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(-) Description

Title :  HIGH RESOLUTION CRYSTAL STRUCTURE OF THE OLD YELLOW ENZYME FROM TRYPANOSOMA CRUZI
 
Authors :  M. T. Murakami, N. C. Rodrigues, L. M. Gava, F. Canduri, G. Oliva, L. R. S. J. C. Borgers
Date :  08 Mar 12  (Deposition) - 27 Mar 13  (Release) - 27 Mar 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.27
Chains :  Asym./Biol. Unit :  A
Keywords :  Tim-Barrel Fold, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. T. Murakami, N. C. Rodrigues, L. M. Gava, F. Canduri, G. Oliva, L. R. S. Barbosa, J. C. Borgers
High Resolution Crystal Structure And In Solution Studies O The Old Yellow Enzyme From Trypanosoma Cruzi: Insights Into Oligomerization, Enzyme Dynamics And Specificity
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - OLD YELLOW ENZYME
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: TRYPANOSOMA CRUZI
    Organism Taxid: 5693

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 7)

Asymmetric/Biological Unit (3, 7)
No.NameCountTypeFull Name
1FMN1Ligand/IonFLAVIN MONONUCLEOTIDE
2GOL3Ligand/IonGLYCEROL
3PEG3Ligand/IonDI(HYDROXYETHYL)ETHER

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:25 , PRO A:26 , LEU A:27 , THR A:28 , ALA A:61 , GLN A:103 , HIS A:195 , ASN A:198 , ARG A:249 , ASN A:313 , LEU A:314 , ARG A:315 , PHE A:335 , GLY A:336 , ALA A:337 , TYR A:363 , TYR A:364 , GOL A:407 , HOH A:504 , HOH A:514 , HOH A:665 , HOH A:667 , HOH A:746 , HOH A:838BINDING SITE FOR RESIDUE FMN A 401
2AC2SOFTWAREGLU A:162 , LEU A:163 , THR A:164 , ARG A:213 , GLN A:214 , SER A:215 , HOH A:573 , HOH A:633 , HOH A:691 , HOH A:825BINDING SITE FOR RESIDUE GOL A 402
3AC3SOFTWAREARG A:19 , ASN A:20 , SER A:53 , HOH A:596 , HOH A:643BINDING SITE FOR RESIDUE GOL A 403
4AC4SOFTWARESER A:209 , ILE A:260 , ASP A:261 , SER A:262 , ARG A:359 , GLU A:361 , HOH A:773BINDING SITE FOR RESIDUE PEG A 404
5AC5SOFTWARELYS A:46 , ASP A:50 , ASN A:372 , TYR A:374 , THR A:376BINDING SITE FOR RESIDUE PEG A 405
6AC6SOFTWAREPRO A:10 , THR A:17 , HOH A:596BINDING SITE FOR RESIDUE PEG A 406
7AC7SOFTWAREHIS A:195 , ASN A:198 , TYR A:200 , FMN A:401 , HOH A:626 , HOH A:628 , HOH A:838BINDING SITE FOR RESIDUE GOL A 407

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4E2B)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4E2B)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4E2B)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4E2B)

(-) Exons   (0, 0)

(no "Exon" information available for 4E2B)

(-) 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:378
 aligned with Q2TJB8_TRYCR | Q2TJB8 from UniProtKB/TrEMBL  Length:379

    Alignment length:378
                                    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        
         Q2TJB8_TRYCR     1 MATFPELLRPLKLGRYTLRNRIIMAPLTRCQATEDGHVPRTESMLKYYEDRASAGLIIAEATMVQPNYTGFLTEPGIYSDAQIEEWRKIVDAVHKKGGLIFLQLIHAGRAGIPEKILQQPKSDQDPLAGRLLAASAIPIKDHRIPAYFAASGEKETYGVPEELTDDEVRNGIIPLFVEGAKNAIFKAGFDGVEIHGANGYLLDAFFRESSNKRQSGPYAGTTIDTRCQLIYDVTKSVCDAVGSDRVGLRISPLNGVHGMIDSNPEALTKHLCKKIEPLSLAYLHYLRGDMVNQQIGDVVAWVRGSYSGVKISNLRYDFEEADQQIREGKVDAVAFGAKFIANPDLVERAQHDWPLNEPRPETYYTRTAVGYNDYPTYN 378
               SCOP domains d4e2ba_ A: automated matches                                                                                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..........eee..eee...eee...............hhhhhhhhhhh.....eeeeeeee...............hhhhhhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhh..............ee...........................ee.hhhhhhhhhhhhhhhhhhhhhhh....eeeeee...hhhhhhhh..............hhhhhhhhhhhhhhhhhhhhh...eeeee....hhhhh...hhhhhhhhhhhhhhhhh..eeeee..........hhhhhhhhhh...eeee...hhhhhhhhhhh....eeeehhhhhhh.hhhhhhhhh......hhhhh............... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4e2b A   1 MATFPELLRPLKLGRYTLRNRIIMAPLTRCQATEDGHVPRTESMLKYYEDRASAGLIIAEATMVQPNYTGFLTEPGIYSDAQIEEWRKIVDAVHKKGGLIFLQLIHAGRAGIPEKILQQPKSDQDPLAGRLLAASAIPIKDHRIPAYFAASGEKETYGVPEELTDDEVRNGIIPLFVEGAKNAIFKAGFDGVEIHGANGYLLDAFFRESSNKRQSGPYAGTTIDTRCQLIYDVTKSVCDAVGSDRVGLRISPLNGVHGMIDSNPEALTKHLCKKIEPLSLAYLHYLRGDMVNQQIGDVVAWVRGSYSGVKISNLRYDFEEADQQIREGKVDAVAFGAKFIANPDLVERAQHDWPLNEPRPETYYTRTAVGYNDYPTYN 378
                                    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
   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, 1)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4E2B)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4E2B)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q2TJB8_TRYCR | Q2TJB8)
molecular function
    GO:0010181    FMN binding    Interacting selectively and non-covalently with flavin mono nucleotide. Flavin mono nucleotide (FMN) is the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes.
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    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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 Related Entries

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

UniProtKB/TrEMBL
        Q2TJB8_TRYCR | Q2TJB8: 4e2d

(-) Related Entries Specified in the PDB File

3aty THE SAME PROTEIN CRYSTALLIZED IN A DIFFERENT CRYSTALLINE FORM
3atz THE SAME PROTEIN IN COMPLEX WITH PHBA
4e2d THE SAME PROTEIN CRYSTALLIZED IN OTHER CRYSTALLINE FORM