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(-) Description

Title :  PYRIDINE NUCLEOTIDE COMPLEXES WITH BACILLUS ANTHRACIS COENZYME A-DISULFIDE REDUCTASE: A STRUCTURAL ANALYSIS OF DUAL NAD(P)H SPECIFICITY
 
Authors :  J. R. Wallen
Date :  05 Mar 08  (Deposition) - 22 Apr 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.26
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Coenzyme A, Flavin Adenine Dinucleotide, Nicotinamide Adenine Dinucleotide Phosphate, Fad, Flavoprotein, Oxidoreductase, ---- (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. R. Wallen, C. Paige, T. C. Mallett, P. A. Karplus, A. Claiborne
Pyridine Nucleotide Complexes With Bacillus Anthracis Coenzyme A-Disulfide Reductase: A Structural Analysis Of Dual Nad(P)H Specificity.
Biochemistry V. 47 5182 2008
PubMed-ID: 18399646  |  Reference-DOI: 10.1021/BI8002204

(-) Compounds

Molecule 1 - PYRIDINE NUCLEOTIDE-DISULFIDE OXIDOREDUCTASE, CLASS I
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PTRCHISC
    Expression System Strain: B834(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: PYRIDINE NUCLEOTIDE-DISULFIDE OXIDOREDUCTASE, CLASS I
    Organism Scientific: BACILLUS ANTHRACIS STR.
    Organism Taxid: 198094
    Strain: AMES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 6)

Asymmetric/Biological Unit (3, 6)
No.NameCountTypeFull Name
1COA2Ligand/IonCOENZYME A
2FAD2Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE
3NDP2Ligand/IonNADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDEPHOSPHATE

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:9 , MET A:13 , SER A:14 , MET A:17 , GLN A:18 , ARG A:21 , SER A:38 , TYR A:39 , ARG A:61 , ASN A:304 , ARG A:308 , TYR B:425 , ARG B:441 , ARG B:442BINDING SITE FOR RESIDUE COA A 445
2AC2SOFTWARETYR A:425 , ARG A:441 , ARG A:442 , ASP B:9 , ALA B:10 , MET B:13 , MET B:17 , GLN B:18 , ARG B:21 , SER B:38 , TYR B:39 , CYS B:42 , ARG B:61 , ASN B:304 , ARG B:308BINDING SITE FOR RESIDUE COA B 445
3AC3SOFTWAREILE A:6 , GLY A:7 , ASP A:9 , ALA A:10 , ALA A:11 , LEU A:31 , GLU A:32 , LYS A:33 , GLN A:41 , CYS A:42 , HIS A:78 , ALA A:111 , THR A:112 , GLY A:113 , GLY A:281 , ASP A:282 , ILE A:299 , GLY A:300 , THR A:301 , ALA A:303 , TYR B:425 , ALA B:426 , PRO B:427BINDING SITE FOR RESIDUE FAD A 446
4AC4SOFTWARETYR A:425 , ALA A:426 , PRO A:427 , ILE B:6 , GLY B:7 , ASP B:9 , ALA B:10 , ALA B:11 , LEU B:31 , GLU B:32 , LYS B:33 , GLN B:41 , CYS B:42 , HIS B:78 , GLU B:79 , ALA B:111 , THR B:112 , GLY B:113 , LYS B:133 , GLY B:281 , ASP B:282 , ILE B:299 , GLY B:300 , THR B:301 , ALA B:303BINDING SITE FOR RESIDUE FAD B 446
5AC5SOFTWARETRP B:121 , ILE B:156 , GLY B:157 , GLY B:159 , ALA B:160 , ILE B:161 , GLU B:164 , ILE B:179 , GLU B:180 , ARG B:181 , ASN B:182 , THR B:187 , SER B:241 , GLY B:243 , PRO B:298 , ILE B:299 , ILE B:329BINDING SITE FOR RESIDUE NDP B 802
6AC6SOFTWARETRP A:121 , ILE A:156 , GLY A:157 , GLY A:159 , ALA A:160 , ILE A:161 , GLU A:164 , ILE A:179 , GLU A:180 , ARG A:181 , ASN A:182 , THR A:187 , SER A:241 , GLY A:243 , PRO A:298 , ILE A:299 , ILE A:329 , ILE A:330BINDING SITE FOR RESIDUE NDP A 803

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3CGE)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3CGE)

(-) 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:444
 aligned with Q81TK8_BACAN | Q81TK8 from UniProtKB/TrEMBL  Length:444

    Alignment length:444
                                    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    
         Q81TK8_BACAN     1 MNYVIIGGDAAGMSAAMQIVRNDENANVVTLEKGEIYSYAQCGLPYVISGAIASTEKLIARNVKTFRDKYGIDAKVRHEVTKVDTEKKIVYAEHTKTKDVFEFSYDRLLIATGVRPVMPEWEGRDLQGVHLLKTIPDAERILKTLETNKVEDVTIIGGGAIGLEMAETFVELGKKVRMIERNDHIGTIYDGDMAEYIYKEADKHHIEILTNENVKAFKGNERVEAVETDKGTYKADLVLVSVGVKPNTDFLEGTNIRTNHKGAIEVNAYMQTNVQDVYAAGDCATHYHVIKEIHDHIPIGTTANKQGRLAGLNMLDKRRAFKGTLGTGIIKFMNLTLARTGLNEKEAKGLHIPYKTVKVDSTNMAGYYPNAKPLYLKLLYRSDTKQLLGGQVIGEEGVDKRIDVIAMALFNKMSIHDLEDVDLSYAPPYNSVWDPIQQAARRAE 444
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeee..hhhhhhhhhhhhhhh...eeeee........hhhhhhhhhh....hhhhhh..hhhhhhhh...eee..eeeeeee....eeeeee.....eeeee..eeee...eee............ee...hhhhhhhhhhhhhhh...eeeee..hhhhhhhhhhhhhh..eeeee..........hhhhhhhhhhhhhhh..eee....eeeeee...eeeeee...eee..eeee...eee.hhhhh........................eee.hhhh.ee......ee...hhhhhhhhhhhhhhhhh............eeeee..eeeeeee.hhhhhhhhh..eeeeeeeee..........eeeeeeeee.....eeeeeeee..hhhhhhhhhhhhhhh..hhhhhhhh............hhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3cge A   1 MNYVIIGGDAAGMSAAMQIVRNDENANVVTLEKGEIYSYAQCGLPYVISGAIASTEKLIARNVKTFRDKYGIDAKVRHEVTKVDTEKKIVYAEHTKTKDVFEFSYDRLLIATGVRPVMPEWEGRDLQGVHLLKTIPDAERILKTLETNKVEDVTIIGGGAIGLEMAETFVELGKKVRMIERNDHIGTIYDGDMAEYIYKEADKHHIEILTNENVKAFKGNERVEAVETDKGTYKADLVLVSVGVKPNTDFLEGTNIRTNHKGAIEVNAYMQTNVQDVYAAGDCATHYHVIKEIHDHIPIGTTANKQGRLAGLNMLDKRRAFKGTLGTGIIKFMNLTLARTGLNEKEAKGLHIPYKTVKVDSTNMAGYYPNAKPLYLKLLYRSDTKQLLGGQVIGEEGVDKRIDVIAMALFNKMSIHDLEDVDLSYAPPYNSVWDPIQQAARRAE 444
                                    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    


Chain B from PDB  Type:PROTEIN  Length:444
 aligned with Q81TK8_BACAN | Q81TK8 from UniProtKB/TrEMBL  Length:444

    Alignment length:444
                                    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    
         Q81TK8_BACAN     1 MNYVIIGGDAAGMSAAMQIVRNDENANVVTLEKGEIYSYAQCGLPYVISGAIASTEKLIARNVKTFRDKYGIDAKVRHEVTKVDTEKKIVYAEHTKTKDVFEFSYDRLLIATGVRPVMPEWEGRDLQGVHLLKTIPDAERILKTLETNKVEDVTIIGGGAIGLEMAETFVELGKKVRMIERNDHIGTIYDGDMAEYIYKEADKHHIEILTNENVKAFKGNERVEAVETDKGTYKADLVLVSVGVKPNTDFLEGTNIRTNHKGAIEVNAYMQTNVQDVYAAGDCATHYHVIKEIHDHIPIGTTANKQGRLAGLNMLDKRRAFKGTLGTGIIKFMNLTLARTGLNEKEAKGLHIPYKTVKVDSTNMAGYYPNAKPLYLKLLYRSDTKQLLGGQVIGEEGVDKRIDVIAMALFNKMSIHDLEDVDLSYAPPYNSVWDPIQQAARRAE 444
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeee..hhhhhhhhhhhhhh....eeeee........hhhhhhhhhh....hhhhhh..hhhhhhhh...eee..eeeeeee....eeeeee.....eeeee..eeee...eee............ee...hhhhhhhhhhhhhhh...eeeee..hhhhhhhhhhhhhh..eeeee..........hhhhhhhhhhhhhhh..eee....eeeee......eeee...eee..eeee...eee.hhhhh........................eee.hhhh.ee......ee...hhhhhhhhhhhhhhhhh............eeeee..eeeeeee.hhhhhhhhh..eeeeeeeee..........eeeeeeeee.....eeeeeeee..hhhhhhhhhhhhhhh..hhhhhhhh............hhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3cge B   1 MNYVIIGGDAAGMSAAMQIVRNDENANVVTLEKGEIYSYAQCGLPYVISGAIASTEKLIARNVKTFRDKYGIDAKVRHEVTKVDTEKKIVYAEHTKTKDVFEFSYDRLLIATGVRPVMPEWEGRDLQGVHLLKTIPDAERILKTLETNKVEDVTIIGGGAIGLEMAETFVELGKKVRMIERNDHIGTIYDGDMAEYIYKEADKHHIEILTNENVKAFKGNERVEAVETDKGTYKADLVLVSVGVKPNTDFLEGTNIRTNHKGAIEVNAYMQTNVQDVYAAGDCATHYHVIKEIHDHIPIGTTANKQGRLAGLNMLDKRRAFKGTLGTGIIKFMNLTLARTGLNEKEAKGLHIPYKTVKVDSTNMAGYYPNAKPLYLKLLYRSDTKQLLGGQVIGEEGVDKRIDVIAMALFNKMSIHDLEDVDLSYAPPYNSVWDPIQQAARRAE 444
                                    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
   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 3CGE)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q81TK8_BACAN | Q81TK8)
molecular function
    GO:0050660    flavin adenine dinucleotide binding    Interacting selectively and non-covalently with FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes, in either the oxidized form, FAD, or the reduced form, FADH2.
    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:0045454    cell redox homeostasis    Any process that maintains the redox environment of a cell or compartment within a cell.
    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.
cellular component
    GO:0005623    cell    The basic structural and functional unit of all organisms. Includes the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope.

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 Related Entries

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

UniProtKB/TrEMBL
        Q81TK8_BACAN | Q81TK8: 3cgb 3cgc 3cgd

(-) Related Entries Specified in the PDB File

3cgb THE SAME PROTEIN WITH SELENOMETHIONINE
3cgc THE SAME PROTEIN OXIDIZED
3cgd THE SAME PROTEIN IN COMPLEX WITH NADH