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(-) Description

Title :  CRYSTAL STRUCTURE OF ASPARTATE SEMIALDEHYDE DEHYDROGENASE WITH NADP FROM CANDIDA ALBICANS
 
Authors :  B. T. Arachea, A. Pavlovsky, X. Liu, R. E. Viola
Date :  10 Jun 09  (Deposition) - 02 Feb 10  (Release) - 27 Mar 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  A,B  (2x)
Keywords :  Aspartate Semialdehyde Dehydrogenase, Candida Albicans Nadp Complex, Amino-Acid Biosynthesis, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. T. Arachea, X. Liu, A. G. Pavlovsky, R. E. Viola
Expansion Of The Aspartate Beta-Semialdehyde Dehydrogenase Family: The First Structure Of A Fungal Ortholog.
Acta Crystallogr. , Sect. D V. 66 205 2010
PubMed-ID: 20124701  |  Reference-DOI: 10.1107/S0907444909052834

(-) Compounds

Molecule 1 - ASPARTATE-SEMIALDEHYDE DEHYDROGENASE
    Chains: A, B
    EC Number: 1.2.1.11
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: CAO19.1559, CAO19.9132, HOM2
    Organism Common: YEAST
    Organism Scientific: CANDIDA ALBICANS
    Organism Taxid: 5476

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
1NAP1Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1NAP1Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1NAP2Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:10 , THR A:12 , GLY A:13 , SER A:14 , ALA A:36 , SER A:37 , SER A:40 , GLY A:84 , LEU A:85 , ASP A:86 , VAL A:89 , GLY A:194BINDING SITE FOR RESIDUE NAP A 366

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Arg A:267 -Pro A:268
2Arg A:307 -Pro A:308
3Arg B:267 -Pro B:268
4Arg B:307 -Pro B:308

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3HSK)

(-) 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:358
 aligned with Q5ALM0_CANAL | Q5ALM0 from UniProtKB/TrEMBL  Length:365

    Alignment length:364
                                    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    
         Q5ALM0_CANAL     2 SVKKAGVLGATGSVGQRFILLLSKHPEFEIHALGASSRSAGKKYKDAASWKQTETLPETEQDIVVQECKPEGNFLECDVVFSGLDADVAGDIEKSFVEAGLAVVSNAKNYRREKDVPLVVPIVNPEHIDVVENKVKQAVSKGGKKPGFIICISNCSTAGLVAPLKPLVEKFGPIDALTTTTLQAISGAGFSPGVSGMDILDNIVPYISGEEDKLEWETKKILGGVNAEGTEFVPIPESEMKVSAQCNRVPVIDGHTECISLRFANRPAPSVEDVKQCLREYECAASKLGCHSAPKQTIHVLDQPDRPQPRLDRDRDSGYGVSVGRIREDSLLDFKMVVLSHNTIIGAAGAGILIAEILKAKNII 365
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee...hhhhhhhhhhhh....eeeeeeee.......hhhhhh........hhhhhh...ee.....hhhhh.eeee..hhhhhhhhhhhhhhh..eeee............ee....hhhhhhhhhhhhhhhhhh......eeeee.hhhhhhhhhhhhhhhhhhh.eeeeeeeee....------..hhhhhh........hhhhhhhhhhhhhh.ee......ee.......eeeee..........eeeeeeee......hhhhhhhhhhhh.hhhhhh.........eeee......hhhhhh.......eeeeeeee.....eeeeeeehhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3hsk A   2 SVKKAGVLGATGSVGQRFILLLSKHPEFEIHALGASSRSAGKKYKDAASWKQTETLPETEQDIVVQECKPEGNFLECDVVFSGLDADVAGDIEKSFVEAGLAVVSNAKNYRREKDVPLVVPIVNPEHIDVVENKVKQAVSKGGKKPGFIICISNCSTAGLVAPLKPLVEKFGPIDALTTTTLQAIS------GVSGMDILDNIVPYISGEEDKLEWETKKILGGVNAEGTEFVPIPESEMKVSAQCNRVPVIDGHTECISLRFANRPAPSVEDVKQCLREYECAASKLGCHSAPKQTIHVLDQPDRPQPRLDRDRDSGYGVSVGRIREDSLLDFKMVVLSHNTIIGAAGAGILIAEILKAKNII 365
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181     |   -  |    201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361    
                                                                                                                                                                                                                   187    194                                                                                                                                                                           


Chain B from PDB  Type:PROTEIN  Length:358
 aligned with Q5ALM0_CANAL | Q5ALM0 from UniProtKB/TrEMBL  Length:365

    Alignment length:363
                                    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       302       312       322       332       342       352       362   
         Q5ALM0_CANAL     3 VKKAGVLGATGSVGQRFILLLSKHPEFEIHALGASSRSAGKKYKDAASWKQTETLPETEQDIVVQECKPEGNFLECDVVFSGLDADVAGDIEKSFVEAGLAVVSNAKNYRREKDVPLVVPIVNPEHIDVVENKVKQAVSKGGKKPGFIICISNCSTAGLVAPLKPLVEKFGPIDALTTTTLQAISGAGFSPGVSGMDILDNIVPYISGEEDKLEWETKKILGGVNAEGTEFVPIPESEMKVSAQCNRVPVIDGHTECISLRFANRPAPSVEDVKQCLREYECAASKLGCHSAPKQTIHVLDQPDRPQPRLDRDRDSGYGVSVGRIREDSLLDFKMVVLSHNTIIGAAGAGILIAEILKAKNII 365
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee...hhhhhhhhhhhhh...eeeeeeee.......hhhhhh........hhhhhh...ee....hhhhhh.eeee..hhhhhhhhhhhhhhh..eeee............ee....hhhhhhhhhhhhhhhhhhh.....eeeee.hhhhhhhhhhhhhhhhhhh.eeeeeeeeee...-----...hhhhhh........hhhhhhhhhhhhhh.ee......ee.......eeeeeeee.......eeeeeeee......hhhhhhhhhhhh.hhhhhhh........eee.......hhhhhh.......eeeeeeee.....eeeeeeehhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3hsk B   3 VKKAGVLGATGSVGQRFILLLSKHPEFEIHALGASSRSAGKKYKDAASWKQTETLPETEQDIVVQECKPEGNFLECDVVFSGLDADVAGDIEKSFVEAGLAVVSNAKNYRREKDVPLVVPIVNPEHIDVVENKVKQAVSKGGKKPGFIICISNCSTAGLVAPLKPLVEKFGPIDALTTTTLQAIS-----PGVSGMDILDNIVPYISGEEDKLEWETKKILGGVNAEGTEFVPIPESEMKVSAQCNRVPVIDGHTECISLRFANRPAPSVEDVKQCLREYECAASKLGCHSAPKQTIHVLDQPDRPQPRLDRDRDSGYGVSVGRIREDSLLDFKMVVLSHNTIIGAAGAGILIAEILKAKNII 365
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182    |    -|      202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362   
                                                                                                                                                                                                                  187   193
   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  (0, 0)

(no "SCOP Domain" information available for 3HSK)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (17, 17)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q5ALM0_CANAL | Q5ALM0)
molecular function
    GO:0003942    N-acetyl-gamma-glutamyl-phosphate reductase activity    Catalysis of the reaction: N-acetyl-L-glutamate 5-semialdehyde + NADP+ + phosphate = N-acetyl-5-glutamyl phosphate + NADPH + H+.
    GO:0051287    NAD binding    Interacting selectively and non-covalently with nicotinamide adenine dinucleotide, a coenzyme involved in many redox and biosynthetic reactions; binding may be to either the oxidized form, NAD+, or the reduced form, NADH.
    GO:0050661    NADP binding    Interacting selectively and non-covalently with nicotinamide-adenine dinucleotide phosphate, a coenzyme involved in many redox and biosynthetic reactions; binding may be to either the oxidized form, NADP+, or the reduced form, NADPH.
    GO:0004073    aspartate-semialdehyde dehydrogenase activity    Catalysis of the reaction: L-aspartate 4-semialdehyde + NADP(+) + phosphate = 4-phospho-L-aspartate + H(+) + NADPH.
    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:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
    GO:0016620    oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor    Catalysis of an oxidation-reduction (redox) reaction in which an aldehyde or ketone (oxo) group acts as a hydrogen or electron donor and reduces NAD or NADP.
    GO:0046983    protein dimerization activity    The formation of a protein dimer, a macromolecular structure consists of two noncovalently associated identical or nonidentical subunits.
biological process
    GO:0006531    aspartate metabolic process    The chemical reactions and pathways involving aspartate, the anion derived from aspartic acid, 2-aminobutanedioic acid.
    GO:0008652    cellular amino acid biosynthetic process    The chemical reactions and pathways resulting in the formation of amino acids, organic acids containing one or more amino substituents.
    GO:0006520    cellular amino acid metabolic process    The chemical reactions and pathways involving amino acids, carboxylic acids containing one or more amino groups, as carried out by individual cells.
    GO:0009097    isoleucine biosynthetic process    The chemical reactions and pathways resulting in the formation of isoleucine, (2R*,3R*)-2-amino-3-methylpentanoic acid.
    GO:0009089    lysine biosynthetic process via diaminopimelate    The chemical reactions and pathways resulting in the formation of lysine, via the intermediate diaminopimelate.
    GO:0009086    methionine biosynthetic process    The chemical reactions and pathways resulting in the formation of methionine (2-amino-4-(methylthio)butanoic acid), a sulfur-containing, essential amino acid found in peptide linkage in proteins.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
    GO:0009088    threonine biosynthetic process    The chemical reactions and pathways resulting in the formation of threonine (2-amino-3-hydroxybutyric acid), a polar, uncharged, essential amino acid found in peptide linkage in proteins.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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