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(-) Description

Title :  THE AEROPATH PROJECT AND PSEUDOMONAS AERUGINOSA HIGH-THROUGHPUT CRYSTALLOGRAPHIC STUDIES FOR ASSESSMENT OF POTENTIAL TARGETS IN EARLY STAGE DRUG DISCOVERY.
 
Authors :  L. Moynie, S. A. Mcmahon, M. S. Alphey, H. Liu, F. Duthie, J. H. Naismith
Date :  16 Aug 12  (Deposition) - 29 Aug 12  (Release) - 23 Jan 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.98
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Oxidoreductase, Infectious Disease, Structure-Based Inhibitor Design (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Moynie, R. Schnell, S. A. Mcmahon, T. Sandalova, W. A. Boulkerou, J. W. Schmidberger, M. S. Alphey, C. Cukier, F. Duthie, J. Kopec, H. Liu A. Jacewicz, W. N. Hunter, J. H. Naismith, G. Schneider
The Aeropath Project Targeting Pseudomonas Aeruginosa: Crystallographic Studies For Assessment Of Potential Targets In Early-Stage Drug Discovery
Acta Crystallogr. , Sect. F V. 69 25 2013
PubMed-ID: 23295481  |  Reference-DOI: 10.1107/S1744309112044739

(-) Compounds

Molecule 1 - PROBABLE SHORT-CHAIN DEHYDROGENASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: C43
    Expression System Vector: PDEST14
    Organism Scientific: PSEUDOMONAS AERUGINOSA PAO1
    Organism Taxid: 208964
    Synonym: PA4098

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1NAD2Ligand/IonNICOTINAMIDE-ADENINE-DINUCLEOTIDE
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1NAD4Ligand/IonNICOTINAMIDE-ADENINE-DINUCLEOTIDE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY B:17 , SER B:19 , SER B:20 , GLY B:21 , ILE B:22 , GLY B:41 , LEU B:42 , LEU B:60 , ASP B:61 , ILE B:62 , ASN B:84 , ALA B:85 , GLY B:86 , LEU B:105 , ILE B:131 , ALA B:132 , TYR B:146 , LYS B:150 , PRO B:176 , GLY B:177 , ILE B:179 , THR B:181 , HOH B:2008 , HOH B:2040 , HOH B:2091 , HOH B:2092BINDING SITE FOR RESIDUE NAD B1242
2AC2SOFTWAREGLY A:17 , SER A:19 , SER A:20 , GLY A:21 , ILE A:22 , GLY A:41 , LEU A:42 , LEU A:60 , ASP A:61 , ILE A:62 , ASN A:84 , GLY A:86 , ILE A:87 , LEU A:105 , ILE A:131 , ALA A:132 , TYR A:146 , LYS A:150 , PRO A:176 , GLY A:177 , ILE A:179 , THR A:181 , HOH A:2007BINDING SITE FOR RESIDUE NAD A1242

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4B79)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4B79)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4B79)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4B79)

(-) Exons   (0, 0)

(no "Exon" information available for 4B79)

(-) 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:236
 aligned with Q9HWT0_PSEAE | Q9HWT0 from UniProtKB/TrEMBL  Length:241

    Alignment length:241
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240 
         Q9HWT0_PSEAE     1 MVFQHDIYAGQQVLVTGGSSGIGAAIAMQFAELGAEVVALGLDADGVHAPRHPRIRREELDITDSQRLQRLFEALPRLDVLVNNAGISRDREEYDLATFERVLRLNLSAAMLASQLARPLLAQRGGSILNIASMYSTFGSADRPAYSASKGAIVQLTRSLACEYAAERIRVNAIAPGWIDTPLGAGLKADVEATRRIMQRTPLARWGEAPEVASAAAFLCGPGASFVTGAVLAVDGGYLCA 241
               SCOP domains d4b79a_ A: automated matches                                                                                                                                                                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeeee...hhhhhhhhhhhhhh..eeeeee.............eeeee....hhhhhhhhhhhh....eeee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeee.hhhhh.....hhhhhhhhhhhhhhhhhhhhhhh...eeeeeeee......-----..hhhhhhhhhhh.......hhhhhhhhhhhhhhhhhh.....eeee..hhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4b79 A   1 MVFQHDIYAGQQVLVTGGSSGIGAAIAMQFAELGAEVVALGLDADGVHAPRHPRIRREELDITDSQRLQRLFEALPRLDVLVNNAGISRDREEYDLATFERVLRLNLSAAMLASQLARPLLAQRGGSILNIASMYSTFGSADRPAYSASKGAIVQLTRSLACEYAAERIRVNAIAPGWIDTP-----KADVEATRRIMQRTPLARWGEAPEVASAAAFLCGPGASFVTGAVLAVDGGYLCA 241
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180 |     190       200       210       220       230       240 
                                                                                                                                                                                                               182   188                                                     


Chain B from PDB  Type:PROTEIN  Length:233
 aligned with Q9HWT0_PSEAE | Q9HWT0 from UniProtKB/TrEMBL  Length:241

    Alignment length:241
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240 
         Q9HWT0_PSEAE     1 MVFQHDIYAGQQVLVTGGSSGIGAAIAMQFAELGAEVVALGLDADGVHAPRHPRIRREELDITDSQRLQRLFEALPRLDVLVNNAGISRDREEYDLATFERVLRLNLSAAMLASQLARPLLAQRGGSILNIASMYSTFGSADRPAYSASKGAIVQLTRSLACEYAAERIRVNAIAPGWIDTPLGAGLKADVEATRRIMQRTPLARWGEAPEVASAAAFLCGPGASFVTGAVLAVDGGYLCA 241
               SCOP domains d4b79b_ B: automated matches                                                                                                                                                                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeeee...hhhhhhhhhhhhhh..eeeeee.............eeeee....hhhhhhhhhhhh....eeee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeee.hhhhh.....hhhhhhhhhhhhhhhhhhhhhhh...eeeeeeee.....--------hhhhhhhhhhh.......hhhhhhhhhhhhhhhhhh.....eeee..hhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4b79 B   1 MVFQHDIYAGQQVLVTGGSSGIGAAIAMQFAELGAEVVALGLDADGVHAPRHPRIRREELDITDSQRLQRLFEALPRLDVLVNNAGISRDREEYDLATFERVLRLNLSAAMLASQLARPLLAQRGGSILNIASMYSTFGSADRPAYSASKGAIVQLTRSLACEYAAERIRVNAIAPGWIDT--------DVEATRRIMQRTPLARWGEAPEVASAAAFLCGPGASFVTGAVLAVDGGYLCA 241
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180|      190       200       210       220       230       240 
                                                                                                                                                                                                              181      190
   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, 2)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4B79)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4B79)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q9HWT0_PSEAE | Q9HWT0)
molecular function
    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.
biological process
    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.

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  4b79
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 Related Entries

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UniProtKB/TrEMBL
        Q9HWT0_PSEAE | Q9HWT0: 4avy

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4avy THE AEROPATH PROJECT AND PSEUDOMONAS AERUGINOSA HIGH- THROUGHPUT CRYSTALLOGRAPHIC STUDIES FOR ASSESSMENT OF POTENTIAL TARGETS IN EARLY STAGE DRUG DISCOVERY.