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(-) Description

Title :  ATOMIC-RESOLUTION CRYSTAL STRUCTURE OF THE RECOMBINANT FORM OF SCYTOVIRIN
 
Authors :  T. Moulaei, I. Botos, N. E. Ziolkowska, Z. Dauter, A. Wlodawer
Date :  31 Jul 07  (Deposition) - 27 Nov 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Lectin, Sugar Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Moulaei, I. Botos, N. E. Ziolkowska, H. R. Bokesch, L. R. Krumpe, T. C. Mckee, B. R. O'Keefe, Z. Dauter, A. Wlodawer
Atomic-Resolution Crystal Structure Of The Antiviral Lectin Scytovirin.
Protein Sci. V. 16 2756 2007
PubMed-ID: 17965185  |  Reference-DOI: 10.1110/PS.073157507

(-) Compounds

Molecule 1 - SCYTOVIRIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector Type: PET32
    Organism Scientific: SCYTONEMA VARIUM
    Organism Taxid: 423208

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1CL3Ligand/IonCHLORIDE ION
2GOL1Ligand/IonGLYCEROL

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:15 , GLN A:39 , ARG A:67BINDING SITE FOR RESIDUE CL A 96
2AC2SOFTWAREGLY A:3 , PRO A:4 , THR A:5 , HOH A:157 , HOH A:160BINDING SITE FOR RESIDUE CL A 97
3AC3SOFTWARELYS A:50BINDING SITE FOR RESIDUE CL A 98
4AC4SOFTWAREGLU A:10 , ASN A:18 , ASP A:27 , SER A:42 , ASP A:46 , HOH A:126 , HOH A:196 , HOH A:202BINDING SITE FOR RESIDUE GOL A 99

(-) SS Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1A:7 -A:55
2A:20 -A:32
3A:26 -A:38
4A:68 -A:80
5A:74 -A:86

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Lys A:44 -Pro A:45
2Asp A:46 -Pro A:47

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2QSK)

(-) 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    
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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:95
 aligned with SVN_SCYVA | P86041 from UniProtKB/Swiss-Prot  Length:95

    Alignment length:95
                                    10        20        30        40        50        60        70        80        90     
             SVN_SCYVA    1 GSGPTYCWNEANNPGGPNRCSNNKQCDGARTCSSSGFCQGTSRKPDPGPKGPTYCWDEAKNPGGPNRCSNSKQCDGARTCSSSGFCQGTAGHAAA 95
               SCOP domains ----------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhh........hhhhh....ee.....ee.................hhhhh........hhhhh....ee.....ee........ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------- Transcript
                  2qsk A  1 GSGPTYCWNEANNPGGPNRCSNNKQCDGARTCSSSGFCQGTSRKPDPGPKGPTYCWDEAKNPGGPNRCSNSKQCDGARTCSSSGFCQGTAGHAAA 95
                                    10        20        30        40        50        60        70        80        90
   Legend:   → Mismatch (orange background)
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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 2QSK)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2QSK)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (SVN_SCYVA | P86041)
molecular function
    GO:0030246    carbohydrate binding    Interacting selectively and non-covalently with any carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.
    GO:0030247    polysaccharide binding    Interacting selectively and non-covalently with any polysaccharide, a polymer of many (typically more than 10) monosaccharide residues linked glycosidically.
biological process
    GO:0050688    regulation of defense response to virus    Any process that modulates the frequency, rate or extent of the antiviral response of a cell or organism.

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  Cis Peptide Bonds
    Asp A:46 - Pro A:47   [ RasMol ]  
    Lys A:44 - Pro A:45   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        SVN_SCYVA | P86041: 2jmv 2qt4

(-) Related Entries Specified in the PDB File

2qt4 ATOMIC-RESOLUTION CRYSTAL STRUCTURE OF THE NATURAL FORM OF SCYTOVIRIN