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(-) Description

Title :  CRYSTAL STRUCTURE OF THE E243D MUTANT OF ASPARTATE SEMIALDEHYDE DEHYDROGENASE FROM HAEMOPHILUS INFLUENZAE BOUND WITH SUBSTRATE ASPARTATE SEMIALDEHYDE
 
Authors :  J. Blanco, R. A. Moore, C. R. Faehnle, D. M. Coe, R. E. Viola
Date :  26 Jul 03  (Deposition) - 27 Jul 04  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.05
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Enzyme, Aspartate Semialdehyde Dehydrogenase, Tetrahedral Intermediate, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. Blanco, R. A. Moore, C. R. Faehnle, D. M. Coe, R. E. Viola
The Role Of Substrate-Binding Groups In The Mechanism Of Aspartate-Beta-Semialdehyde Dehydrogenase.
Acta Crystallogr. , Sect. D V. 60 1388 2004
PubMed-ID: 15272161  |  Reference-DOI: 10.1107/S0907444904012971

(-) Compounds

Molecule 1 - ASPARTATE-SEMIALDEHYDE DEHYDROGENASE
    ChainsA, B
    EC Number1.2.1.11
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21
    Expression System PlasmidPET41
    Expression System StrainBL21
    Expression System Taxid511693
    Expression System Vector TypePLASMID
    GeneASD
    MutationYES
    Organism ScientificHAEMOPHILUS INFLUENZAE RD
    Organism Taxid71421
    StrainKW20
    SynonymASA DEHYDROGENASE, ASADH

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1HTI2Mod. Amino Acid(4S)-4-{[(2S)-2-AMINO-3-OXOPROPYL]SULFANYL}-L-HOMOSERINE

(-) Sites  (0, 0)

(no "Site" information available for 1Q2X)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1Q2X)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1Q2X)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1Q2X)

(-) PROSITE Motifs  (1, 2)

Asymmetric/Biological Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ASDPS01103 Aspartate-semialdehyde dehydrogenase signature.DHAS_HAEIN264-278
 
  2A:264-278
B:264-278

(-) Exons   (0, 0)

(no "Exon" information available for 1Q2X)

(-) Sequences/Alignments

Asymmetric/Biological 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:357
 aligned with DHAS_HAEIN | P44801 from UniProtKB/Swiss-Prot  Length:371

    Alignment length:371
                                    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 
           DHAS_HAEIN     1 MKNVGFIGWRGMVGSVLMDRMSQENDFENLNPVFFTTSQAGQKAPVFGGKDAGDLKSAFDIEELKKLDIIVTCQGGDYTNEVYPKLKATGWDGYWVDAASALRMKDDAIIVLDPVNQHVISEGLKKGIKTFVGGNCTVSLMLMAIGGLFEKDLVEWISVATYQAASGAGAKNMRELLSQMGLLEQAVSSELKDPASSILDIERKVTAKMRADNFPTDNFGAALGGSLIPWIDKLLPETGQTKEEWKGYAETNKILGLSDNPIPVDGLCVRIGALRCHSQAFTIKLKKDLPLEEIEQIIASHNEWVKVIPNDKEITLRELTPAKVTGTLSVPVGRLRKLAMGPEYLAAFTVGDQLLWGAAEPVRRILKQLVA 371
               SCOP domains d1q2xa1 A:1-133,A:358-371 Aspartate beta              -semialdehyde dehydrogenase                                                    d1q2xa2 A:134-357 Aspartate beta-semialdehyde dehydrogenase                                                                                                                                                                     d1q2xa1        SCOP domains
               CATH domains 1q2xA01 A:1-135,A:354-371 NAD(P)-binding               Rossmann-like Domain                                                            -1q2xA02 A:137-353 Dihydrodipicolinate Reductase; domain 2                                                                                                                                                                1q2xA01            CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...hhhhhhhhhhhhhhhhhhhheeeeee....--------------.ee..hhhhhhh..eeee..hhhhhhhhhhhhhh.....eeee..........eeeehhhhhhhhhhhhhh....eeee.hhhhhhhhhhhhhhhhh..eeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh...............ee............hhhhhhhhhhhhhhhh.......eeee..ee....eeeeeeeeee....hhhhhhhhhhh....eee...hhhhhhhhhhhhhhh....eeeeeeee......eeeeeeeee.....hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ASD            --------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1q2x A   1 MKNVGFIGWRGMVGSVLMDRMSQENDFENLNPVFFTTSQA--------------LKSAFDIEELKKLDIIVTCQGGDYTNEVYPKLKATGWDGYWVDAASALRMKDDAIIVLDPVNQHVISEGLKKGIKTFVGGNcTVSLMLMAIGGLFEKDLVEWISVATYQAASGAGAKNMRELLSQMGLLEQAVSSELKDPASSILDIERKVTAKMRADNFPTDNFGAALGGSLIPWIDKLLPETGQTKDEWKGYAETNKILGLSDNPIPVDGLCVRIGALRCHSQAFTIKLKKDLPLEEIEQIIASHNEWVKVIPNDKEITLRELTPAKVTGTLSVPVGRLRKLAMGPEYLAAFTVGDQLLWGAAEPVRRILKQLVA 371
                                    10        20        30        40         -    |   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 
                                                                  40             55                                                                              136-HTI                                                                                                                                                                                                                                       

Chain B from PDB  Type:PROTEIN  Length:357
 aligned with DHAS_HAEIN | P44801 from UniProtKB/Swiss-Prot  Length:371

    Alignment length:371
                                    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 
           DHAS_HAEIN     1 MKNVGFIGWRGMVGSVLMDRMSQENDFENLNPVFFTTSQAGQKAPVFGGKDAGDLKSAFDIEELKKLDIIVTCQGGDYTNEVYPKLKATGWDGYWVDAASALRMKDDAIIVLDPVNQHVISEGLKKGIKTFVGGNCTVSLMLMAIGGLFEKDLVEWISVATYQAASGAGAKNMRELLSQMGLLEQAVSSELKDPASSILDIERKVTAKMRADNFPTDNFGAALGGSLIPWIDKLLPETGQTKEEWKGYAETNKILGLSDNPIPVDGLCVRIGALRCHSQAFTIKLKKDLPLEEIEQIIASHNEWVKVIPNDKEITLRELTPAKVTGTLSVPVGRLRKLAMGPEYLAAFTVGDQLLWGAAEPVRRILKQLVA 371
               SCOP domains d1q2xb1 B:1-133,B:358-371 Aspartate beta              -semialdehyde dehydrogenase                                                    d1q2xb2 B:134-357 Aspartate beta-semialdehyde dehydrogenase                                                                                                                                                                     d1q2xb1        SCOP domains
               CATH domains 1q2xB01 B:1-135,B:354-371 NAD(P)-binding               Rossmann-like Domain                                                            -1q2xB02 B:137-353 Dihydrodipicolinate Reductase; domain 2                                                                                                                                                                1q2xB01            CATH domains
           Pfam domains (1) --Semialdhyde_dh-1q2xB03 B:3-123                                                                                           ---------------------Semialdhyde_dhC-1q2xB01 B:145-356                                                                                                                                                                                   --------------- Pfam domains (1)
           Pfam domains (2) --Semialdhyde_dh-1q2xB04 B:3-123                                                                                           ---------------------Semialdhyde_dhC-1q2xB02 B:145-356                                                                                                                                                                                   --------------- Pfam domains (2)
         Sec.struct. author ..eeeee...hhhhhhhhhhhhhhhhhhhheeeeee....--------------.ee..hhhhhhh..eeee..hhhhhhhhhhhhhh.....eeee..........eeeehhhhhhhhhhhhhhhh..eeee.hhhhhhhhhhhhhhhhh..eeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh................ee............hhhhhhhhhhhhhhh........eeee..ee....eeeeeeeeee....hhhhhhhhhhh....eee...hhhhhhhhhhhhhhh....eeeeeeeee..eeeeeeeeeeee.....hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ASD            --------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1q2x B   1 MKNVGFIGWRGMVGSVLMDRMSQENDFENLNPVFFTTSQA--------------LKSAFDIEELKKLDIIVTCQGGDYTNEVYPKLKATGWDGYWVDAASALRMKDDAIIVLDPVNQHVISEGLKKGIKTFVGGNcTVSLMLMAIGGLFEKDLVEWISVATYQAASGAGAKNMRELLSQMGLLEQAVSSELKDPASSILDIERKVTAKMRADNFPTDNFGAALGGSLIPWIDKLLPETGQTKDEWKGYAETNKILGLSDNPIPVDGLCVRIGALRCHSQAFTIKLKKDLPLEEIEQIIASHNEWVKVIPNDKEITLRELTPAKVTGTLSVPVGRLRKLAMGPEYLAAFTVGDQLLWGAAEPVRRILKQLVA 371
                                    10        20        30        40         -    |   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 
                                                                  40             55                                                                              136-HTI                                                                                                                                                                                                                                       

   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  (2, 4)

Asymmetric/Biological Unit

(-) CATH Domains  (2, 4)

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

(-) Pfam Domains  (2, 4)

Asymmetric/Biological Unit

(-) Gene Ontology  (18, 18)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (DHAS_HAEIN | P44801)
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: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:0071266    'de novo' L-methionine biosynthetic process    The chemical reactions and pathways resulting in the formation of L-methionine, the L-enantiomer of (2S)-2-amino-4-(methylsulfanyl)butanoic acid, from simpler components.
    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:0019877    diaminopimelate biosynthetic process    The chemical reactions and pathways resulting in the formation of diaminopimelate, both as an intermediate in lysine biosynthesis and as a component (as meso-diaminopimelate) of the peptidoglycan of Gram-negative bacterial cell walls.
    GO:0009097    isoleucine biosynthetic process    The chemical reactions and pathways resulting in the formation of isoleucine, (2R*,3R*)-2-amino-3-methylpentanoic acid.
    GO:0009085    lysine biosynthetic process    The chemical reactions and pathways resulting in the formation of lysine, 2,6-diaminohexanoic 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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 Related Entries

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

UniProtKB/Swiss-Prot
        DHAS_HAEIN | P448011nwc 1nwh 1nx6 1oza 1pqp 1pqu 1pr3 1ps8 1pu2 1ta4 1tb4

(-) Related Entries Specified in the PDB File

1nwc CRYSTAL STRUCTURE OF ASPARTATE SEMIALDEHYDE DEHYDROGENASE FROM HAEMOPHILUS INFLUENZAE
1nwh CRYSTAL STRUCTURE OF ASPARTATE SEMIALDEHYDE DEHYDROGENASE FROM HAEMOPHILUS INFLUENZAE AS A TETRAHEDRAL REACTION INTERMEDIATE