Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asym./Biol. Unit
(-)Asym./Biol. Unit - sites
collapse expand < >
Image Asym./Biol. Unit
Asym./Biol. Unit  (Jmol Viewer)
Image Asym./Biol. Unit - sites
Asym./Biol. Unit - sites  (Jmol Viewer)

(-) Description

Title :  CRYSTAL STRUCTURE OF FRUCTOSYLTRANSFERASE (WILD-TYPE) FROM A. JAPONICUS IN COMPLEX WITH GLUCOSE
 
Authors :  P. Chuankhayan, C. J. Chen, C. M. Chiang
Date :  17 Jan 10  (Deposition) - 12 May 10  (Release) - 19 May 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Protein-Oligosaccharide Complex, Five Bladed Beta-Propeller Fold, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. Chuankhayan, C. Y. Hsieh, Y. C. Huang, Y. Y. Hsieh, H. H. Guan, Y. C. Hsieh, Y. C. Tien, C. D. Chen, C. M. Chaing, C. J. Chen
Crystal Structure Of Aspergillus Japonicus Fructosyltransferase Complex With Donor/Acceptor Substrates Reveal Complete Sbusites In The Active Site For Catalysis
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - FRUCTOSYLTRANSFERASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: ASPERGILLUS JAPONICUS
    Organism Taxid: 34381

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1BGC2Ligand/IonBETA-D-GLUCOSE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREILE A:143 , HIS A:144 , ARG A:190 , GLU A:292 , GLU A:318 , SER A:329 , HOH A:656 , HOH A:716 , HOH A:800BINDING SITE FOR RESIDUE BGC A 1
2AC2SOFTWAREILE B:143 , HIS B:144 , ARG B:190 , GLU B:292 , GLU B:318 , SER B:329 , HOH B:677 , HOH B:752 , HOH B:784BINDING SITE FOR RESIDUE BGC B 2

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3LFI)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Leu A:141 -Pro A:142
2Leu A:322 -Pro A:323
3Leu B:141 -Pro B:142
4Leu B:322 -Pro B:323

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3LFI)

(-) 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:634
 aligned with Q1W3Z7_ASPJA | Q1W3Z7 from UniProtKB/TrEMBL  Length:638

    Alignment length:634
                                                                                                              102                                      142                                                           202                                                                                                                    319                      342                                                                 409         419                                                                                  502                                               550                                                                                       
                                                                                                           101  |                                    141 |                                                        201  |                                                                                                                 318  |                   341  |                                                               408 |      418  |                                                                               501  |                                            549  |                                                                                       
                                    29        39        49        59        69        79        89        99 |  |  107       117       127       137   | | 146       156       166       176       186       196    |  204       214       224       234       244       254       264       274       284       294       304       314   |  |322       332        |- |     350       360       370       380       390       400       409        |- |     427       437       447       457       467       477       487       497   |  |505       515       525       535       545   |  |553       563       573       583       593       603       613       623       633    
         Q1W3Z7_ASPJA    20 SYHLDTTAPPPTNLSTLPNNTLFHVWRPRAHILPAEGQIGDPCAHYTDPSTGLFHVGFLHDGDGIAGATTANLATYTDTSDN--FLIQPGGKNDPVAVFDGAVIPVGVNNTPTLLYTSVSFLPI-WSIPYTRGSETQSLAVARDGGRRFDKLDQGPVIADHPFAVDVTAFRDPFVFRSAKLDVLL--DEEVARNETAVQQAVDGWTEKNAPWYVAVSGGVHGVGPAQFLYRQNGGNASEFQYWEYLGEWWQEATNSSWGDEGTWAGRWGFNFETGNVLFLTEEGHDPQTGEVFVTLGTEGSGLP--PQVSSIHDMLWAAGEVGVGSEQE--KVEFSPSMAGFLDWGFSAYAAAGKVLPASSAVSKTSGVEVDRYVSFVWLTGDQYEQADGFPTAQQGW-GSLLLPRELK--TVENVVDNELVREEGVSWVVGESDNQTARLRTLGITIARETKAALLANGSVTAEEDRTLQTAAVVPFAQSPSSKFFVLTAQLD--ASARSSPLQSGFEILASELERTAIYYQFSNESLVVDRSQTSAAAPTNP--DSFTESGKLRLFDVIENGQEQVETLDLTVVVDNAVVEVYANGRFALSTWARSWYDNSTQIRFFHNGEGEVQFRNVSVSEGLYNAWPER 637
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhhhh...................eeeeee...ee......eeeeeee....eeeeee......ee......eee.........eeeeeeee..hhhhh.eeeeeee...............eeeeeeeeehhhheeee...............eeeeeeeeee.hhhhhhhh........hhhhhhhhhhhhhhhhh..eeeeeeee...eeeeeeeee.hhh......eeeeeeeee...................eeeeeeeeee..........eeeeeeeeee...........eeeeeeeeeeeee........eeeeeeeeeeee....eeeeeeeee...hhhhhhhh....eeeeeeee...........hhhhhhee.ee...eeeeeeeeeeee.hhhhhh.....eeeee...eeeeeeeeeeehhhhhhhhhhh.eeeee..eee...eeee........eeeeeeeee.hhhhhhh..eeeeeeee.....eeeeee....eeeee......hhhhh.......eeee....eee....eee..eeeeeeee..eeeeee...eeeeee.........eeeeee.....eeeeeeeeee......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3lfi A  20 SYHLDTTAPPPTNLSTLPNNTLFHLWRPRAHILPAEGQIGDPCAHYTDPSTGLFHVGFLHDGDGIAGATTANLATYTDTSDNGSFLIQPGGKNDPVAVFDGAVIPVGVNNTPTLLYTSVSFLPIHWSIPYTRGSETQSLAVARDGGRRFDKLDQGPVIADHPFAVDVTAFRDPFVFRSARLDVLLSLDEEVARNETAVQQAVDGWTEKNAPWYVAVSGGVHGVGPAQFLYRQNGGNASEFQYWEYLGEWWQEATNSSWGDEGTWAGRWGFNFETGNVLFLTEEGHDPQTGEVFVTLGTEGSGLPIVPQVSSIHDMLWAAGEVGVGSEQEGAKVEFSPSMAGFLDWGFSAYAAAGKVLPASSAVSKTSGVEVDRYVSFVWLTGDQYEQADGFPTAQQGWTGSLLLPRELKVQTVENVVDNELVREEGVSWVVGESDNQTATLRTLGITIARETKAALLANGSVTAEEDRTLQTAAVVPFAQSPSSKFFVLTAQLEFPASARSSPLQSGFEILASELERTAIYYQFSNESLVVDRSQTSAAAPTNPGLDSFTESGKLRLFDVIENGQEQVETLDLTVVVDNAVVEVYANGRFALSTWARSWYDNSTQIRFFHNGEGEVQFRNVSVSEGLYNAWPER 653
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489       499       509       519       529       539       549       559       569       579       589       599       609       619       629       639       649    


Chain B from PDB  Type:PROTEIN  Length:634
 aligned with Q1W3Z7_ASPJA | Q1W3Z7 from UniProtKB/TrEMBL  Length:638

    Alignment length:634
                                                                                                              102                                      142                                                           202                                                                                                                    319                      342                                                                 409         419                                                                                  502                                               550                                                                                       
                                                                                                           101  |                                    141 |                                                        201  |                                                                                                                 318  |                   341  |                                                               408 |      418  |                                                                               501  |                                            549  |                                                                                       
                                    29        39        49        59        69        79        89        99 |  |  107       117       127       137   | | 146       156       166       176       186       196    |  204       214       224       234       244       254       264       274       284       294       304       314   |  |322       332        |- |     350       360       370       380       390       400       409        |- |     427       437       447       457       467       477       487       497   |  |505       515       525       535       545   |  |553       563       573       583       593       603       613       623       633    
         Q1W3Z7_ASPJA    20 SYHLDTTAPPPTNLSTLPNNTLFHVWRPRAHILPAEGQIGDPCAHYTDPSTGLFHVGFLHDGDGIAGATTANLATYTDTSDN--FLIQPGGKNDPVAVFDGAVIPVGVNNTPTLLYTSVSFLPI-WSIPYTRGSETQSLAVARDGGRRFDKLDQGPVIADHPFAVDVTAFRDPFVFRSAKLDVLL--DEEVARNETAVQQAVDGWTEKNAPWYVAVSGGVHGVGPAQFLYRQNGGNASEFQYWEYLGEWWQEATNSSWGDEGTWAGRWGFNFETGNVLFLTEEGHDPQTGEVFVTLGTEGSGLP--PQVSSIHDMLWAAGEVGVGSEQE--KVEFSPSMAGFLDWGFSAYAAAGKVLPASSAVSKTSGVEVDRYVSFVWLTGDQYEQADGFPTAQQGW-GSLLLPRELK--TVENVVDNELVREEGVSWVVGESDNQTARLRTLGITIARETKAALLANGSVTAEEDRTLQTAAVVPFAQSPSSKFFVLTAQLD--ASARSSPLQSGFEILASELERTAIYYQFSNESLVVDRSQTSAAAPTNP--DSFTESGKLRLFDVIENGQEQVETLDLTVVVDNAVVEVYANGRFALSTWARSWYDNSTQIRFFHNGEGEVQFRNVSVSEGLYNAWPER 637
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -----------------------------------------------------------Glyco_hydro_32N-3lfiB01 B:79-218                                                                                                            ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Glyco_hydro_32C-3lfiB03 B:510-608                                                                  --------------------------------------------- Pfam domains (1)
           Pfam domains (2) -----------------------------------------------------------Glyco_hydro_32N-3lfiB02 B:79-218                                                                                                            ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Glyco_hydro_32C-3lfiB04 B:510-608                                                                  --------------------------------------------- Pfam domains (2)
         Sec.struct. author ............hhhhh...................eeeeeeeeeee......eeeeeee....eeeeee......ee......eee.........eeeeeeee..hhhhh.eeeeeee...............eeeeeeeee....eeee...............eeeeeeeeee.hhhhhhhh........hhhhhhhhhhh........eeeeeeee...eeeeeeeee.hhh......eeeeeeeee...................eeeeeeeeee..........eeeeeeeeee...........eeeeeeeeeeeee........eeeeeeeeeeee....eeeeeeeee...hhhhhhhh....eeeeeeee...........hhhhhhee.ee...eeeeeeeeeeee.hhhhhh.....eeeee...eeeeeeeeeeehhhhhhhhhhh.eeee...eee...eeee........eeeeeeeee.hhhhh....eeeeeeee.....eeeeee....eeeee......hhhhh.......eeee....eee....eee..eeeeeeee..eeeeee...eeeeee.........eeeeee.....eeeeeeeeee......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3lfi B  20 SYHLDTTAPPPTNLSTLPNNTLFHLWRPRAHILPAEGQIGDPCAHYTDPSTGLFHVGFLHDGDGIAGATTANLATYTDTSDNGSFLIQPGGKNDPVAVFDGAVIPVGVNNTPTLLYTSVSFLPIHWSIPYTRGSETQSLAVARDGGRRFDKLDQGPVIADHPFAVDVTAFRDPFVFRSARLDVLLSLDEEVARNETAVQQAVDGWTEKNAPWYVAVSGGVHGVGPAQFLYRQNGGNASEFQYWEYLGEWWQEATNSSWGDEGTWAGRWGFNFETGNVLFLTEEGHDPQTGEVFVTLGTEGSGLPIVPQVSSIHDMLWAAGEVGVGSEQEGAKVEFSPSMAGFLDWGFSAYAAAGKVLPASSAVSKTSGVEVDRYVSFVWLTGDQYEQADGFPTAQQGWTGSLLLPRELKVQTVENVVDNELVREEGVSWVVGESDNQTATLRTLGITIARETKAALLANGSVTAEEDRTLQTAAVVPFAQSPSSKFFVLTAQLEFPASARSSPLQSGFEILASELERTAIYYQFSNESLVVDRSQTSAAAPTNPGLDSFTESGKLRLFDVIENGQEQVETLDLTVVVDNAVVEVYANGRFALSTWARSWYDNSTQIRFFHNGEGEVQFRNVSVSEGLYNAWPER 653
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489       499       509       519       529       539       549       559       569       579       589       599       609       619       629       639       649
   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 3LFI)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Clan: B_Fructosidase (34)
(-)
Clan: no clan defined [family: Glyco_hydro_32C] (13)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q1W3Z7_ASPJA | Q1W3Z7)
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: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.

 Visualization

(-) Interactive Views

Asymmetric/Biological Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    BGC  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
    Leu A:141 - Pro A:142   [ RasMol ]  
    Leu A:322 - Pro A:323   [ RasMol ]  
    Leu B:141 - Pro B:142   [ RasMol ]  
    Leu B:322 - Pro B:323   [ RasMol ]  
 

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym./Biol. Unit PNG format | Asym./Biol. Unit - sites PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  3lfi
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  Q1W3Z7_ASPJA | Q1W3Z7
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/TrEMBL
 
Access by Enzyme Classificator   (EC Number)
  (no 'Enzyme Classificator' available)
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  Q1W3Z7_ASPJA | Q1W3Z7
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/TrEMBL
        Q1W3Z7_ASPJA | Q1W3Z7: 3ldk 3ldr 3lem 3lf7 3lig 3lih

(-) Related Entries Specified in the PDB File

3ldk THE SAME PROTEIN COMPLEXED WITH SUCROSE.
3ldr THE SAME PROTEIN COMPLEXED WITH 1-KESTOSE.
3lem THE SAME PROTEIN COMPLEXED WITH NYSTOSE.
3lf7 WILD-TYPE PROTEIN
3lig MUTANT PROTEIN.
3lih THE SAME PROTEIN COMPLEXED WITH RAFFINOSE.