIQWNPYTTQIEPHDYIAELFDCVARFNTILIDFDRDVWGYIALNHFKQKTIAGEIGSSTMPHKVNPIDFENSEGNLGLSNAVLQHLASKLPVSRWQRDLTDSTVLRNLGVGIGYALIAYQSTLKGVSKLEVNRDHLLDELDHNWEVLAEPIQTVMRRYGIEKPYEKLKELTRGKRVDAEGMKQFIDGLALPEEEKARLKAMTPANYIGRAITMVDELK--   -
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -2ptsA01 A:2-117 Fumarase/aspartase (N-terminal domain)                                                              2ptsA02 A:118-381,A:446-458 Fumarase/aspartase (Central domain)                                                                                                                                                                                                         2ptsA03 A:382-445 Fumarase/a   spartase (C-terminal domain)     2ptsA02       CATH domains
               Pfam domains -------------Lyase_1-2ptsA02 A:14-320                                                                                                                                                                                                                                                                                           ----------ASL_C-2ptsA01 A:331-445                                                                                            ------------- Pfam domains
         Sec.struct. author ...............hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeee..eeeeeeehhhhhhhhhhhhhhhhhhhhhh..ee........hhhhhhhh...hhhhhhhhhhhhh..ee.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eee...--------......hhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhh.hhhhhhhhhhhhhhhhhhhhh.eeehhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhh---..hhhhhhhhhhh...hhhhhhhhhh........hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------FUMARATE_L----------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2pts A   1 mELSSLTAVSPVDGRYGDKVSALRGIFSEYGLLKFRVQVEVRWLQKLAAHAAIKEVPAFAADAIGYLDAIVASFSEEDAARIKTIERTTNHDVKAVEYFLKEKVAEIPELHAVSEFIHFACTSEDINNLSHALmLKTARDEVILPYWRQLIDGLKDLAVQYRDIPLLSRTHGQPATPSTIGKEmANVAYRmERQYRQLNQVEILGKINGAVGNYNAHIAAYPEVDWHQFSEEFVTSLGIQWNPYTTQIEPHDYIAELFDCVARFNTILIDFDRDVWGYIALNHFKQKTI--------mPHKVNPIDFENSEGNLGLSNAVLQHLASKLPVSRWQRDLTDSTVLRNLGVGIGYALIAYQSTLKGVSKLEVNRDHLLDELDHNWEVLAEPIQTVmRRYGIEKPYEKLKELT---RVDAEGmKQFIDGLALPEEEKARLKAmTPANYIGRAITmVDELKHH 458
                            |       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       260       270       280        |-       300       310       320       330       340       350       360       370       380       390  |    400        |-  |    420       430       440       450|       
                            |                                                                                                                                  134-MSE                                           184-MSE  |                                                                                               289      298-MSE                                                                                        393-MSE         409 413     |                 439-MSE     451-MSE   
                            1-MSE                                                                                                                                                                                       191-MSE                                                                                                                                                                                                                             419-MSE                                   

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  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 2PTS)

(-) CATH Domains  (3, 3)

Asymmetric Unit

(-) Pfam Domains  (2, 2)

Asymmetric Unit

(-) Gene Ontology  (13, 13)

Asymmetric Unit(hide GO term definitions)
Chain A   (PUR8_ECOLI | P0AB89)
molecular function
    GO:0070626    (S)-2-(5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxamido)succinate AMP-lyase (fumarate-forming) activity    Catalysis of the reaction: (S)-2-(5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxamido)succinate = fumarate + 5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxamide.
    GO:0004018    N6-(1,2-dicarboxyethyl)AMP AMP-lyase (fumarate-forming) activity    Catalysis of the reaction: N6-(1,2-dicarboxyethyl)AMP = fumarate + AMP.
    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.
biological process
    GO:0044208    'de novo' AMP biosynthetic process    The chemical reactions and pathways resulting in the formation of adenosine monophosphate (AMP) from inosine 5'-monophosphate (IMP).
    GO:0006189    'de novo' IMP biosynthetic process    The chemical reactions and pathways resulting in the formation of IMP, inosine monophosphate, by the stepwise assembly of a purine ring on ribose 5-phosphate.
    GO:0006188    IMP biosynthetic process    The chemical reactions and pathways resulting in the formation of IMP, inosine monophosphate.
    GO:0006974    cellular response to DNA damage stimulus    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating damage to its DNA from environmental insults or errors during metabolism.
    GO:0051262    protein tetramerization    The formation of a protein tetramer, a macromolecular structure consisting of four noncovalently associated identical or nonidentical subunits.
    GO:0006164    purine nucleotide biosynthetic process    The chemical reactions and pathways resulting in the formation of a purine nucleotide, a compound consisting of nucleoside (a purine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.
    GO:0006163    purine nucleotide metabolic process    The chemical reactions and pathways involving a purine nucleotide, a compound consisting of nucleoside (a purine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.
    GO:0009152    purine ribonucleotide biosynthetic process    The chemical reactions and pathways resulting in the formation of a purine ribonucleotide, a compound consisting of ribonucleoside (a purine base linked to a ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.
cellular component
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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 Related Entries

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

UniProtKB/Swiss-Prot
        PUR8_ECOLI | P0AB892ptq 2ptr

(-) Related Entries Specified in the PDB File

2ptq MUTANT (H171N) OF THE SAME PROTEIN COMPLEXED WITH PRODUCTS AMP AND FUMARATE.
2ptr MUTANT (H171A) OF THE SAME PROTEIN COMPLEXED WITH SUBSTRATE ADENYLOSUCCINATE.