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(-) Description

Title :  TERMUS THERMOPHILUS SULFATE THIOHYDROLASE SOXB IN COMPLEX WITH GLYCEROL
 
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 :  1.50
Chains :  Asym./Biol. Unit :  A
Keywords :  Sulfur-Sulfur Hydrolysis, Sulfur Oxidation Pathway, Sox, Soxb, Cys S- Thiosulfonate, Hydrolase (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  (4, 17)

Asymmetric/Biological Unit (4, 17)
No.NameCountTypeFull Name
1ACT4Ligand/IonACETATE ION
2GOL5Ligand/IonGLYCEROL
3MN2Ligand/IonMANGANESE (II) ION
4TBU6Ligand/IonTERTIARY-BUTYL ALCOHOL

(-) Sites  (17, 17)

Asymmetric Unit (17, 17)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLN A:452 , ALA A:455 , VAL A:456 , ASP A:459 , SER A:547 , TBU A:1589 , HOH A:2554BINDING SITE FOR RESIDUE GOL A 1574
02AC2SOFTWARELEU A:82 , ARG A:83 , VAL A:87 , GLU A:88 , LEU A:204 , PHE A:205 , HOH A:2060 , HOH A:2555 , HOH A:2556BINDING SITE FOR RESIDUE GOL A 1575
03AC3SOFTWARETYR A:37 , ARG A:107 , THR A:108 , GLY A:110 , LYS A:329 , GLU A:348 , HOH A:2019 , HOH A:2557 , HOH A:2558BINDING SITE FOR RESIDUE GOL A 1576
04AC4SOFTWAREHIS 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:1590 , MN A:1591 , HOH A:2438 , HOH A:2560 , HOH A:2561BINDING SITE FOR RESIDUE GOL A 1577
05AC5SOFTWAREPRO A:36 , TYR A:37 , GLY A:38 , ASP A:39 , ALA A:40 , THR A:41 , VAL A:129 , GLU A:132 , GLY A:134 , LYS A:135 , ARG A:325 , ASP A:327 , HOH A:2559BINDING SITE FOR RESIDUE GOL A 1578
06AC6SOFTWAREGLY A:549 , HOH A:2361 , HOH A:2564BINDING SITE FOR RESIDUE ACT A 1580
07AC7SOFTWAREGLU A:379 , ARG A:552BINDING SITE FOR RESIDUE ACT A 1581
08AC8SOFTWAREPRO A:54 , ACT A:1583BINDING SITE FOR RESIDUE ACT A 1582
09AC9SOFTWAREPHE A:53 , ACT A:1582BINDING SITE FOR RESIDUE ACT A 1583
10BC1SOFTWAREHIS A:349BINDING SITE FOR RESIDUE TBU A 1584
11BC2SOFTWARELYS A:361 , GLN A:368BINDING SITE FOR RESIDUE TBU A 1585
12BC3SOFTWAREGLU A:194 , PHE A:195 , PRO A:211 , HOH A:2199BINDING SITE FOR RESIDUE TBU A 1586
13BC4SOFTWAREGLU A:157BINDING SITE FOR RESIDUE TBU A 1587
14BC5SOFTWARELEU A:152 , TYR A:433 , HOH A:2074BINDING SITE FOR RESIDUE TBU A 1588
15BC6SOFTWAREALA A:402 , SER A:547 , GOL A:1574 , HOH A:2420BINDING SITE FOR RESIDUE TBU A 1589
16BC7SOFTWAREASP A:47 , HIS A:49 , ASP A:143 , HIS A:299 , GOL A:1577 , MN A:1591 , HOH A:2561BINDING SITE FOR RESIDUE MN A 1590
17BC8SOFTWAREASP A:143 , HIS A:174 , HIS A:274 , HIS A:297 , GOL A:1577 , MN A:1590 , HOH A:2561BINDING SITE FOR RESIDUE MN A 1591

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2WDC)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2WDC)

(-) 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:542
 aligned with Q72IT0_THET2 | Q72IT0 from UniProtKB/TrEMBL  Length:573

    Alignment length:542
                                    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       491       501       511       521       531       541       551       561       571  
         Q72IT0_THET2    32 YDLPPYGDATLLYFSDLHGQAFPHYFMEPPNLIAPKPLMGRPGYLTGEAILRYYGVERGTPLAYLLSYVDFVELARTFGPIGGMGALTALIRDQKARVEAEGGKALVLDGGDTWTNSGLSLLTRGEAVVRWQNLVGVDHMVSHWEWTLGRERVEELLGLFRGEFLSYNIVDDLFGDPLFPAYRIHRVGPYALAVVGASYPYVKVSHPESFTEGLSFALDERRLQEAVDKARAEGANAVVLLSHNGMQLDAALAERIRGIDLILSGHTHDLTPRPWRVGKTWIVAGSAAGKALMRVDLKLWKGGIANLRVRVLPVLAEHLPKAEDVEAFLKAQLAPHQDHLFTPLAVSETLLYKRDTLYSTWDQLVGEAVKAIYPEVEVVFSPAVRWGTTILPGQAITWDHLYAYTGFTYPELYLFYLRGAQIKAVLEDIASNVFTSDPFYQQGGDVSRVFGLRYVLDPDAPTGERVREVEVGGRPLDPNRRYLAAAYGGRLQRVGEAKPGYEPRPIYEVLAEYLRSVGRVRVRPEPNVKVIGRNYRLPEVTG 573
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeeee....................hhhhh......hhhhhhhhhh....hhhhhhhh..hhhhhhhhhh...hhhhhhhhhhhhhhhhhhh...eeeee.......hhhhhhh.hhhhhhhhhhhh..ee..hhhhhhhhhhhhhhhhhh..ee.....ee..........eeeeee..eeeeeeee...hhhhhhhhhhhh.ee...hhhhhhhhhhhhhhh...eeeeee..hhhhhhhhhh......eeee..........eee..eeeee......eeeeeeeeee..eeeeeeeeeee..hhhh..hhhhhhhhhhhhh.hhhhhhh..eee...........hhhhhhhhhhhhhhh....eeee............eeehhhhhhhhhh....eeeeeeeehhhhhhhhhhhhhhhh..hhhhh......eee.eeeee.........eeeeee..ee.....eeeeeee..hhhhhhee......eehhhhhhhhhhhhhee.......eee............ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2wdc A  32 YDLPPYGDATLLYFSDLHGQAFPHYFMEPPNLIAPKPLMGRPGYLTGEAILRYYGVERGTPLAYLLSYVDFVELARTFGPIGGMGALTALIRDQKARVEAEGGKALVLDGGDTWTNSGLSLLTRGEAVVRWQNLVGVDHMVSHWEWTLGRERVEELLGLFRGEFLSYNIVDDLFGDPLFPAYRIHRVGPYALAVVGASYPYVKVSHPESFTEGLSFALDERRLQEAVDKARAEGANAVVLLSHNGMQLDAALAERIRGIDLILSGHTHDLTPRPWRVGKTWIVAGSAAGKALMRVDLKLWKGGIANLRVRVLPVLAEHLPKAEDVEAFLKAQLAPHQDHLFTPLAVSETLLYKRDTLYSTWDQLVGEAVKAIYPEVEVVFSPAVRWGTTILPGQAITWDHLYAYTGFTYPELYLFYLRGAQIKAVLEDIASNVFTSDPFYQQGGDVSRVFGLRYVLDPDAPTGERVREVEVGGRPLDPNRRYLAAAYGGRLQRVGEAKPGYEPRPIYEVLAEYLRSVGRVRVRPEPNVKVIGRNYRLPEVTG 573
                                    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       491       501       511       521       531       541       551       561       571
   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 2WDC)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2WDC)

(-) 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: 2wdd 2wde 2wdf 4uwq

(-) Related Entries Specified in the PDB File

2wdd TERMUS THERMOPHILUS SULFATE THIOHYDROLASE SOXB IN COMPLEX WITH SULFATE
2wde TERMUS THERMOPHILUS SULFATE THIOHYDROLASE SOXB IN COMPLEX WITH THIOSULFATE
2wdf TERMUS THERMOPHILUS SULFATE THIOHYDROLASE SOXB