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(-) Description

Title :  CGTASE FROM THERMOANAEROBACTERIUM THERMOSULFURIGENES EM1 IN COMPLEX WITH A MALTOHEXAOSE INHIBITOR
 
Authors :  J. C. M. Uitdehaag, K. H. Kalk, H. J. Rozeboom, B. W. Dijkstra
Date :  11 Feb 98  (Deposition) - 17 Jun 98  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.56
Chains :  Asym./Biol. Unit :  A
Keywords :  Glycosidase, Thermostable, Family 13 Glycosyl Hydrolase, Ligand, Substrate, Acarbose (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. D. Wind, J. C. Uitdehaag, R. M. Buitelaar, B. W. Dijkstra, L. Dijkhuizen
Engineering Of Cyclodextrin Product Specificity And Ph Optima Of The Thermostable Cyclodextrin Glycosyltransferase From Thermoanaerobacterium Thermosulfurigenes Em1.
J. Biol. Chem. V. 273 5771 1998
PubMed-ID: 9488711  |  Reference-DOI: 10.1074/JBC.273.10.5771
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CYCLODEXTRIN GLYCOSYLTRANSFERASE
    Cellular Location: EXTRACELLULAR
    Chains: A
    EC Number: 2.4.1.19
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Cellular Location: EXTRACELLULAR
    Expression System Gene: AMYA
    Expression System Plasmid: PCT2
    Expression System Strain: PC1990
    Expression System Taxid: 562
    Gene: AMYA
    Organism Scientific: THERMOANAEROBACTERIUM THERMOSULFURIGENES
    Organism Taxid: 33950
    Strain: EM1
    Synonym: CGTASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 11)

Asymmetric/Biological Unit (4, 11)
No.NameCountTypeFull Name
1ACI1Ligand/Ion6-AMINO-4-HYDROXYMETHYL-CYCLOHEX-4-ENE-1,2,3-TRIOL
2CA2Ligand/IonCALCIUM ION
3G6D1Ligand/Ion6-DEOXY-ALPHA-D-GLUCOSE
4GLC7Ligand/IonALPHA-D-GLUCOSE

(-) Sites  (20, 20)

Asymmetric Unit (20, 20)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETRP A:413 , ILE A:414 , THR A:445 , GLC A:688BINDING SITE FOR RESIDUE GLC A 687
02AC2SOFTWAREGLN A:411 , ARG A:412 , GLY A:446 , GLC A:687 , GLC A:689BINDING SITE FOR RESIDUE GLC A 688
03AC3SOFTWAREGLC A:688BINDING SITE FOR RESIDUE GLC A 689
04AC4SOFTWAREGLY A:262 , THR A:263 , GLU A:265 , ASN A:592 , GLC A:692BINDING SITE FOR RESIDUE GLC A 691
05AC5SOFTWARELYS A:233 , GLC A:691 , G6D A:693BINDING SITE FOR RESIDUE GLC A 692
06AC6SOFTWAREALA A:231 , HIS A:234 , GLU A:258 , GLC A:692 , ACI A:694BINDING SITE FOR RESIDUE G6D A 693
07AC7SOFTWARETYR A:101 , HIS A:141 , ASP A:230 , GLU A:258 , HIS A:328 , ASP A:329 , G6D A:693 , GLC A:695BINDING SITE FOR RESIDUE ACI A 694
08AC8SOFTWARETRP A:102 , LEU A:198 , ASP A:371 , ARG A:375 , ACI A:694 , GLC A:696BINDING SITE FOR RESIDUE GLC A 695
09AC9SOFTWARELYS A:47 , ASP A:371 , GLC A:695BINDING SITE FOR RESIDUE GLC A 696
10AM1UNKNOWNG6D A:693 , HIS A:234 , GLU A:258SUGAR BINDING SUBSITE -1 IN THE ACTIVE SITE.
11AM2UNKNOWNGLC A:692 , LYS A:233 , PHE A:184 , PHE A:260SUGAR BINDING SUBSITE -2 IN THE ACTIVE SITE.
12AM3UNKNOWNGLC A:691 , GLU A:265 , THR A:263 , ASN A:591SUGAR BINDING SUBSITE -3 IN THE ACTIVE SITE.
13AP1UNKNOWNACI A:694 , TYR A:101 , HIS A:141 , ARG A:228 , ASP A:230 , GLU A:258 , HIS A:328 , ASP A:329SUGAR BINDING SUBSITE +1 IN THE ACTIVE SITE (CATALYTIC SITE).
14AP2UNKNOWNGLC A:695 , TRP A:102 , ASP A:371 , ARG A:375SUGAR BINDING SUBSITE +2 IN THE ACTIVE SITE.
15AP3UNKNOWNGLC A:696 , LYS A:47SUGAR BINDING SUBSITE +3 IN THE ACTIVE SITE.
16BC1SOFTWAREASN A:140 , ILE A:191 , ASP A:200 , HIS A:234 , HOH A:838 , HOH A:839 , HOH A:882BINDING SITE FOR RESIDUE CA A 685
17BC2SOFTWAREASP A:27 , ASN A:29 , ASN A:32 , ASN A:33 , GLY A:51 , ASP A:53 , HOH A:840BINDING SITE FOR RESIDUE CA A 686
18BS3UNKNOWNGLC A:687 , GLC A:688 , GLC A:689 , TRP A:413 , GLN A:411 , ILE A:414 , GLY A:446SUGAR BINDING SITE 3 (HOMOLOGOUS TO MBS3 IN PDB ENTRY 1CDG).
19CA1UNKNOWNASP A:27 , ASN A:29 , ASN A:32 , ASN A:33 , GLY A:51 , ASP A:53CALCIUM BINDING SITE.
20CA2UNKNOWNASN A:140 , ILE A:191 , ASP A:200 , HIS A:234CALCIUM BINDING SITE.

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1A47)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Asp A:371 -Pro A:372
2Gly A:505 -Pro A:506
3Gly A:620 -Pro A:621
4Tyr A:630 -Pro A:631

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1A47)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CBM20PS51166 CBM20 (carbohydrate binding type-20) domain profile.CDGT_THETU605-710  1A:578-683

(-) Exons   (0, 0)

(no "Exon" information available for 1A47)

(-) 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:683
 aligned with CDGT_THETU | P26827 from UniProtKB/Swiss-Prot  Length:710

    Alignment length:683
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557       567       577       587       597       607       617       627       637       647       657       667       677       687       697       707   
           CDGT_THETU    28 ASDTAVSNVVNYSTDVIYQIVTDRFVDGNTSNNPTGDLYDPTHTSLKKYFGGDWQGIINKINDGYLTGMGVTAIWISQPVENIYAVLPDSTFGGSTSYHGYWARDFKRTNPYFGSFTDFQNLINTAHAHNIKVIIDFAPNHTSPASETDPTYAENGRLYDNGTLLGGYTNDTNGYFHHYGGTDFSSYEDGIYRNLFDLADLNQQNSTIDSYLKSAIKVWLDMGIDGIRLDAVKHMPFGWQKNFMDSILSYRPVFTFGEWFLGTNEIDVNNTYFANESGMSLLDFRFSQKVRQVFRDNTDTMYGLDSMIQSTASDYNFINDMVTFIDNHDMDRFYNGGSTRPVEQALAFTLTSRGVPAIYYGTEQYMTGNGDPYNRAMMTSFNTSTTAYNVIKKLAPLRKSNPAIAYGTTQQRWINNDVYIYERKFGNNVALVAINRNLSTSYNITGLYTALPAGTYTDVLGGLLNGNSISVASDGSVTPFTLSAGEVAVWQYVSSSNSPLIGHVGPTMTKAGQTITIDGRGFGTTSGQVLFGSTAGTIVSWDDTEVKVKVPSVTPGKYNISLKTSSGATSNTYNNINILTGNQICVRFVVNNASTVYGENVYLTGNVAELGNWDTSKAIGPMFNQVVYQYPTWYYDVSVPAGTTIQFKFIKKNGNTITWEGGSNHTYTVPSSSTGTVIVNWQQ 710
               SCOP domains d1a47a4 A:1-406 Cyclodextrin glycosyltransferase                                                                                                                                                                                                                                                                                                                                                                      d1a47a3 A:407-495 Cyclodextrin glycosyltransferase                                       d1a47a1 A:496-578 Cyclomaltodextrin glycanotransferase, domain D                   d1a47a2 A:579-683 Cyclodextrin glycosyltransferase, C-terminal domain                                     SCOP domains
               CATH domains 1a47A01 A:1-400 Glycosidases                                                                                                                                                                                                                                                                                                                                                                                    1a47A02 A:401-495 Golgi alpha-mannosidase II                                                   1a47A03 A:496-579 Immunoglobulins                                                   1a47A04 A:580-682 Immunoglobulins                                                                      - CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...............eeeee.hhh...........hhh...............hhhhhhhhh..hhhhh...eeee.......................................hhhhhhhhhhhhhh..eeeeee....................eee..eeee......................hhhh.............hhhhhhhhhhhhhhhhh...eeee.......hhhhhhhhhhhhhhh..eeee..........hhhhhhhhh.......hhhhhhhhhhh......hhhhhhhhhhhhhh...hhh...................hhhhhhhhhhhh....eeee.............hhh..........hhhhhhhhhhhhhhh.hhhhh.eeeeeee...eeeeeeee..eeeeeeee......eee.........eee............eee........eee....eeeeee.......eeeeee..eee...eeeeeee.......eeee.....eeeee...eeeee......eee.eeee............eeee...eeeeeeeee........eeeeee..hhh....hhh...............eeeeeeee...eeeeeeeee....eee.....eeee......eeeeee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CBM20  PDB: A:578-683 UniProt: 605-710                                                                     PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1a47 A   1 ASDTAVSNVVNYSTDVIYQIVTDRFVDGNTSNNPTGDLYDPTHTSLKKYFGGDWQGIINKINDGYLTGMGVTAIWISQPVENIYAVLPDSTFGGSTSYHGYWARDFKRTNPYFGSFTDFQNLINTAHAHNIKVIIDFAPNHTSPASETDPTYAENGRLYDNGTLLGGYTNDTNGYFHHYGGTDFSSYEDGIYRNLFDLADLNQQNSTIDSYLKSAIKVWLDMGIDGIRLDAVKHMPFGWQKNFMDSILSYRPVFTFGEWFLGTNEIDVNNTYFANESGMSLLDFRFSQKVRQVFRDNTDTMYGLDSMIQSTASDYNFINDMVTFIDNHDMDRFYNGGSTRPVEQALAFTLTSRGVPAIYYGTEQYMTGNGDPYNRAMMTSFNTSTTAYNVIKKLAPLRKSNPAIAYGTTQQRWINNDVYIYERKFGNNVALVAINRNLSTSYNITGLYTALPAGTYTDVLGGLLNGNSISVASDGSVTPFTLSAGEVAVWQYVSSSNSPLIGHVGPTMTKAGQTITIDGRGFGTTSGQVLFGSTAGTIVSWDDTEVKVKVPSVTPGKYNISLKTSSGATSNTYNNINILTGNQICVRFVVNNASTVYGENVYLTGNVAELGNWDTSKAIGPMFNQVVYQYPTWYYDVSVPAGTTIQFKFIKKNGNTITWEGGSNHTYTVPSSSTGTVIVNWQQ 683
                                    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       540       550       560       570       580       590       600       610       620       630       640       650       660       670       680
   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  (4, 4)

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

(-) CATH Domains  (3, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1A47)

(-) Gene Ontology  (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (CDGT_THETU | P26827)
molecular function
    GO:0030246    carbohydrate binding    Interacting selectively and non-covalently with any carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.
    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:0043169    cation binding    Interacting selectively and non-covalently with cations, charged atoms or groups of atoms with a net positive charge.
    GO:0043895    cyclomaltodextrin glucanotransferase activity    Catalysis of the cyclization of part of a 1,4-alpha-D-glucan chain by formation of a 1,4-alpha-D-glucosidic bond.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:2001070    starch binding    Interacting selectively and non-covalently with starch.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
    GO:0016757    transferase activity, transferring glycosyl groups    Catalysis of the transfer of a glycosyl group from one compound (donor) to another (acceptor).
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.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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  1a47
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  CDGT_THETU | P26827
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 Related Entries

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

UniProtKB/Swiss-Prot
        CDGT_THETU | P26827: 1ciu 3bmv 3bmw

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 1A47)