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(-) Description

Title :  TERMUS THERMOPHILUS SULFATE THIOHYDROLASE SOXB IN COMPLEX WITH THIOSULFATE
 
Authors :  V. Sauve, P. Roversi, K. J. Leath, E. F. Garman, R. Antrobus, S. M. Lea, B.
Date :  24 Mar 09  (Deposition) - 16 Jun 09  (Release) - 05 Jul 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.85
Chains :  Asym./Biol. Unit :  A
Keywords :  Hydrolase, Sulfur Oxidation Pathway, Sox, Soxb, Sulfur-Sulfur Hydrolysis, Cys S-Thiosulfonate (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. Sauve, P. Roversi, K. J. Leath, E. F. Garman, R. Antrobus, S. M. Lea, B. C. Berks
Mechanism For The Hydrolysis Of A Sulfur-Sulfur Bond Based On The Crystal Structure Of The Thiosulfohydrolase Soxb.
J. Biol. Chem. V. 284 21707 2009
PubMed-ID: 19535341  |  Reference-DOI: 10.1074/JBC.M109.002709

(-) Compounds

Molecule 1 - SULFUR OXIDATION PROTEIN SOXB
    Chains: A
    EC Number: 3.12.2.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PVS048
    Expression System Strain: ROSETTA 2
    Expression System Taxid: 562
    Expression System Variant: DE3
    Expression System Vector: PQE80L
    Fragment: RESIDUES 24-573
    Organism Scientific: THERMUS THERMOPHILUS
    Organism Taxid: 262724
    Other Details: THERMUS THERMOPHILUS HB27 SOXB
    Strain: HB27
    Synonym: SOXB

 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
1MN2Ligand/IonMANGANESE (II) ION
2TBU4Ligand/IonTERTIARY-BUTYL ALCOHOL
3THJ1Ligand/IonTHIOSULFATE

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:455 , SER A:547 , HOH A:2327 , HOH A:2439BINDING SITE FOR RESIDUE TBU A 1573
2AC2SOFTWARETRP A:331 , ALA A:336 , HIS A:349BINDING SITE FOR RESIDUE TBU A 1574
3AC3SOFTWAREGLU A:157 , GLU A:186 , HOH A:2128BINDING SITE FOR RESIDUE TBU A 1575
4AC4SOFTWARETYR A:433BINDING SITE FOR RESIDUE TBU A 1576
5AC5SOFTWAREASP A:47 , HIS A:49 , ASP A:143 , HIS A:299 , MN A:1578 , THJ A:1579 , HOH A:2438BINDING SITE FOR RESIDUE MN A 1577
6AC6SOFTWAREASP A:143 , HIS A:174 , HIS A:274 , HIS A:297 , MN A:1577 , THJ A:1579 , HOH A:2438BINDING SITE FOR RESIDUE MN A 1578
7AC7SOFTWAREHIS A:49 , ASP A:143 , HIS A:174 , TRP A:175 , HIS A:297 , HIS A:299 , VAL A:415 , ARG A:416 , TRP A:417 , MN A:1577 , MN A:1578 , HOH A:2438BINDING SITE FOR RESIDUE THJ A 1579

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2WDE)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Gln A:472 -Gln A:473

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2WDE)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2WDE)

(-) Exons   (0, 0)

(no "Exon" information available for 2WDE)

(-) 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:545
 aligned with Q72IT0_THET2 | Q72IT0 from UniProtKB/TrEMBL  Length:573

    Alignment length:545
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508       518       528       538       548       558       568     
         Q72IT0_THET2    29 RSLYDLPPYGDATLLYFSDLHGQAFPHYFMEPPNLIAPKPLMGRPGYLTGEAILRYYGVERGTPLAYLLSYVDFVELARTFGPIGGMGALTALIRDQKARVEAEGGKALVLDGGDTWTNSGLSLLTRGEAVVRWQNLVGVDHMVSHWEWTLGRERVEELLGLFRGEFLSYNIVDDLFGDPLFPAYRIHRVGPYALAVVGASYPYVKVSHPESFTEGLSFALDERRLQEAVDKARAEGANAVVLLSHNGMQLDAALAERIRGIDLILSGHTHDLTPRPWRVGKTWIVAGSAAGKALMRVDLKLWKGGIANLRVRVLPVLAEHLPKAEDVEAFLKAQLAPHQDHLFTPLAVSETLLYKRDTLYSTWDQLVGEAVKAIYPEVEVVFSPAVRWGTTILPGQAITWDHLYAYTGFTYPELYLFYLRGAQIKAVLEDIASNVFTSDPFYQQGGDVSRVFGLRYVLDPDAPTGERVREVEVGGRPLDPNRRYLAAAYGGRLQRVGEAKPGYEPRPIYEVLAEYLRSVGRVRVRPEPNVKVIGRNYRLPEVTG 573
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------5_nucleotid_C-2wdeA01 A:374-525                                                                                                                         ------------------------------------------------ Pfam domains
         Sec.struct. author ...........eeeeee....................hhhhh......hhhhhhhhhh....hhhhhhhh..hhhhhhhhhh...hhhhhhhhhhhhhhhhhhh..eeeeee.......hhhhhhh.hhhhhhhhhhhh..ee..hhhhhhhhhhhhhhhhhh..ee.....ee..........eeeeee..eeeeeeee...hhhhhhhhhhhh.ee...hhhhhhhhhhhhhhh...eeeeee..hhhhhhhhhh......eeee..........eee..eeeee......eeeeeeeeee..eeeeeeeeeee..hhhh..hhhhhhhhhhhhh.hhhhhhh..eee...........hhhhhhhhhhhhhhh....eeee.............eehhhhhhhhhh....eeeeeeeehhhhhhhhhhhhhhhh..hhhhh......eee.eeeee.........eeeeee..ee.....eeeeeee..hhhhhhee......eehhhhhhhhhhhhhee.......eee............ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2wde A  29 RSLYDLPPYGDATLLYFSDLHGQAFPHYFMEPPNLIAPKPLMGRPGYLTGEAILRYYGVERGTPLAYLLSYVDFVELARTFGPIGGMGALTALIRDQKARVEAEGGKALVLDGGDTWTNSGLSLLTRGEAVVRWQNLVGVDHMVSHWEWTLGRERVEELLGLFRGEFLSYNIVDDLFGDPLFPAYRIHRVGPYALAVVGASYPYVKVSHPESFTEGLSFALDERRLQEAVDKARAEGANAVVLLSHNGMQLDAALAERIRGIDLILSGHTHDLTPRPWRVGKTWIVAGSAAGKALMRVDLKLWKGGIANLRVRVLPVLAEHLPKAEDVEAFLKAQLAPHQDHLFTPLAVSETLLYKRDTLYSTWDQLVGEAVKAIYPEVEVVFSPAVRWGTTILPGQAITWDHLYAYTGFTYPELYLFYLRGAQIKAVLEDIASNVFTSDPFYQQGGDVSRVFGLRYVLDPDAPTGERVREVEVGGRPLDPNRRYLAAAYGGRLQRVGEAKPGYEPRPIYEVLAEYLRSVGRVRVRPEPNVKVIGRNYRLPEVTG 573
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508       518       528       538       548       558       568
   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 2WDE)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2WDE)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: 5_nucleotid_C] (8)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q72IT0_THET2 | Q72IT0)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    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.
biological process
    GO:0009166    nucleotide catabolic process    The chemical reactions and pathways resulting in the breakdown of nucleotides, any nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the glycose moiety; may be mono-, di- or triphosphate; this definition includes cyclic-nucleotides (nucleoside cyclic phosphates).

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 Related Entries

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

UniProtKB/TrEMBL
        Q72IT0_THET2 | Q72IT0: 2wdc 2wdd 2wdf 4uwq

(-) Related Entries Specified in the PDB File

2wdc TERMUS THERMOPHILUS SULFATE THIOHYDROLASE SOXB IN COMPLEX WITH GLYCEROL
2wdd TERMUS THERMOPHILUS SULFATE THIOHYDROLASE SOXB IN COMPLEX WITH SULFATE
2wdf TERMUS THERMOPHILUS SULFATE THIOHYDROLASE SOXB