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(-) Description

Title :  CRYSTAL STRUCTURE OF GLYCOSYLTREHALOSE TREHALOHYDROLASE (D252S) COMPLEXED WITH MALTOTRIOSYLTREHALOSE
 
Authors :  N. Okazaki, T. Tamada, M. D. Feese, M. Kato, Y. Miura, T. Komeda, K. Kobay K. Kondo, R. Kuroki
Date :  09 Aug 11  (Deposition) - 20 Jun 12  (Release) - 20 Jun 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Alpha/Beta Barrel, Trehalose, Trehalohydrolase, Alpha-Amylase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Okazaki, T. Tamada, M. D. Feese, M. Kato, Y. Miura, T. Komeda, K. Kobayashi, K. Kondo, M. Blaber, R. Kuroki
Substrate Recognition Mechanism Of A Glycosyltrehalose Trehalohydrolase From Sulfolobus Solfataricus Km1.
Protein Sci. V. 21 539 2012
PubMed-ID: 22334583  |  Reference-DOI: 10.1002/PRO.2039

(-) Compounds

Molecule 1 - MALTO-OLIGOSYLTREHALOSE TREHALOHYDROLASE
    Chains: A
    EC Number: 3.2.1.141
    Engineered: YES
    Expression System: PICHIA JADINII
    Expression System Plasmid: PGUSS2
    Expression System Taxid: 4903
    Expression System Vector Type: PLASMID
    Gene: TREZ
    Mutation: YES
    Organism Scientific: SULFOLOBUS SOLFATARICUS
    Organism Taxid: 2287
    Synonym: MTHASE, 4-ALPHA-D-((1->4)-ALPHA-D-GLUCANO)TREHALOSE TREHALOHYDROLASE, GLYCOSYLTREHALOSE TREHALOHYDROLASE, GTHASE, MALTOOLIGOSYL TREHALOSE TREHALOHYDROLASE

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (1x): A
Biological Unit 2 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 10)

Asymmetric Unit (3, 10)
No.NameCountTypeFull Name
1FLC1Ligand/IonCITRATE ANION
2GLC3Ligand/IonALPHA-D-GLUCOSE
3GOL6Ligand/IonGLYCEROL
Biological Unit 1 (3, 10)
No.NameCountTypeFull Name
1FLC1Ligand/IonCITRATE ANION
2GLC3Ligand/IonALPHA-D-GLUCOSE
3GOL6Ligand/IonGLYCEROL
Biological Unit 2 (3, 20)
No.NameCountTypeFull Name
1FLC2Ligand/IonCITRATE ANION
2GLC6Ligand/IonALPHA-D-GLUCOSE
3GOL12Ligand/IonGLYCEROL

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETRP A:150 , TYR A:152 , HIS A:192 , TRP A:215 , ARG A:250 , SER A:252 , ALA A:253 , GLU A:283 , HIS A:376 , ASP A:377 , GLC A:603BINDING SITE FOR RESIDUE GLC A 604
02AC2SOFTWARETRP A:150 , TYR A:152 , ASP A:153 , TRP A:215 , ASN A:381 , PHE A:427 , ARG A:444 , GLC A:602 , GLC A:604 , HOH A:2036 , HOH A:2163BINDING SITE FOR RESIDUE GLC A 603
03AC3SOFTWAREPRO A:214 , TRP A:215 , VAL A:440 , GLC A:603 , HOH A:2209BINDING SITE FOR RESIDUE GLC A 602
04AC4SOFTWAREGLN A:323 , ARG A:382 , GLY A:383 , LYS A:384 , ASN A:448 , GOL A:1104 , HOH A:2074 , HOH A:2126 , HOH A:2127BINDING SITE FOR RESIDUE FLC A 1001
05AC5SOFTWAREGLU A:115 , GLY A:116 , SER A:163 , PHE A:460 , HOH A:2176BINDING SITE FOR RESIDUE GOL A 1101
06AC6SOFTWAREARG A:123 , LYS A:124 , TRP A:467 , SER A:537 , GLU A:548 , HOH A:2012 , HOH A:2167BINDING SITE FOR RESIDUE GOL A 1102
07AC7SOFTWARELYS A:99 , VAL A:292 , ASN A:301 , ILE A:302 , ASP A:303 , ASN A:368 , HOH A:2206 , HOH A:2250BINDING SITE FOR RESIDUE GOL A 1103
08AC8SOFTWARETYR A:325 , ARG A:382 , FLC A:1001 , HOH A:2058 , HOH A:2074 , HOH A:2226BINDING SITE FOR RESIDUE GOL A 1104
09AC9SOFTWARETYR A:127 , LYS A:519 , GLU A:548BINDING SITE FOR RESIDUE GOL A 1105
10BC1SOFTWAREILE A:85 , SER A:88 , ARG A:171 , GLU A:243BINDING SITE FOR RESIDUE GOL A 1106

(-) SS Bonds  (2, 2)

Asymmetric Unit
No.Residues
1A:298 -A:298
2A:367 -A:491

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3VGF)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3VGF)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3VGF)

(-) Exons   (0, 0)

(no "Exon" information available for 3VGF)

(-) Sequences/Alignments

Asymmetric 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:555
 aligned with TREZ_SULSF | Q55088 from UniProtKB/Swiss-Prot  Length:559

    Alignment length:555
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553     
           TREZ_SULSF     4 AYKIDGNEVIFTLWAPYQKSVKLKVLEKGLYEMERDEKGYFTITLNNVKVRDRYKYVLDDASEIPDPASRYQPEGVHGPSQIIQESKEFNNETFLKKEDLIIYEIHVGTFTPEGTFEGVIRKLDYLKDLGITAIEIMPIAQFPGKRDWGYDGVYLYAVQNSYGGPEGFRKLVDEAHKKGLGVILDVVYNHVGPEGNYMVKLGPYFSQKYKTPWGLTFNFDDAESDEVRKFILENVEYWIKEYNVDGFRLDAVHAIIDTSPKHILEEIADVVHKYNRIVIAESDLNDPRVVNPKEKCGYNIDAQWVDDFHHSIHAYLTGERQGYYTDFGNLDDIVKSYKDVFVYDGKYSNFRRKTHGEPVGELDGCNFVVYIQNHDQVGNRGKGERIIKLVDRESYKIAAALYLLSPYIPMIFMGEEYGEENPFYFFSDFSDSKLIQGVREGRKKENGQDTDPQDESTFNASKLSWKIDEEIFSFYKILIKMRKELSIACDRRVNVVNGENWLIIKGREYFSLYVFSKSSIEVKYSGTLLLSSNNSFPQHIEEGKYEFDKGFALYK 558
               SCOP domains d3vgfa1 A:3-90 Glycosyltrehalose trehalohydrolase, N-terminal domain N                  d3vgfa2 A:91-490 Glycosyltrehalose trehalohydrolase, central domain                                                                                                                                                                                                                                                                                                                                             d3vgfa3 A:491-557 Glycosyltrehalose trehalohydrolase                SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee..eeeeeee.......eeee...eeee.ee....eeeeee.......eeeee.....ee...............ee..............hhhhh.eeeehhhhhh...hhhhhhhhhhhhhhhh..eeee...ee............eeeee.hhhhhhhhhhhhhhhhhhh..eeeeee..........hhhhh...eeeeeee..eeee.....hhhhhhhhhhhhhhhhhhhhh..eeee.hhhhh......hhhhhhhhhhhhh..eeeee....hhhhh.hhhhh.....eeehhhhhhhhhhhhhh..hhhhhhh.hhhhhhhhhhhh.....eee....eee.......hhh.eee...hhhhhhh.....hhhhh.hhhhhhhhhhhhhh...eeeee.hhhhh............hhhhhhhhhhhhhhhhh......hhhhhhhh......hhhhhhhhhhhhhhhhhh........eeee...eeeee....eeeee...eeeee...eeeeee.......ee..eeeee..eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3vgf A   3 AYKIDGNEVIFTLWAPYQKSVKLKVLEKGLYEMERDEKGYFTITLNNVKVRDRYKYVLDDASEIPDPASRYQPEGVHGPSQIIQESKEFNNETFLKKEDLIIYEIHVGTFTPEGTFEGVIRKLDYLKDLGITAIEIMPIAQFPGKRDWGYDGVYLYAVQNSYGGPEGFRKLVDEAHKKGLGVILDVVYNHVGPEGNYMVKLGPYFSQKYKTPWGLTFNFDDAESDEVRKFILENVEYWIKEYNVDGFRLSAVHAIIDTSPKHILEEIADVVHKYNRIVIAESDLNDPRVVNPKEKCGYNIDAQWVDDFHHSIHAYLTGERQGYYTDFGNLDDIVKSYKDVFVYDGKYSNFRRKTHGEPVGELDGCNFVVYIQNHDQVGNRGKGERIIKLVDRESYKIAAALYLLSPYIPMIFMGEEYGEENPFYFFSDFSDSKLIQGVREGRKKENGQDTDPQDESTFNASKLSWKIDEEIFSFYKILIKMRKELSIACDRRVNVVNGENWLIIKGREYFSLYVFSKSSIEVKYSGTLLLSSNNSFPQHIEEGKYEFDKGFALYK 557
                                    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       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552
   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  (3, 3)

Asymmetric Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3VGF)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3VGF)

(-) Gene Ontology  (9, 9)

Asymmetric Unit(hide GO term definitions)
Chain A   (TREZ_SULSF | Q55088)
molecular function
    GO:0033942    4-alpha-D-(1->4)-alpha-D-glucanotrehalose trehalohydrolase activity    Catalysis of the hydrolysis of alpha-(1->4)-D-glucosidic linkage in 4-alpha-D-{(1->4)-alpha-D-glucanosyl}n trehalose to yield trehalose and alpha-(1->4)-D-glucan.
    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: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:0016798    hydrolase activity, acting on glycosyl bonds    Catalysis of the hydrolysis of any glycosyl bond.
    GO:0004553    hydrolase activity, hydrolyzing O-glycosyl compounds    Catalysis of the hydrolysis of any O-glycosyl bond.
biological process
    GO:0005975    carbohydrate metabolic process    The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
    GO:0005992    trehalose biosynthetic process    The chemical reactions and pathways resulting in the formation of trehalose, a disaccharide isomeric with sucrose and obtained from certain lichens and fungi.
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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  TREZ_SULSF | Q55088
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  3.2.1.141
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 Related Entries

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

UniProtKB/Swiss-Prot
        TREZ_SULSF | Q55088: 1eh9 1eha 3vgb 3vgd 3vge 3vgg 3vgh

(-) Related Entries Specified in the PDB File

1eh9 3vgc 3vgd 3vge 3vgg 3vgh