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(-) Description

Title :  DISPROPORTIONATING ENZYME 1 FROM ARABIDOPSIS - APO FORM
 
Authors :  E. C. O'Neill, C. E. M. Stevenson, K. Tantanarat, D. Latousakis, M. I. Do M. Rejzek, T. Limpaseni, A. M. Smith, R. A. Field, D. M. Lawson
Date :  21 Jul 15  (Deposition) - 04 Nov 15  (Release) - 23 Dec 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.13
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Disproportionating Enzyme 1, 4-Alpha-Glucanotransferase, Glycoside Hydrolase Family 77, Starch Degradation, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. C. O'Neill, C. E. Stevenson, K. Tantanarat, D. Latousakis, M. I. Donaldson, M. Rejzek, S. A. Nepogodiev, T. Limpaseni, R. A. Field D. M. Lawson
Structural Dissection Of The Maltodextrin Disproportionatio Cycle Of The Arabidopsis Plastidial Disproportionating Enzyme 1 (Dpe1).
J. Biol. Chem. V. 290 29834 2015
PubMed-ID: 26504082  |  Reference-DOI: 10.1074/JBC.M115.682245

(-) Compounds

Molecule 1 - 4-ALPHA-GLUCANOTRANSFERASE DPE1, CHLOROPLASTIC/AMYLOPLASTIC
    Chains: A, B
    EC Number: 2.4.1.25
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Fragment: UNP RESIDUES 44-576
    Gene: DPE1, AT5G64860, MXK3.9
    Organism Common: MOUSE-EAR CRESS
    Organism Scientific: ARABIDOPSIS THALIANA
    Organism Taxid: 3702
    Other Details: THE CRYSTALLISED PROTEIN CONTAINED RESIDUES 46-576 OF THE WILD-TYPE AMINO ACID SEQUENCE PRECEDED BY AN N-TERMINAL NICKEL AFFINITY TAG
    Synonym: AMYLOMALTASE,DISPROPORTIONATING ENZYME,D-ENZYME,PROTEIN DISPROPORTIONATING ENZYME 1

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 14)

Asymmetric/Biological Unit (1, 14)
No.NameCountTypeFull Name
1EDO14Ligand/Ion1,2-ETHANEDIOL

(-) Sites  (14, 14)

Asymmetric Unit (14, 14)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETHR A:188 , PHE A:261 , LYS A:268binding site for residue EDO A 601
02AC2SOFTWAREALA A:141 , ASN A:142 , MET A:294 , ARG A:359 , ARG A:362 , ALA A:363 , TYR A:367 , HOH A:703 , HOH A:738binding site for residue EDO A 602
03AC3SOFTWAREPRO A:295 , ILE A:296 , TYR A:297 , ASP A:373binding site for residue EDO A 603
04AC4SOFTWAREALA A:363 , GLN A:364 , TYR A:367 , ASP A:368 , ILE A:415 , LYS A:416binding site for residue EDO A 604
05AC5SOFTWARETHR A:471 , HIS A:472 , ASN A:474 , PRO A:523 , GLN A:525 , MET A:536 , EDO A:606 , HOH A:728binding site for residue EDO A 605
06AC6SOFTWARELEU A:87 , HIS A:472 , GLN A:525 , MET A:536 , EDO A:605 , HOH A:791binding site for residue EDO A 606
07AC7SOFTWARETHR B:188 , PHE B:261 , LEU B:264 , PHE B:265 , LYS B:268binding site for residue EDO B 800
08AC8SOFTWAREPRO B:295 , ILE B:296 , TYR B:297 , ASP B:373binding site for residue EDO B 801
09AC9SOFTWAREALA B:141 , ASN B:142 , MET B:294 , ARG B:359 , ARG B:362 , ALA B:363 , TYR B:367 , HOH B:913 , HOH B:926binding site for residue EDO B 802
10AD1SOFTWAREALA B:363 , TYR B:367 , ASP B:368 , CYS B:370 , ILE B:415 , LYS B:416binding site for residue EDO B 803
11AD2SOFTWAREASP B:220 , ARG B:246binding site for residue EDO B 804
12AD3SOFTWARELEU B:87 , GLN B:525 , MET B:536 , TRP B:548 , EDO B:806 , HOH B:1011binding site for residue EDO B 805
13AD4SOFTWARETHR B:471 , HIS B:472 , ASN B:474 , THR B:476 , PRO B:523 , GLN B:525 , MET B:536 , EDO B:805 , HOH B:1010binding site for residue EDO B 806
14AD5SOFTWAREARG B:535 , THR B:538 , GLY B:544 , ASN B:545binding site for residue EDO B 807

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5CPQ)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5CPQ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5CPQ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5CPQ)

(-) Exons   (0, 0)

(no "Exon" information available for 5CPQ)

(-) 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:512
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhh....hhhhh.eeeee.hhhhh.........hhhhhhhhhhhhhh...eee......................hhhhhhhhhhhhh...hhhhh.........hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeeee......hhhhhhhhhhh.........eeee............hhhhhhhh.hhhhhhhhhhhhhhh.eeeeehhhhh.eeeeee....hhhhheeee..hhhhhhhhhhhhh...eee......hhhhhhhhhhh...eeee.hhh.........hhhhh...eeee.......hhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh...eeeeehhhhh..hhhhh...................hhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5cpq A  59 ISVGEDFPSEYEQWLPVPDPESRRRAGVLLHPTSFRGPHGIGDLGEEAFRFIDWLHSTGCSVWQVLPLVPPDEGGSPYAGQDANCGNTLLISLDELVKDGLLIKDELPQPIDADSVNYQTANKLKSPLITKAAKRLIDGNGELKSKLLDFRNDPSISCWLEDAAYFAAIDNTLNAYSWFEWPEPLKNRHLSALEAIYESQKEFIDLFIAKQFLFQRQWQKVREYARRQGVDIMGDMPIYVGYHSADVWANKKHFLLNKKGFPLLVSGVPPGQLWGSPLYDWKAMESDQYSWWVNRIRRAQDLYDECRIDHFRGFAGFWAVPSEAKVAMVGRWKVGPGKSLFDAISKGVGKIKIIAEDLGVITKDVVELRKSIGAPGMAVLQFAFGGGADNPHLPHNHEVNQVVYSGTHDNDTIRGWWDTLDQEEKSKAMKYLSIAGEDDISWSVIQAAFSSTAQTAIIPMQDILGLGSSARMNTPATEVGNWGWRIPSSTSFDNLETESDRLRDLLSLYGRL 576
                                    68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328|      344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514       524       534       544       554       564       574  
                                                                                                                                                                                                                                                                                                       328|                                                                                                                                                                                                                                                 
                                                                                                                                                                                                                                                                                                        335                                                                                                                                                                                                                                                 


Chain B from PDB  Type:PROTEIN  Length:514
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..................hhhhh.eeeee.hhhhh.........hhhhhhhhhhhhhh...eee......................hhhhhhhhhhhhh...hhhhh.........hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeeee......hhhhhhhhhhh.........eeee..............hhhhhhhh.hhhhhhhhhhhhhhh.eeeeehhhhh.eeeeee....hhhhheeee..hhhhhhhhhhhhh...eee......hhhhhhhhhhh...eeee.hhh.........hhhhh...eeee.......hhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh...eeeeehhhhh..hhhhh...................hhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5cpq B  59 ISVGEDFPSEYEQWLPVPDPESRRRAGVLLHPTSFRGPHGIGDLGEEAFRFIDWLHSTGCSVWQVLPLVPPDEGGSPYAGQDANCGNTLLISLDELVKDGLLIKDELPQPIDADSVNYQTANKLKSPLITKAAKRLIDGNGELKSKLLDFRNDPSISCWLEDAAYFAAIDNTLNAYSWFEWPEPLKNRHLSALEAIYESQKEFIDLFIAKQFLFQRQWQKVREYARRQGVDIMGDMPIYVGYHSADVWANKKHFLLNKKGFPLLVSGVPPDTGQLWGSPLYDWKAMESDQYSWWVNRIRRAQDLYDECRIDHFRGFAGFWAVPSEAKVAMVGRWKVGPGKSLFDAISKGVGKIKIIAEDLGVITKDVVELRKSIGAPGMAVLQFAFGGGADNPHLPHNHEVNQVVYSGTHDNDTIRGWWDTLDQEEKSKAMKYLSIAGEDDISWSVIQAAFSSTAQTAIIPMQDILGLGSSARMNTPATEVGNWGWRIPSSTSFDNLETESDRLRDLLSLYGRL 576
                                    68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328||     342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552       562       572    
                                                                                                                                                                                                                                                                                                        329|                                                                                                                                                                                                                                                  
                                                                                                                                                                                                                                                                                                         334
   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 5CPQ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5CPQ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5CPQ)

(-) Gene Ontology  (11, 11)

Asymmetric/Biological Unit(hide GO term definitions)

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        DPE1_ARATH | Q9LV91: 5cps 5cpt 5cq1 5csu 5csy

(-) Related Entries Specified in the PDB File

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