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(-) Description

Title :  CRYSTAL STRUCTURE ANALYSIS OF YEAST HYPOTHETICAL PROTEIN: YJG8_YEAST
 
Authors :  C. Millard, D. Kumaran, S. Eswaramoorthy, S. Swaminathan, S. K. Burley, New York Sgx Research Center For Structural Genomics (Nysgxrc)
Date :  26 Jun 03  (Deposition) - 30 Nov 04  (Release) - 11 Nov 08  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Structural Genomics, Hypothetical, Esterase, Psi, Protein Structure Initiative, New York Sgx Research Center For Structural Genomics, Nysgxrc, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  P. M. Legler, D. Kumaran, S. Swaminathan, F. W. Studier, C. B. Millard
Structural Characterization And Reversal Of The Natural Organophosphate Resistance Of A D-Type Esterase, Saccharomyces Cerevisiae S-Formylglutathione Hydrolase.
Biochemistry V. 47 9592 2008
PubMed-ID: 18707125  |  Reference-DOI: 10.1021/BI8010016
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - HYPOTHETICAL 33.9 KDA ESTERASE IN SMC3-MRPL8 INTERGENIC REGION
    ChainsA, B, C, D
    EC Number3.1.1.-
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    GeneYJL068C, J1102 OR HRE299
    Organism CommonBAKER'S YEAST
    Organism ScientificSACCHAROMYCES CEREVISIAE
    Organism Taxid4932

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1PV1)

(-) Sites  (0, 0)

(no "Site" information available for 1PV1)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1PV1)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1PV1)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1PV1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1PV1)

(-) Exons   (1, 4)

Asymmetric/Biological Unit (1, 4)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1YJL068C1YJL068C.1X:313909-313010900SFGH_YEAST1-2992994A:1-299 (gaps)
B:1-299 (gaps)
C:1-299 (gaps)
D:1-299 (gaps)
299
299
299
299

(-) 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:290
 aligned with SFGH_YEAST | P40363 from UniProtKB/Swiss-Prot  Length:299

    Alignment length:299
                                    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         
           SFGH_YEAST     1 MKVVKEFSVCGGRLIKLSHNSNSTKTSMNVNIYLPKHYYAQDFPRNKRIPTVFYLSGLTCTPDNASEKAFWQFQADKYGFAIVFPDTSPRGDEVANDPEGSWDFGQGAGFYLNATQEPYAQHYQMYDYIHKELPQTLDSHFNKNGDVKLDFLDNVAITGHSMGGYGAICGYLKGYSGKRYKSCSAFAPIVNPSNVPWGQKAFKGYLGEEKAQWEAYDPCLLIKNIRHVGDDRILIHVGDSDPFLEEHLKPELLLEAVKATSWQDYVEIKKVHGFDHSYYFVSTFVPEHAEFHARNLGLI 299
               SCOP domains d1pv1a_ A: Hypothetical esterase YJL068C                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains 1pv1A00 A:1-299  [code=3.40.50.1820, no name defined]                                                                                                                                                                                                                                                       CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee..eeeeeeeee......eeeeeeee................eeeee......hhhhhhhhhhhhhhhhhh.eeee...............................hhhhhh..hhhhhhhhhhhhhhhhhhh-----.......eeeeeehhhhhhhhhhhhhhhhhh...eeeee........hhhhhhhhhhhh..----hhhhhhhhhhhhh.......eeee.............hhhhhhhhh.......eeee.......hhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: A:1-299 (gaps) UniProt: 1-299                                                                                                                                                                                                                                                                Transcript 1
                 1pv1 A   1 MKVVKEFSVCGGRLIKLSHNSNSTKTSMNVNIYLPKHYYAQDFPRNKRIPTVFYLSGLTCTPDNASEKAFWQFQADKYGFAIVFPDTSPRGDEVANDPEGSWDFGQGAGFYLNATQEPYAQHYQMYDYIHKELPQTLDSHFN-----KLDFLDNVAITGHSMGGYGAICGYLKGYSGKRYKSCSAFAPIVNPSNVPWGQKAFKGYLGE----WEAYDPCLLIKNIRHVGDDRILIHVGDSDPFLEEHLKPELLLEAVKATSWQDYVEIKKVHGFDHSYYFVSTFVPEHAEFHARNLGLI 299
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140 |     150       160       170       180       190       200       | -  |    220       230       240       250       260       270       280       290         
                                                                                                                                                                       142   148                                                         208  213                                                                                      

Chain B from PDB  Type:PROTEIN  Length:290
 aligned with SFGH_YEAST | P40363 from UniProtKB/Swiss-Prot  Length:299

    Alignment length:299
                                    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         
           SFGH_YEAST     1 MKVVKEFSVCGGRLIKLSHNSNSTKTSMNVNIYLPKHYYAQDFPRNKRIPTVFYLSGLTCTPDNASEKAFWQFQADKYGFAIVFPDTSPRGDEVANDPEGSWDFGQGAGFYLNATQEPYAQHYQMYDYIHKELPQTLDSHFNKNGDVKLDFLDNVAITGHSMGGYGAICGYLKGYSGKRYKSCSAFAPIVNPSNVPWGQKAFKGYLGEEKAQWEAYDPCLLIKNIRHVGDDRILIHVGDSDPFLEEHLKPELLLEAVKATSWQDYVEIKKVHGFDHSYYFVSTFVPEHAEFHARNLGLI 299
               SCOP domains d1pv1b_ B: Hypothetical esterase YJL068C                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains 1pv1B00 B:1-299  [code=3.40.50.1820, no name defined]                                                                                                                                                                                                                                                       CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee..eeeeeeeeee....eeeeeeeee................eeeee......hhhhhhhhhhhhhhhhhh.eeeee......................................hhhhhhhhhhhhhhhhhhh-----.......eeeee.hhhhhhhhhhhhhhhhhh...eeeee........hhhhhhhhhhhh..----....hhhhhhhhh.......eeee.............hhhhhhhhh.......eeee.......hhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: B:1-299 (gaps) UniProt: 1-299                                                                                                                                                                                                                                                                Transcript 1
                 1pv1 B   1 MKVVKEFSVCGGRLIKLSHNSNSTKTSMNVNIYLPKHYYAQDFPRNKRIPTVFYLSGLTCTPDNASEKAFWQFQADKYGFAIVFPDTSPRGDEVANDPEGSWDFGQGAGFYLNATQEPYAQHYQMYDYIHKELPQTLDSHFN-----KLDFLDNVAITGHSMGGYGAICGYLKGYSGKRYKSCSAFAPIVNPSNVPWGQKAFKGYLGE----WEAYDPCLLIKNIRHVGDDRILIHVGDSDPFLEEHLKPELLLEAVKATSWQDYVEIKKVHGFDHSYYFVSTFVPEHAEFHARNLGLI 299
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140 |     150       160       170       180       190       200       | -  |    220       230       240       250       260       270       280       290         
                                                                                                                                                                       142   148                                                         208  213                                                                                      

Chain C from PDB  Type:PROTEIN  Length:290
 aligned with SFGH_YEAST | P40363 from UniProtKB/Swiss-Prot  Length:299

    Alignment length:299
                                    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         
           SFGH_YEAST     1 MKVVKEFSVCGGRLIKLSHNSNSTKTSMNVNIYLPKHYYAQDFPRNKRIPTVFYLSGLTCTPDNASEKAFWQFQADKYGFAIVFPDTSPRGDEVANDPEGSWDFGQGAGFYLNATQEPYAQHYQMYDYIHKELPQTLDSHFNKNGDVKLDFLDNVAITGHSMGGYGAICGYLKGYSGKRYKSCSAFAPIVNPSNVPWGQKAFKGYLGEEKAQWEAYDPCLLIKNIRHVGDDRILIHVGDSDPFLEEHLKPELLLEAVKATSWQDYVEIKKVHGFDHSYYFVSTFVPEHAEFHARNLGLI 299
               SCOP domains d1pv1c_ C: Hypothetical esterase YJL068C                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains 1pv1C00 C:1-299  [code=3.40.50.1820, no name defined]                                                                                                                                                                                                                                                       CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee..eeeeeeeee......eeeeeeee.........hhhhhh.eeeee......hhhhhhhhhhhhhhhhhh.eeeee..............................hhhhhh..hhhhhhhhhhhhhhhhhhh-----.......eeeeeehhhhhhhhhhhhhh.......eeeee........hhhhhhhhhhh...----....hhhhhh..........eeee......hhhhhh.hhhhhhhh........eeee.......hhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: C:1-299 (gaps) UniProt: 1-299                                                                                                                                                                                                                                                                Transcript 1
                 1pv1 C   1 MKVVKEFSVCGGRLIKLSHNSNSTKTSMNVNIYLPKHYYAQDFPRNKRIPTVFYLSGLTCTPDNASEKAFWQFQADKYGFAIVFPDTSPRGDEVANDPEGSWDFGQGAGFYLNATQEPYAQHYQMYDYIHKELPQTLDSHFN-----KLDFLDNVAITGHSMGGYGAICGYLKGYSGKRYKSCSAFAPIVNPSNVPWGQKAFKGYLGE----WEAYDPCLLIKNIRHVGDDRILIHVGDSDPFLEEHLKPELLLEAVKATSWQDYVEIKKVHGFDHSYYFVSTFVPEHAEFHARNLGLI 299
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140 |     150       160       170       180       190       200       | -  |    220       230       240       250       260       270       280       290         
                                                                                                                                                                       142   148                                                         208  213                                                                                      

Chain D from PDB  Type:PROTEIN  Length:290
 aligned with SFGH_YEAST | P40363 from UniProtKB/Swiss-Prot  Length:299

    Alignment length:299
                                    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         
           SFGH_YEAST     1 MKVVKEFSVCGGRLIKLSHNSNSTKTSMNVNIYLPKHYYAQDFPRNKRIPTVFYLSGLTCTPDNASEKAFWQFQADKYGFAIVFPDTSPRGDEVANDPEGSWDFGQGAGFYLNATQEPYAQHYQMYDYIHKELPQTLDSHFNKNGDVKLDFLDNVAITGHSMGGYGAICGYLKGYSGKRYKSCSAFAPIVNPSNVPWGQKAFKGYLGEEKAQWEAYDPCLLIKNIRHVGDDRILIHVGDSDPFLEEHLKPELLLEAVKATSWQDYVEIKKVHGFDHSYYFVSTFVPEHAEFHARNLGLI 299
               SCOP domains d1pv1d_ D: Hypothetical esterase YJL068C                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains 1pv1D00 D:1-299  [code=3.40.50.1820, no name defined]                                                                                                                                                                                                                                                       CATH domains
           Pfam domains (1) --------------------Esterase-1pv1D01 D:21-291                                                                                                                                                                                                                                                      -------- Pfam domains (1)
           Pfam domains (2) --------------------Esterase-1pv1D02 D:21-291                                                                                                                                                                                                                                                      -------- Pfam domains (2)
           Pfam domains (3) --------------------Esterase-1pv1D03 D:21-291                                                                                                                                                                                                                                                      -------- Pfam domains (3)
           Pfam domains (4) --------------------Esterase-1pv1D04 D:21-291                                                                                                                                                                                                                                                      -------- Pfam domains (4)
         Sec.struct. author .eeeeeeee..eeeeeeeee......eeeeeeee................eeeee......hhhhhhhhhhhhhhhhhh.eeeee..............................hhhhhh..hhhhhhhhhhhhhhhhhhh-----.......eeeee.hhhhhhhhhhhhhhhhhh...eeee.........hhhhhhhhhhhh..----....hhhhhh..........eeee.............hhhhhhh.........eeee.......hhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: D:1-299 (gaps) UniProt: 1-299                                                                                                                                                                                                                                                                Transcript 1
                 1pv1 D   1 MKVVKEFSVCGGRLIKLSHNSNSTKTSMNVNIYLPKHYYAQDFPRNKRIPTVFYLSGLTCTPDNASEKAFWQFQADKYGFAIVFPDTSPRGDEVANDPEGSWDFGQGAGFYLNATQEPYAQHYQMYDYIHKELPQTLDSHFN-----KLDFLDNVAITGHSMGGYGAICGYLKGYSGKRYKSCSAFAPIVNPSNVPWGQKAFKGYLGE----WEAYDPCLLIKNIRHVGDDRILIHVGDSDPFLEEHLKPELLLEAVKATSWQDYVEIKKVHGFDHSYYFVSTFVPEHAEFHARNLGLI 299
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140 |     150       160       170       180       190       200       | -  |    220       230       240       250       260       270       280       290         
                                                                                                                                                                       142   148                                                         208  213                                                                                      

   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  (1, 4)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 4)

Asymmetric/Biological Unit

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (SFGH_YEAST | P40363)
molecular function
    GO:0018738    S-formylglutathione hydrolase activity    Catalysis of the reaction: S-formylglutathione + H(2)O = formate + glutathione + H(+).
    GO:0052689    carboxylic ester hydrolase activity    Catalysis of the hydrolysis of a carboxylic ester bond.
    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.
biological process
    GO:0046294    formaldehyde catabolic process    The chemical reactions and pathways resulting in the breakdown of formaldehyde (methanal, H2C=O), the simplest aldehyde.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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 Related Entries

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

UniProtKB/Swiss-Prot
        SFGH_YEAST | P403633c6b 4flm 4fol

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