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(-) Description

Title :  STRUCTURE OF DEXTRAN GLUCOSIDASE
 
Authors :  M. Kobayashi, K. Kato, M. Yao
Date :  16 Dec 14  (Deposition) - 26 Aug 15  (Release) - 26 Aug 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.09
Chains :  Asym./Biol. Unit :  A
Keywords :  Glycoside Hydrolase, Dextran Glucosidase, Intermediate, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Kobayashi, W. Saburi, D. Nakatsuka, H. Hondoh, K. Kato, M. Okuyama, H. Mori, A. Kimura, M. Yao
Structural Insights Into The Catalytic Reaction That Is Involved In The Reorientation Of Trp238 At The Substrate-Binding Site In Gh13 Dextran Glucosidase
Febs Lett. V. 589 484 2015
PubMed-ID: 25595454  |  Reference-DOI: 10.1016/J.FEBSLET.2015.01.005

(-) Compounds

Molecule 1 - GLUCAN 1,6-ALPHA-GLUCOSIDASE
    Chains: A
    EC Number: 3.2.1.70
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: DEXB, SMU_883
    Mutation: YES
    Organism Scientific: STREPTOCOCCUS MUTANS UA159
    Organism Taxid: 210007
    Synonym: DEXTRAN GLUCOSIDASE,EXO-1,6-ALPHA-GLUCOSIDASE, GLUCODEXTRANASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 5)

Asymmetric/Biological Unit (2, 5)
No.NameCountTypeFull Name
1CA4Ligand/IonCALCIUM ION
2P6G1Ligand/IonHEXAETHYLENE GLYCOL

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:148 , ASP A:151 , GLU A:508 , HOH A:757binding site for residue CA A 601
2AC2SOFTWAREASP A:21 , ASN A:23 , ASP A:25 , ILE A:27 , ASP A:29 , HOH A:1018 , HOH A:1020binding site for residue CA A 602
3AC3SOFTWARETHR A:417 , GLU A:516 , HOH A:713 , HOH A:720 , HOH A:726 , HOH A:727 , HOH A:729binding site for residue CA A 603
4AC4SOFTWARETRP A:422 , LYS A:439 , SER A:441 , HOH A:702 , HOH A:714 , HOH A:721 , HOH A:736binding site for residue CA A 604
5AC5SOFTWARETRP A:5 , MET A:46 , LYS A:94 , ILE A:188 , ASP A:230binding site for residue P6G A 605

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4XB3)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4XB3)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4XB3)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4XB3)

(-) Exons   (0, 0)

(no "Exon" information available for 4XB3)

(-) 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:536
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhh..eeeehhhhh.........hhhhhhhhhhhhhhhh..eeee...ee...........eeeee.....hhhhhhhhhhhhhhh..eeeeee........hhhhhhhhhh..hhhhhhh.ee..............eeee....eeee.............hhhhhhhhhhhhhhhhhh...eeee.hhhhh..hhhhh......hhhhhhhhhhhhh......eeeee....hhhhhhhhhhhhhh...eee...hhhhhh.............hhhhhhhhhhhhhhhh.......eee.......hhhhhh.....hhhhhhhhhhhhhhh...eeeee.hhhhh.......hhhhh.hhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhh.......hhhhhh..........hhhhhh.hhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh..ee......eeeeeeee..eeeeeeee.....ee......eeeeeee..hhhhhhhhhee....eeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xb3 A   1 MQKHWWHKATVYQIYPKSFMDTNGDGIGDLKGITSKLDYLQKLGVMAIWLSPVYDSPMDDNGYDIANYEAIADIFGNMADMDNLLTQAKMRGIKIIMDLVVNHTSDEHAWFIEAREHPDSSERDYYIWCDQPNDLESIFGGSAWQYDDKSDQYYLHFFSKKQPDLNWENANLRQKIYDMMNFWIDKGIGGFRMDVIDMIGKIPAQHIVSNGPKLHAYLKEMNAASFGQHDLLTVGQTWGATPEIAKQYSNPVNHELSMVFQFEHIGLQHKPEAPKWDYVKELNVPALKTIFNKWQTELELGQGWNSLFWNNHDLPRVLSIWGNTGKYREKSAKALAILLHLMRGTPYIYQGEEIGMTNYPFKDLNELDDIESLNYAKEAFTNGKSMETIMDSIRMIGRDNARTPMQWDASQNAGFSTADKTWLPVNPNYKDINVQAALKNSNSIFYTYQQLIQLRKENDWLVDADFELLPTADKVFAYLRKVREERYLIVVNVSDQEEVLEIDVDKQETLISNTNESAALANHKLQPWDAFCIKIL 536
                                    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       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530
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  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 4XB3)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4XB3)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4XB3)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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UniProtKB/Swiss-Prot
        DEXB_STRMU | Q99040: 2zic 2zid 4wlc

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