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(-) Description

Title :  CRYSTAL STRUCTURE OF THE THIOREDOXIN REDUCTASE FROM ENTAMOEBA HISTOLYTICA WITH AURANOFIN AU(I) BOUND TO CYS286
 
Authors :  D. Parsonage, P. M. Kells, K. Hirata, A. Debnath, L. B. Poole, J. H. Mcker S. L. Reed, L. M. Podust
Date :  16 Oct 13  (Deposition) - 05 Nov 14  (Release) - 06 Apr 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.94
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Oxidoreductase, Amoebiasis, Redox Metabolism, Oxidative Stress (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Parsonage, F. Sheng, K. Hirata, A. Debnath, J. H. Mckerrow, S. L. Reed, R. Abagyan, L. B. Poole, L. M. Podust
X-Ray Structures Of Thioredoxin And Thioredoxin Reductase From Entamoeba Histolytica And Prevailing Hypothesis Of The Mechanism Of Auranofin Action.
J. Struct. Biol. V. 194 180 2016
PubMed-ID: 26876147  |  Reference-DOI: 10.1016/J.JSB.2016.02.015

(-) Compounds

Molecule 1 - THIOREDOXIN REDUCTASE
    Chains: A, B
    EC Number: 1.8.1.9
    Engineered: YES
    Expression System: ESCHERICHIA COLI B
    Expression System Plasmid: PTRCHISA
    Expression System Strain: B834
    Expression System Taxid: 37762
    Expression System Vector: PTRCHIS
    Expression System Vector Type: PLASMID
    Organism Scientific: ENTAMOEBA HISTOLYTICA
    Organism Taxid: 5759

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 13)

Asymmetric/Biological Unit (5, 13)
No.NameCountTypeFull Name
1AU2Ligand/IonGOLD ION
2CL2Ligand/IonCHLORIDE ION
3FAD2Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE
4NDP2Ligand/IonNADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
5SO45Ligand/IonSULFATE ION

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLY A:160 , GLY A:161 , ASP A:162 , ALA A:163 , GLU A:166 , HIS A:182 , ARG A:183 , ARG A:184 , ARG A:188 , ALA A:245 , ILE A:246 , SO4 A:1316 , FAD A:1320 , HOH A:2125 , HOH A:2126 , HOH A:2128 , HOH A:2131 , HOH A:2134 , HOH A:2168 , HOH A:2217 , HOH A:2218 , HOH A:2219 , HOH A:2220 , HOH A:2222BINDING SITE FOR RESIDUE NDP A1315
02AC2SOFTWARESO4 A:1316 , HOH A:2133 , LYS B:122 , GLY B:160 , GLY B:161 , ASP B:162 , ALA B:163 , HIS B:182 , ARG B:183 , ARG B:184 , ARG B:188 , ALA B:245 , ILE B:246 , HIS B:248 , TYR B:290 , ARG B:291 , GLN B:292 , HOH B:2099 , HOH B:2100 , HOH B:2107 , HOH B:2108 , HOH B:2110 , HOH B:2147 , HOH B:2192BINDING SITE FOR RESIDUE NDP B1315
03AC3SOFTWAREARG A:183 , NDP A:1315 , ARG B:183 , NDP B:1315BINDING SITE FOR RESIDUE SO4 A1316
04AC4SOFTWARELEU B:268 , LYS B:273 , THR B:274 , SER B:275 , HOH B:2159BINDING SITE FOR RESIDUE SO4 B1316
05AC5SOFTWAREGLY B:128 , GLU B:129 , ASP B:130 , LYS B:131 , HOH B:2082BINDING SITE FOR RESIDUE SO4 B1317
06AC6SOFTWAREPRO A:127 , GLY A:128 , GLU A:129 , ASP A:130 , LYS A:131 , HOH A:2107BINDING SITE FOR RESIDUE SO4 A1317
07AC7SOFTWARELEU A:268 , THR A:269 , GLU A:270 , THR A:274 , SER A:275 , HOH A:2182 , HOH A:2194BINDING SITE FOR RESIDUE SO4 A1318
08AC8SOFTWARECYS A:286BINDING SITE FOR RESIDUE AU A1319
09AC9SOFTWARECYS B:286BINDING SITE FOR RESIDUE AU B1318
10BC1SOFTWAREILE A:10 , GLY A:11 , SER A:12 , GLY A:13 , PRO A:14 , ALA A:15 , TYR A:33 , GLU A:34 , GLY A:35 , ALA A:38 , VAL A:41 , ALA A:42 , ALA A:43 , GLY A:45 , GLN A:46 , LEU A:47 , THR A:50 , ILE A:53 , ASN A:55 , THR A:87 , ILE A:88 , ALA A:116 , THR A:117 , GLY A:118 , ALA A:119 , HIS A:248 , GLY A:283 , ASP A:284 , ARG A:291 , GLN A:292 , ALA A:293 , ALA A:296 , NDP A:1315 , HOH A:2009 , HOH A:2022 , HOH A:2037 , HOH A:2042 , HOH A:2044 , HOH A:2098 , HOH A:2099 , HOH A:2224 , TYR B:22BINDING SITE FOR RESIDUE FAD A1320
11BC2SOFTWARETYR A:22 , HOH A:2015 , ILE B:10 , GLY B:11 , SER B:12 , GLY B:13 , PRO B:14 , ALA B:15 , TYR B:33 , GLU B:34 , GLY B:35 , ALA B:38 , VAL B:41 , ALA B:42 , ALA B:43 , GLY B:45 , GLN B:46 , LEU B:47 , THR B:50 , ILE B:53 , ASN B:55 , ILE B:88 , THR B:117 , GLY B:118 , ALA B:119 , GLY B:283 , ASP B:284 , ARG B:291 , GLN B:292 , ALA B:293 , ALA B:296 , HOH B:2013 , HOH B:2025 , HOH B:2034 , HOH B:2039 , HOH B:2040 , HOH B:2074 , HOH B:2075 , HOH B:2193BINDING SITE FOR RESIDUE FAD B1321

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:140 -A:143
2B:140 -B:143

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Gln A:96 -Pro A:97
2Gln B:96 -Pro B:97

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4CBQ)

(-) 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:312
 aligned with C4LW95_ENTHI | C4LW95 from UniProtKB/TrEMBL  Length:314

    Alignment length:312
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312  
         C4LW95_ENTHI     3 NIHDVVIIGSGPAAHTAAIYLGRSSLKPVMYEGFMAGGVAAGGQLTTTTIIENFPGFPNGIDGNELMMNMRTQSEKYGTTIITETIDHVDFSTQPFKLFTEEGKEVLTKSVIIATGATAKRMHVPGEDKYWQNGVSACAICDGAVPIFRNKVLMVVGGGDAAMEEALHLTKYGSKVIILHRRDAFRASKTMQERVLNHPKIEVIWNSELVELEGDGDLLNGAKIHNLVSGEYKVVPVAGLFYAIGHSPNSKFLGGQVKTADDGYILTEGPKTSVDGVFACGDVCDRVYRQAIVAAGSGCMAALSCEKWLQTH 314
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeee..hhhhhhhhhhhhhh....eee...hhhhh...hhhhhh.ee.........eehhhhhhhhhhhhhhh..eee...eeeee.....eeeee....eeeeeeeee...eee......hhhhhh...ee.hhhhhh.hhhhh..eeeee..hhhhhhhhhhhh....eeeee........hhhhhhhhhh...eeee..eeeeeeee....eeeeeeee.....eeeee..eeee...eee.hhhhh......................eee..........hhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4cbq A   3 NIHDVVIIGSGPAAHTAAIYLGRSSLKPVMYEGFMAGGVAAGGQLTTTTIIENFPGFPNGIDGNELMMNMRTQSEKYGTTIITETIDHVDFSTQPFKLFTEEGKEVLTKSVIIATGATAKRMHVPGEDKYWQNGVSACAICDGAVPIFRNKVLMVVGGGDAAMEEALHLTKYGSKVIILHRRDAFRASKTMQERVLNHPKIEVIWNSELVELEGDGDLLNGAKIHNLVSGEYKVVPVAGLFYAIGHSPNSKFLGGQVKTADDGYILTEGPKTSVDGVFACGDVCDRVYRQAIVAAGSGCMAALSCEKWLQTH 314
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312  


Chain B from PDB  Type:PROTEIN  Length:312
 aligned with C4LW95_ENTHI | C4LW95 from UniProtKB/TrEMBL  Length:314

    Alignment length:312
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312  
         C4LW95_ENTHI     3 NIHDVVIIGSGPAAHTAAIYLGRSSLKPVMYEGFMAGGVAAGGQLTTTTIIENFPGFPNGIDGNELMMNMRTQSEKYGTTIITETIDHVDFSTQPFKLFTEEGKEVLTKSVIIATGATAKRMHVPGEDKYWQNGVSACAICDGAVPIFRNKVLMVVGGGDAAMEEALHLTKYGSKVIILHRRDAFRASKTMQERVLNHPKIEVIWNSELVELEGDGDLLNGAKIHNLVSGEYKVVPVAGLFYAIGHSPNSKFLGGQVKTADDGYILTEGPKTSVDGVFACGDVCDRVYRQAIVAAGSGCMAALSCEKWLQTH 314
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeee..hhhhhhhhhhhhhh....eee...hhhhh...hhhhhh.ee.........eehhhhhhhhhhhhhhh..eee...eeeee.....eeeee....eeeeeeeee...eee......hhhhhh...ee.hhhhhh.hhhhh..eeeee..hhhhhhhhhhhh....eeeee........hhhhhhhhhh...eeee..eeeeeeee....eeeeeeee.....eeeee..eeee...eee.hhhhh......................eee.hhhh.....hhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4cbq B   3 NIHDVVIIGSGPAAHTAAIYLGRSSLKPVMYEGFMAGGVAAGGQLTTTTIIENFPGFPNGIDGNELMMNMRTQSEKYGTTIITETIDHVDFSTQPFKLFTEEGKEVLTKSVIIATGATAKRMHVPGEDKYWQNGVSACAICDGAVPIFRNKVLMVVGGGDAAMEEALHLTKYGSKVIILHRRDAFRASKTMQERVLNHPKIEVIWNSELVELEGDGDLLNGAKIHNLVSGEYKVVPVAGLFYAIGHSPNSKFLGGQVKTADDGYILTEGPKTSVDGVFACGDVCDRVYRQAIVAAGSGCMAALSCEKWLQTH 314
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312
   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 4CBQ)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (C4LW95_ENTHI | C4LW95)
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.
    GO:0004791    thioredoxin-disulfide reductase activity    Catalysis of the reaction: NADP(+) + thioredoxin = H(+) + NADPH + thioredoxin disulfide.
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.
    GO:0019430    removal of superoxide radicals    Any process, acting at the cellular level, involved in removing superoxide radicals (O2-) from a cell or organism, e.g. by conversion to dioxygen (O2) and hydrogen peroxide (H2O2).
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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  4cbq
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 Related Entries

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

UniProtKB/TrEMBL
        C4LW95_ENTHI | C4LW95: 4a5l 4a65 4ccq 4ccr 4up3

(-) Related Entries Specified in the PDB File

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