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(-) Description

Title :  CRYSTAL STRUCTURE OF MONOMERIC GLYCOGEN SYNTHASE FROM PYROCOCCUS ABYSSI
 
Authors :  A. Diaz, C. Martinez-Pons, I. Fita, J. C. Ferrer, J. J. Guinovart
Date :  09 Dec 09  (Deposition) - 29 Dec 10  (Release) - 08 Jun 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Glycosyltransferase Family, 5 Udp/Adp-Glucose-Glycogen Synthase, Two Rossman Folds, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Diaz, C. Martinez-Pons, I. Fita, J. C. Ferrer, J. J. Guinovart
Processivity And Subcellular Localization Of Glycogen Synthase Depend On A Non-Catalytic High Affinity Glycogen-Binding Site.
J. Biol. Chem. V. 286 18505 2011
PubMed-ID: 21464127  |  Reference-DOI: 10.1074/JBC.M111.236109

(-) Compounds

Molecule 1 - GLGA GLYCOGEN SYNTHASE
    Chains: A, B
    EC Number: 2.4.1.21
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PCOLD I
    Expression System Strain: BL21 (DE3)/PG-TF2
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 1-426
    Gene: PYRAB00770, PAB2292
    Mutation: YES
    Organism Scientific: PYROCOCCUS ABYSSI
    Organism Taxid: 29292

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 18)

Asymmetric Unit (4, 18)
No.NameCountTypeFull Name
1CL6Ligand/IonCHLORIDE ION
2GOL4Ligand/IonGLYCEROL
3K6Ligand/IonPOTASSIUM ION
4MTT2Ligand/IonMALTOTETRAOSE
Biological Unit 1 (2, 3)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2GOL2Ligand/IonGLYCEROL
3K-1Ligand/IonPOTASSIUM ION
4MTT1Ligand/IonMALTOTETRAOSE
Biological Unit 2 (2, 3)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2GOL2Ligand/IonGLYCEROL
3K-1Ligand/IonPOTASSIUM ION
4MTT1Ligand/IonMALTOTETRAOSE

(-) Sites  (16, 16)

Asymmetric Unit (16, 16)
No.NameEvidenceResiduesDescription
01AC1SOFTWARELYS A:157 , LEU A:171 , PRO A:173 , TYR A:174 , PRO A:175 , ASP A:176 , ILE A:177 , ASP A:178 , THR A:182 , TYR A:185BINDING SITE FOR RESIDUE MTT A 5360
02AC2SOFTWAREASP A:128 , HIS A:130 , GOL A:6502BINDING SITE FOR RESIDUE GOL A 6500
03AC3SOFTWARETRP A:129 , HIS A:130 , ARG A:152 , ASN A:154 , GOL A:6500BINDING SITE FOR RESIDUE GOL A 6502
04AC4SOFTWAREGLU A:339 , GLY A:342BINDING SITE FOR RESIDUE K A 5600
05AC5SOFTWAREGLU A:60 , LEU B:11BINDING SITE FOR RESIDUE K A 5602
06AC6SOFTWAREARG A:195BINDING SITE FOR RESIDUE K A 5607
07AC7SOFTWAREILE A:54 , ARG A:55BINDING SITE FOR RESIDUE CL A 5700
08AC8SOFTWAREGLY A:17BINDING SITE FOR RESIDUE CL A 5703
09AC9SOFTWARETRP A:202BINDING SITE FOR RESIDUE CL A 5704
10BC1SOFTWARELYS B:157 , LEU B:171 , PRO B:173 , TYR B:174 , PRO B:175 , ASP B:176 , ILE B:177 , ASP B:178 , HIS B:181 , THR B:182BINDING SITE FOR RESIDUE MTT B 5361
11BC2SOFTWARETYR B:89 , ASP B:128 , HIS B:130 , GOL B:6503BINDING SITE FOR RESIDUE GOL B 6501
12BC3SOFTWARELEU B:96 , TRP B:129 , HIS B:130 , ARG B:152 , ASN B:154 , GOL B:6501BINDING SITE FOR RESIDUE GOL B 6503
13BC4SOFTWAREGLU B:339 , GLY B:342BINDING SITE FOR RESIDUE K B 5601
14BC5SOFTWAREHIS B:34BINDING SITE FOR RESIDUE K B 5606
15BC6SOFTWAREARG B:55 , ARG B:105BINDING SITE FOR RESIDUE CL B 5701
16BC7SOFTWAREGLY B:17BINDING SITE FOR RESIDUE CL B 5702

(-) SS Bonds  (2, 2)

Asymmetric Unit
No.Residues
1A:221 -A:350
2B:221 -B:350

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Leu A:11 -Pro A:12
2Gly A:90 -Pro A:91
3Leu B:11 -Pro B:12
4Gly B:90 -Pro B:91

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3L01)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3L01)

(-) Exons   (0, 0)

(no "Exon" information available for 3L01)

(-) Sequences/Alignments

Asymmetric 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:428
 aligned with Q9V2J8_PYRAB | Q9V2J8 from UniProtKB/TrEMBL  Length:437

    Alignment length:428
                              1                                                                                                                                                                                                                                                                                                                                                                                                                                         
                              |      8        18        28        38        48        58        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       338       348       358       368       378       388       398       408       418        
         Q9V2J8_PYRAB     - --MKVLLLGFEFLPVKVGGLAEALTAISEALASLGHEVLVFTPSHGRFQGEEIGKIRVFGEEVQVKVSYEERGNLRIYRIGGGLLDSEDVYGPGWDGLIRKAVTFGRASVLLLNDLLREEPLPDVVHFHDWHTVFAGALIKKYFKIPAVFTIHRLNKSKLPAFYFHEAGLSELAPYPDIDPEHTGGYIADIVTTVSRGYLIDEWGFFRNFEGKITYVFNGIDCSFWNESYLTGSRDERKKSLLSKFGMDEGVTFMFIGRFDRGQKGVDVLLKAIEILSSKKEFQEMRFIIIGKGDPELEGWARSLEEKHGNVKVITEMLSREFVRELYGSVDFVIIPSYFEPFGLVALEAMCLGAIPIASAVGGLRDIITNETGILVKAGDPGELANAILKALELSRSDLSKFRENCKKRAMSFSWEKSAERYVKAYT 426
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee..........hhhhhhhhhhhhhhhh..eeeeeee.......eeeeeeee..eeeeeeeeeeee..eeeeeeehhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhh......eeeee...hhhhhhhhhhhhh..eeeee.......eehhhhhhh.hhhhh...eehhhhhhhhhh.eeee.hhhhhhhhhhhhhhhh..eee..........hhhhh..hhhhhhhhhhhh......eeeeee........hhhhhhhhhhhhh..hhhh.eeeeee...hhhhhhhhhhhhhhh..eeee....hhhhhhhhhh...eeee.......hhhhhhhhhh..eeeee..hhhhhhh.....eee...hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh..hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3l01 A  -1 RHMKVLLLGFEFLPVKVGGLAEALTAISEALASLGHEVLVFTPSHGRFQGEEIGKIRVFGEEVQVKVSYEERGNLRIYRIGGGLLDSEDVYGPGWDGLIRKAVTFGRASVLLLNDLLREEPLPDVVHFHDWHTVFAGALIKKYFKIPAVFTIHRLNKSKLPAFYFHEAGLSELAPYPDIDPEHTGGYIADIVTTVSRGYLIDEWGFFRNFEGKITYVFNGIDCSFWNESYLTGSRDERKKSLLSKFGMDEGVTFMFIGRFDRGQKGVDVLLKAIEILSSKKEFQEMRFIIIGKGDPELEGWARSLEEKHGNVKVITEMLSREFVRELYGSVDFVIIPSYFEPFGLVALEAMCLGAIPIASAVGGLRDIITNETGILVKAGDPGELANAILKALELSRSDLSKFRENCKKRAMSFSWEKSAERYVKAYA 426
                                     8        18        28        38        48        58        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       338       348       358       368       378       388       398       408       418        


Chain B from PDB  Type:PROTEIN  Length:428
 aligned with Q9V2J8_PYRAB | Q9V2J8 from UniProtKB/TrEMBL  Length:437

    Alignment length:428
                              1                                                                                                                                                                                                                                                                                                                                                                                                                                         
                              |      8        18        28        38        48        58        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       338       348       358       368       378       388       398       408       418        
         Q9V2J8_PYRAB     - --MKVLLLGFEFLPVKVGGLAEALTAISEALASLGHEVLVFTPSHGRFQGEEIGKIRVFGEEVQVKVSYEERGNLRIYRIGGGLLDSEDVYGPGWDGLIRKAVTFGRASVLLLNDLLREEPLPDVVHFHDWHTVFAGALIKKYFKIPAVFTIHRLNKSKLPAFYFHEAGLSELAPYPDIDPEHTGGYIADIVTTVSRGYLIDEWGFFRNFEGKITYVFNGIDCSFWNESYLTGSRDERKKSLLSKFGMDEGVTFMFIGRFDRGQKGVDVLLKAIEILSSKKEFQEMRFIIIGKGDPELEGWARSLEEKHGNVKVITEMLSREFVRELYGSVDFVIIPSYFEPFGLVALEAMCLGAIPIASAVGGLRDIITNETGILVKAGDPGELANAILKALELSRSDLSKFRENCKKRAMSFSWEKSAERYVKAYT 426
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ---Glyco_transf_5-3l01B01 B:2-205                                                                                                                                                                              -----------------------------Glycos_transf_1-3l01B03 B:235-412                                                                                                                                                 -------------- Pfam domains (1)
           Pfam domains (2) ---Glyco_transf_5-3l01B02 B:2-205                                                                                                                                                                              -----------------------------Glycos_transf_1-3l01B04 B:235-412                                                                                                                                                 -------------- Pfam domains (2)
         Sec.struct. author ...eeeee..........hhhhhhhhhhhhhhhh..eeeeeee.......eeeeeeee..eeeeeeeeeeee..eeeeeeehhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhh......eeeee...hhhhhhhhhhhhh..eeeee.......eehhhhhhh.hhhhh...eehhhhhhhhhh.eeee.hhhhhhhhhhhhhhhh..eee..........hhhhh..hhhhhhhhhhhh......eeeeee........hhhhhhhhhhhhh.hhhhh.eeeeee...hhhhhhhhhhhhhhh..eeee....hhhhhhhhhh...eeee.......hhhhhhhhhh..eeeee...hhhhhh.....eee...hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh..hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3l01 B  -1 RHMKVLLLGFEFLPVKVGGLAEALTAISEALASLGHEVLVFTPSHGRFQGEEIGKIRVFGEEVQVKVSYEERGNLRIYRIGGGLLDSEDVYGPGWDGLIRKAVTFGRASVLLLNDLLREEPLPDVVHFHDWHTVFAGALIKKYFKIPAVFTIHRLNKSKLPAFYFHEAGLSELAPYPDIDPEHTGGYIADIVTTVSRGYLIDEWGFFRNFEGKITYVFNGIDCSFWNESYLTGSRDERKKSLLSKFGMDEGVTFMFIGRFDRGQKGVDVLLKAIEILSSKKEFQEMRFIIIGKGDPELEGWARSLEEKHGNVKVITEMLSREFVRELYGSVDFVIIPSYFEPFGLVALEAMCLGAIPIASAVGGLRDIITNETGILVKAGDPGELANAILKALELSRSDLSKFRENCKKRAMSFSWEKSAERYVKAYA 426
                                     8        18        28        38        48        58        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       338       348       358       368       378       388       398       408       418
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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 3L01)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3L01)

(-) Pfam Domains  (2, 4)

Asymmetric Unit
(-)
Clan: GT-B (132)

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q9V2J8_PYRAB | Q9V2J8)
molecular function
    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).

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  3l01
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  Q9V2J8_PYRAB | Q9V2J8
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  2.4.1.21
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 Related Entries

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

UniProtKB/TrEMBL
        Q9V2J8_PYRAB | Q9V2J8: 2bfw 2bis 3fro 4s0v 4zj8 4zjc 5u09

(-) Related Entries Specified in the PDB File

1rzv THE SAME ENZYME FROM AGROBACTERIUM TUMEFACIENS
2bis THE TRIMERIC ENZYME
3cop THE SAME ENZYME FROM ESCHERICHIA COLI