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(-) Description

Title :  CRYSTAL STRUCTURE OF A GLYCOSYLTRANSFERASE INVOLVED IN THE GLYCOSYLATION OF THE MAJOR CAPSID OF PBCV-1
 
Authors :  Y. Zhang, X. Ye, J. L. Van Etten, M. G. Rossmann
Date :  19 Mar 07  (Deposition) - 21 Aug 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym./Biol. Unit :  A
Keywords :  Glycosyltransferase, Pbcv, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Zhang, Y. Xiang, J. L. Van Etten, M. G. Rossmann
Structure And Function Of A Chlorella Virus-Encoded Glycosyltransferase.
Structure V. 15 1031 2007
PubMed-ID: 17850743  |  Reference-DOI: 10.1016/J.STR.2007.07.006

(-) Compounds

Molecule 1 - PUTATIVE GLYCOSYLTRANSFERASE (MANNOSYLTRANSFERASE) INVOLVED IN GLYCOSYLATING THE PBCV-1 MAJOR CAPSID PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PTYB1
    Expression System Strain: BL21(DE3)-RIL
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: N-TERMINAL DOMAIN
    Gene: A64R
    Organism Scientific: PARAMECIUM BURSARIA CHLORELLA VIRUS 1
    Organism Taxid: 10506
    Synonym: VP54

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1FLC1Ligand/IonCITRATE ANION
2MN1Ligand/IonMANGANESE (II) ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:78 , ASP A:80 , HIS A:193 , FLC A:802BINDING SITE FOR RESIDUE MN A 214
2AC2SOFTWAREASP A:78 , ASP A:80 , HIS A:193 , CYS A:195 , GLY A:196 , ARG A:202 , MN A:214 , HOH A:916 , HOH A:936BINDING SITE FOR RESIDUE FLC A 802

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2P6W)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Phe A:13 -Pro A:14
2Ala A:111 -Pro A:112
3Ala A:143 -Pro A:144
4Phe A:148 -Pro A:149

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2P6W)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2P6W)

(-) Exons   (0, 0)

(no "Exon" information available for 2P6W)

(-) 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:206
 aligned with Q89399_PBCV1 | Q89399 from UniProtKB/TrEMBL  Length:638

    Alignment length:206
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203      
         Q89399_PBCV1     4 PCITILSGHFPKETIYARKTKELVEEYCSIHGYNFYYEESEPLETEEHALHFRRSWIIQQAAEKFPSTEWFLWLDSDVYVNPKNKNKPITSFIDLSDPNILYHTFHEAPWGSYPINTGVKFVHKDALEIEKIVWSLRNEAPWNTFPYEQKTVYEYVFPRIPGRYIVHDPYTLNCIVKAYPEHVKDALFVHMCGTSRAERDEHMEMV 209
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------Glyco_transf_34-2p6wA01 A:11-106                                                                ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee.....hhhhhhhhhhhhhhhhhhh.eeeee.......hhhhhhhhhhhhhhhhhhhh....eeeee...eee.hhhh..hhhhh.........eeee.............eeeee..hhhhhhhhhhh..........hhhhhhhhhhhhhh...eeee......ee......hhhhh.eee....hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2p6w A   4 PCITILSGHFPKETIYARKTKELVEEYCSIHGYNFYYEESEPLETEEHALHFRRSWIIQQAAEKFPSTEWFLWLDSDVYVNPKNKNKPITSFIDLSDPNILYHTFHEAPWGSYPINTGVKFVHKDALEIEKIVWSLRNEAPWNTFPYEQKTVYEYVFPRIPGRYIVHDPYTLNCIVKAYPEHVKDALFVHMCGTSRAERDEHMEMV 209
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203
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  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 2P6W)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2P6W)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: GT-A (172)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q89399_PBCV1 | Q89399)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    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).
cellular component
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.

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 Related Entries

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

UniProtKB/TrEMBL
        Q89399_PBCV1 | Q89399: 2p72 2p73

(-) Related Entries Specified in the PDB File

2p72 2p73