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(-) Description

Title :  COMPLEX OF ACTIVE MUTANT (Q365->C) OF GLUCOSE 6-PHOSPHATE DEHYDROGENASE FROM LEUCONOSTOC MESENTEROIDES WITH SUBSTRATE
 
Authors :  M. J. Adams, L. Vandeputte-Rutten, S. Gover
Date :  24 Aug 00  (Deposition) - 11 Dec 00  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.69
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Oxidoreductase, Oxidoreductase (Choh(D) - Nad(P)), Glucose Metabolism (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. S. Cosgrove, S. Gover, C. E. Naylor, L. Vandeputte-Rutten, M. J. Adams, H. R. Levy
An Examination Of The Role Of Asp-177 In The His- Asp Catalytic Dyad Of Leuconostoc Mesenteroides Glucose 6-Phosphate Dehydrogenase: X-Ray Structure And Ph Dependence Of Kinetic Parameters Of The D177N Mutant Enzyme
Biochemistry V. 39 15002 2000
PubMed-ID: 11106478  |  Reference-DOI: 10.1021/BI0014608
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - GLUCOSE 6-PHOSPHATE 1-DEHYDROGENASE
    ChainsA
    EC Number1.1.1.49
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System GeneG6PD
    Expression System PlasmidPLMZ
    Expression System StrainSU294
    Expression System Taxid562
    GeneG6PD
    MutationYES
    Organism ScientificLEUCONOSTOC MESENTEROIDES
    Organism Taxid1245
    Other DetailsSITE DIRECTED MUTAGENESIS
    PlasmidPLMZ
    StrainSU294
    SynonymG6PD

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 2)
No.NameCountTypeFull Name
1BG61Ligand/IonBETA-D-GLUCOSE-6-PHOSPHATE
2CA1Ligand/IonCALCIUM ION
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1BG62Ligand/IonBETA-D-GLUCOSE-6-PHOSPHATE
2CA-1Ligand/IonCALCIUM ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:148 , HIS A:178 , TYR A:179 , LYS A:182 , GLU A:216 , ARG A:223 , ASP A:235 , MET A:236 , HIS A:240 , LYS A:338 , LYS A:343BINDING SITE FOR RESIDUE BG6 A 801
2AC2SOFTWAREASN A:477 , HOH A:2032 , HOH A:2073 , HOH A:2075 , HOH A:2103 , HOH A:2104BINDING SITE FOR RESIDUE CA A 802

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1E77)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Lys A:148 -Pro A:149
2Asp A:374 -Pro A:375

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1E77)

(-) PROSITE Motifs  (1, 1)

Asymmetric Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1G6P_DEHYDROGENASEPS00069 Glucose-6-phosphate dehydrogenase active site.G6PD_LEUME178-184  1A:177-183
Biological Unit 1 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1G6P_DEHYDROGENASEPS00069 Glucose-6-phosphate dehydrogenase active site.G6PD_LEUME178-184  2A:177-183

(-) Exons   (0, 0)

(no "Exon" information available for 1E77)

(-) 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:485
 aligned with G6PD_LEUME | P11411 from UniProtKB/Swiss-Prot  Length:486

    Alignment length:485
                                    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       441       451       461       471       481     
           G6PD_LEUME     2 VSEIKTLVTFFGGTGDLAKRKLYPSVFNLYKKGYLQKHFAIVGTARQALNDDEFKQLVRDSIKDFTDDQAQAEAFIEHFSYRAHDVTDAASYAVLKEAIEEAADKFDIDGNRIFYMSVAPRFFGTIAKYLKSEGLLADTGYNRLMIEKPFGTSYDTAAELQNDLENAFDDNQLFRIDHYLGKEMVQNIAALRFGNPIFDAAWNKDYIKNVQVTLSEVLGVEERAGYYDTAGALLDMIQNHTMQIVGWLAMEKPESFTDKDIRAAKNAAFNALKIYDEAEVNKYFVRAQYGAGDSADFKPYLEELDVPADSKNNTFIAGELQFDLPRWEGVPFYVRSGKRLAAKQTRVDIVFKAGTFNFGSEQEAQEAVLSIIIDPKGAIELKLNAKSVEDAFNTRTIDLGWTVSDEDKKNTPEPYERMIHDTMNGDGSNFADWNGVSIAWKFVDAISAVYTADKAPLETYKSGSMGPEASDKLLAANGDAWVFKG 486
               SCOP domains d1e77a1 A:1-181,A:413-426 Glucose 6-phosphate dehydrogenase, N-terminal domain                                                                                                       d1e77a2 A:182-412,A:427-485 Glucose 6-phosphate dehydrogenase                                                                                                                                                                          d1e77a1       d1e77a2 A:182-412,A:427-485                                 SCOP domains
               CATH domains 1e77A01 A:1-175 NAD(P)-binding Rossmann-like Domain                                                                                                                            1e77A02 A:176-484 Dihydrodipicolinate Reductase; domain 2                                                                                                                                                                                                                                                            - CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeee....hhhhhhhhhhhhhhhh.......eeeeeee.....hhhhhhhhhhhhhhh...hhhhhhhh..eeeee.....hhhhhhhhhhhhhhhhh......eeeee...hhhhhhhhhhhhh.........eeeee.......hhhhhhhhhhhh.......eee.........hhhhhhhhh..hhhh.......eeeeeeeee........hhhhhhh.hhhh....hhhhhhhhhh........hhhhhhhhhhhh.......hhhhhhheeeeeee........................eeeeee...........eeeeee......eeeeeeee................eeeeeee...eeeeeeeee.......eeeeeeeee..hhhh.....hhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhh.....eeee......hhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------G6P_DEH-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1e77 A   1 VSEIKTLVTFFGGTGDLAKRKLYPSVFNLYKKGYLQKHFAIVGTARQALNDDEFKQLVRDSIKDFTDDQAQAEAFIEHFSYRAHDVTDAASYAVLKEAIEEAADKFDIDGNRIFYMSVAPRFFGTIAKYLKSEGLLADTGYNRLMIEKPFGTSYDTAAELQNDLENAFDDNQLFRIDHYLGKEMVQNIAALRFGNPIFDAAWNKDYIKNVQVTLSEVLGVEERAGYYDTAGALLDMIQNHTMQIVGWLAMEKPESFTDKDIRAAKNAAFNALKIYDEAEVNKYFVRAQYGAGDSADFKPYLEELDVPADSKNNTFIAGELQFDLPRWEGVPFYVRSGKRLAAKQTRVDIVFKAGTFNFGSEQEACEAVLSIIIDPKGAIELKLNAKSVEDAFNTRTIDLGWTVSDEDKKNTPEPYERMIHDTMNGDGSNFADWNGVSIAWKFVDAISAVYTADKAPLETYKSGSMGPEASDKLLAANGDAWVFKG 485
                                    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       460       470       480     

   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, 2)

Asymmetric Unit

(-) CATH Domains  (2, 2)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1E77)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)
Chain A   (G6PD_LEUME | P11411)
molecular function
    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:0004345    glucose-6-phosphate dehydrogenase activity    Catalysis of the reaction: D-glucose 6-phosphate + NADP+ = D-glucono-1,5-lactone 6-phosphate + NADPH + H+.
    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:0005975    carbohydrate metabolic process    The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
    GO:0006006    glucose metabolic process    The chemical reactions and pathways involving glucose, the aldohexose gluco-hexose. D-glucose is dextrorotatory and is sometimes known as dextrose; it is an important source of energy for living organisms and is found free as well as combined in homo- and hetero-oligosaccharides and polysaccharides.
    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:0006098    pentose-phosphate shunt    The glucose-6-phosphate catabolic process in which, coupled to NADPH synthesis, glucose-6-P is oxidized with the formation of carbon dioxide (CO2) and ribulose 5-phosphate; ribulose 5-P then enters a series of reactions interconverting sugar phosphates. The pentose phosphate pathway is a major source of reducing equivalents for biosynthesis reactions and is also important for the conversion of hexoses to pentoses.

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 Related Entries

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

UniProtKB/Swiss-Prot
        G6PD_LEUME | P114111dpg 1e7m 1e7y 1h93 1h94 1h9a 1h9b 2dpg

(-) Related Entries Specified in the PDB File

1dpg GLUCOSE 6-PHOSPHATE DEHYDROGENASE FROM LEUCONOSTOC MESENTEROIDES
1e7m ACTIVE SITE MUTANT (D177->N) OF GLUCOSE 6-PHOSPHATE DEHYDROGENASE FROM LEUCONOSTOC MESENTEROIDES
1e7y ACTIVE SITE MUTANT (D177->N) OF GLUCOSE 6-PHOSPHATE DEHYDROGENASE FROM LEUCONOSTOC MESENTEROIDES COMPLEXED WITH SUBSTRATE AND NADPH
2dpg COMPLEX OF INACTIVE MUTANT (H240->N) OF GLUCOSE 6-PHOSPHATE DEHYDROGENASE FROM LEUCONOSTOC MESENTEROIDES WITH NADP+