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(-) Description

Title :  STRUCTURE OF THE MUTANT (R303L) OF ADENYLOSUCCINATE SYNTHETASE FROM E. COLI COMPLEXED WITH, GDP, 6-PHOSPHORYL-IMP, AND MG2+
 
Authors :  J. Y. Choe, B. W. Poland, H. Fromm, R. Honzatko
Date :  26 Mar 99  (Deposition) - 17 Jun 99  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Ligase, Gtp-Hydrolysing Enzymes, Purine 2 Nucleotide Biosynthesis, 6- Phosporyl-Imp (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. Y. Choe, B. W. Poland, H. J. Fromm, R. B. Honzatko
Mechanistic Implications From Crystalline Complexes Of Wild-Type And Mutant Adenylosuccinate Synthetases From Escherichia Coli.
Biochemistry V. 38 6953 1999
PubMed-ID: 10346917  |  Reference-DOI: 10.1021/BI990159S

(-) Compounds

Molecule 1 - PROTEIN (ADENYLOSUCCINATE SYNTHETASE)
    ChainsA
    EC Number6.3.4.4
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPTRC99A
    Expression System StrainPUR A- STRAIN H1238
    Expression System Taxid562
    MutationYES
    Organism ScientificESCHERICHIA COLI K12
    Organism Taxid83333
    StrainK-12
    SynonymAMPSASE

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (3, 3)
No.NameCountTypeFull Name
1GDP1Ligand/IonGUANOSINE-5'-DIPHOSPHATE
2IMO1Ligand/Ion6-O-PHOSPHORYL INOSINE MONOPHOSPHATE
3MG1Ligand/IonMAGNESIUM ION
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1GDP2Ligand/IonGUANOSINE-5'-DIPHOSPHATE
2IMO2Ligand/Ion6-O-PHOSPHORYL INOSINE MONOPHOSPHATE
3MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:13 , GLY A:40 , GDP A:432 , IMO A:440 , HOH A:490BINDING SITE FOR RESIDUE MG A 435
2AC2SOFTWARETRP A:11 , GLY A:12 , ASP A:13 , LYS A:16 , ASN A:38 , ALA A:39 , GLY A:40 , GLY A:127 , THR A:128 , THR A:129 , ARG A:143 , ALA A:223 , GLN A:224 , VAL A:238 , THR A:239 , VAL A:273 , GLY A:274 , GDP A:432 , MG A:435 , HOH A:495 , HOH A:522 , HOH A:527 , HOH A:543 , HOH A:596 , HOH A:604BINDING SITE FOR RESIDUE IMO A 440
3AC3SOFTWAREASP A:13 , GLU A:14 , GLY A:15 , LYS A:16 , GLY A:17 , GLY A:40 , HIS A:41 , THR A:42 , LYS A:331 , ASP A:333 , SER A:414 , THR A:415 , GLY A:416 , PRO A:417 , MG A:435 , IMO A:440 , HOH A:442 , HOH A:499 , HOH A:550BINDING SITE FOR RESIDUE GDP A 432

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1CG4)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Tyr A:235 -Pro A:236

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1CG4)

(-) PROSITE Motifs  (2, 2)

Asymmetric Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ADENYLOSUCCIN_SYN_1PS01266 Adenylosuccinate synthetase GTP-binding site.PURA_ECOLI11-18  1A:10-17
2ADENYLOSUCCIN_SYN_2PS00513 Adenylosuccinate synthetase active site.PURA_ECOLI133-144  1A:132-143
Biological Unit 1 (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ADENYLOSUCCIN_SYN_1PS01266 Adenylosuccinate synthetase GTP-binding site.PURA_ECOLI11-18  2A:10-17
2ADENYLOSUCCIN_SYN_2PS00513 Adenylosuccinate synthetase active site.PURA_ECOLI133-144  2A:132-143

(-) Exons   (0, 0)

(no "Exon" information available for 1CG4)

(-) 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:431
 aligned with PURA_ECOLI | P0A7D4 from UniProtKB/Swiss-Prot  Length:432

    Alignment length:431
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431 
           PURA_ECOLI     2 GNNVVVLGTQWGDEGKGKIVDLLTERAKYVVRYQGGHNAGHTLVINGEKTVLHLIPSGILRENVTSIIGNGVVLSPAALMKEMKELEDRGIPVRERLLLSEACPLILDYHVALDNAREKARGAKAIGTTGRGIGPAYEDKVARRGLRVGDLFDKETFAEKLKEVMEYHNFQLVNYYKAEAVDYQKVLDDTMAVADILTSMVVDVSDLLDQARQRGDFVMFEGAQGTLLDIDHGTYPYVTSSNTTAGGVATGSGLGPRYVDYVLGILKAYSTRVGAGPFPTELFDETGEFLCKQGNEFGATTGRRRRTGWLDTVAVRRAVQLNSLSGFCLTKLDVLDGLKEVKLCVAYRMPDGREVTTTPLAADDWKGVEPIYETMPGWSESTFGVKDRSGLPQAALNYIKRIEELTGVPIDIISTGPDRTETMILRDPFDA 432
               SCOP domains d1cg4a_ A: Adenylosuccinate synthetase, PurA                                                                                                                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains 1cg4A01 A:1-100,A:201-265 Adenylosuccinate Synthetase, subunit A, domain 1                          1cg4A02 A:101-200 Adenylosuccinate Synthetase, subunit A, domain 2                                  1cg4A01 A:1-100,A:201-265                                        1cg4A03 A:266-431 Adenylosuccinate Synthetase, subunit A, domain 3                                                                                                     CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee.......hhhhhhhhhhh..eeee........eeeee..eeeee............eeee.......hhhhhhhhhhhhh....hhhheee........hhhhhhhhhhhhhhhhh........hhhhhhhhh......hhhhh.hhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhh...hhhhhhhhhhh...eeee....hhh................hhhhhhhh...hhh..eeeeee..eeee............hhhhhhhhhh...........eeee..hhhhhhhhhhh...eeee..hhh.....eeeeeeeee.............hhhh...eeeeeeee...........hhh..hhhhhhhhhhhhhh...eeeee.......eee....... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------ADENYLOS------------------------------------------------------------------------------------------------------------------ADENYLOSUCCI------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1cg4 A   1 GNNVVVLGTQWGDEGKGKIVDLLTERAKYVVRYQGGHNAGHTLVINGEKTVLHLIPSGILRENVTSIIGNGVVLSPAALMKEMKELEDRGIPVRERLLLSEACPLILDYHVALDNAREKARGAKAIGTTGRGIGPAYEDKVARRGLRVGDLFDKETFAEKLKEVMEYHNFQLVNYYKAEAVDYQKVLDDTMAVADILTSMVVDVSDLLDQARQRGDFVMFEGAQGTLLDIDHGTYPYVTSSNTTAGGVATGSGLGPRYVDYVLGILKAYSTRVGAGPFPTELFDETGEFLCKQGNEFGATTGLRRRTGWLDTVAVRRAVQLNSLSGFCLTKLDVLDGLKEVKLCVAYRMPDGREVTTTPLAADDWKGVEPIYETMPGWSESTFGVKDRSGLPQAALNYIKRIEELTGVPIDIISTGPDRTETMILRDPFDA 431
                                    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 

   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  (3, 3)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1CG4)

(-) Gene Ontology  (16, 16)

Asymmetric Unit(hide GO term definitions)
Chain A   (PURA_ECOLI | P0A7D4)
molecular function
    GO:0005525    GTP binding    Interacting selectively and non-covalently with GTP, guanosine triphosphate.
    GO:0004019    adenylosuccinate synthase activity    Catalysis of the reaction: L-aspartate + GTP + IMP = N(6)-(1,2-dicarboxyethyl)-AMP + GDP + 3 H(+) + phosphate.
    GO:0016874    ligase activity    Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
    GO:0000287    magnesium ion binding    Interacting selectively and non-covalently with magnesium (Mg) ions.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
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:0046040    IMP metabolic process    The chemical reactions and pathways involving IMP, inosine monophosphate.
    GO:0046086    adenosine biosynthetic process    The chemical reactions and pathways resulting in the formation of adenosine, adenine riboside, a ribonucleoside found widely distributed in cells of every type as the free nucleoside and in combination in nucleic acids and various nucleoside coenzymes.
    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:0015949    nucleobase-containing small molecule interconversion    The chemical reactions and pathways by which a nucleobase, nucleoside or nucleotide small molecule is synthesized from another nucleobase, nucleoside or nucleotide small molecule.
    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.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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 Related Entries

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

UniProtKB/Swiss-Prot
        PURA_ECOLI | P0A7D41ade 1adi 1cg0 1cg1 1cg3 1ch8 1cib 1gim 1gin 1hon 1hoo 1hop 1juy 1kjx 1kkb 1kkf 1ksz 1nht 1qf4 1qf5 1son 1soo 2gcq

(-) Related Entries Specified in the PDB File

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