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(-) Description

Title :  CRYSTAL STRUCTURE OF WILD-TYPE E.COLI GS IN COMPLEX WITH ADP AND GLUCOSE(WTGSB)
 
Authors :  F. Sheng, J. Geiger
Date :  17 Aug 07  (Deposition) - 09 Sep 08  (Release) - 07 Jul 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym./Biol. Unit :  A
Keywords :  Glycosyl-Transferase, Gt-B Fold, Rossmann Fold, Closed-Form, Adp And Glucose Binding, Glycogen Biosynthesis, Glycosyltransferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. Sheng, X. Jia, A. Yep, J. Preiss, J. H. Geiger
The Crystal Structures Of The Open And Catalytically Competent Closed Conformation Of Escherichia Coli Glycogen Synthase.
J. Biol. Chem. V. 284 17796 2009
PubMed-ID: 19244233  |  Reference-DOI: 10.1074/JBC.M809804200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - GLYCOGEN SYNTHASE
    Chains: A
    EC Number: 2.4.1.21
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET24A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: GLGA
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Synonym: STARCH [BACTERIAL GLYCOGEN] SYNTHASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
12501Ligand/Ion(2R)-2-HYDROXY-3-[4-(2-HYDROXYETHYL)PIPERAZIN-1-YL]PROPANE-1-SULFONIC ACID
2ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
3GLC1Ligand/IonALPHA-D-GLUCOSE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:18 , LEU A:19 , HIS A:161 , ASN A:162 , ASN A:246 , GLN A:304 , GLU A:377 , PRO A:378 , CYS A:379 , GLY A:380BINDING SITE FOR RESIDUE GLC A 486
2AC2SOFTWARELYS A:15 , GLY A:18 , ASP A:21 , SER A:299 , ARG A:300 , LYS A:305 , LEU A:327 , GLY A:328 , GLY A:354 , TYR A:355 , HIS A:356 , LEU A:381 , THR A:382 , TYR A:385 , HOH A:489 , HOH A:505 , HOH A:556 , HOH A:590BINDING SITE FOR RESIDUE ADP A 487
3AC3SOFTWARETHR A:16 , GLY A:17 , GLY A:18 , LEU A:19 , TYR A:95 , ASP A:137 , TRP A:138 , HIS A:139 , TYR A:165 , HOH A:500 , HOH A:513BINDING SITE FOR RESIDUE 250 A 488

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2QZS)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Phe A:11 -Pro A:12

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2QZS)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2QZS)

(-) Exons   (0, 0)

(no "Exon" information available for 2QZS)

(-) 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:477
 aligned with GLGA_ECOLI | P0A6U8 from UniProtKB/Swiss-Prot  Length:477

    Alignment length:477
                                    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       
           GLGA_ECOLI     1 MQVLHVCSEMFPLLKTGGLADVIGALPAAQIADGVDARVLLPAFPDIRRGVTDAQVVSRRDTFAGHITLLFGHYNGVGIYLIDAPHLYDRPGSPYHDTNLFAYTDNVLRFALLGWVGAEMASGLDPFWRPDVVHAHDWHAGLAPAYLAARGRPAKSVFTVHNLAYQGMFYAHHMNDIQLPWSFFNIHGLEFNGQISFLKAGLYYADHITAVSPTYAREITEPQFAYGMEGLLQQRHREGRLSGVLNGVDEKIWSPETDLLLASRYTRDTLEDKAENKRQLQIAMGLKVDDKVPLFAVVSRLTSQKGLDLVLEALPGLLEQGGQLALLGAGDPVLQEGFLAAAAEYPGQVGVQIGYHEAFSHRIMGGADVILVPSRFEPCGLTQLYGLKYGTLPLVRRTGGLADTVSDCSLENLADGVASGFVFEDSNAWSLLRAIRRAFVLWSRPSLWRFVQRQAMAMDFSWQVAAKSYRELYYRLK 477
               SCOP domains d2qzsa_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------2qzsA02 A:249-458 Glycogen Phosphorylase B;                                                                                                                                                                       ------------------- CATH domains
               Pfam domains -Glyco_transf_5-2qzsA01 A:2-234                                                                                                                                                                                                           ------------------------------------------------Glycos_transf_1-2qzsA02 A:283-448                                                                                                                                     ----------------------------- Pfam domains
         Sec.struct. author .eeeee..........hhhhhhhhhhhhhhhhh..eeeeeee.hhhhhhhh...eeeeee......eeeeeeee..eeeeeeehhhhhh...............hhhhhhhhhhhhhhhhh..........eeeee.hhhhhhhhhhhhh....eeeeee.......eee.hhhhh...hhhhh.....ee..eeehhhhhhhhh.eeee.hhhhhhhh.hhhhhh.hhhhhhhhhhh..eee.........................hhhhhhhhhhhhhhhhh........eeeeeeeehhhhhhhhhhhhhhhhhhh..eeeeeeeehhhhhhhhhhhhhhh...eeeee..hhhhhhhhhhhh.eeee........hhhhhhhhhh.eeeee.hhhhhhhh...hhhhhhh.....eee...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2qzs A   1 MQVLHVCSEMFPLLKTGGLADVIGALPAAQIADGVDARVLLPAFPDIRRGVTDAQVVSRRDTFAGHITLLFGHYNGVGIYLIDAPHLYDRPGSPYHDTNLFAYTDNVLRFALLGWVGAEMASGLDPFWRPDVVHAHDWHAGLAPAYLAARGRPAKSVFTVHNLAYQGMFYAHHMNDIQLPWSFFNIHGLEFNGQISFLKAGLYYADHITAVSPTYAREITEPQFAYGMEGLLQQRHREGRLSGVLNGVDEKIWSPETDLLLASRYTRDTLEDKAENKRQLQIAMGLKVDDKVPLFAVVSRLTSQKGLDLVLEALPGLLEQGGQLALLGAGDPVLQEGFLAAAAEYPGQVGVQIGYHEAFSHRIMGGADVILVPSRFEPCGLTQLYGLKYGTLPLVRRTGGLADTVSDCSLENLADGVASGFVFEDSNAWSLLRAIRRAFVLWSRPSLWRFVQRQAMAMDFSWQVAAKSYRELYYRLK 477
                                    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
   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  (1, 1)

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

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Clan: GT-B (132)

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (GLGA_ECOLI | P0A6U8)
molecular function
    GO:0033201    alpha-1,4-glucan synthase activity    Catalysis of the reaction: RDP-glucose + [alpha-D-glucosyl-(1,4)]n = RDP + [alpha-D-glucosyl-(1,4)]n+1, where RDP is ADP or UDP.
    GO:0004373    glycogen (starch) synthase activity    Catalysis of the reaction: UDP-glucose + (1,4)-alpha-D-glucosyl(n) = UDP + (1,4)-alpha-D-glucosyl(n+1).
    GO:0009011    starch synthase activity    Catalysis of the reaction: ADP-glucose + (1,4)-alpha-D-glucosyl(n) = ADP + (1,4)-alpha-D-glucosyl(n+1).
    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:0006974    cellular response to DNA damage stimulus    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating damage to its DNA from environmental insults or errors during metabolism.
    GO:0005978    glycogen biosynthetic process    The chemical reactions and pathways resulting in the formation of glycogen, a polydisperse, highly branched glucan composed of chains of D-glucose residues.
cellular component
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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        GLGA_ECOLI | P0A6U8: 2r4t 2r4u 3cop 3cx4 3d1j 3guh

(-) Related Entries Specified in the PDB File

2qyy CRYSTAL STRUCTURE OF WILD-TYPE E.COLI GS IN COMPLEX WITH ADP AND DGM