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(-) Description

Title :  POLIOVIRUS TYPE 3 (STRAIN SAUKETT) STABILIZED VIRUS-LIKE PARTICLE IN COMPLEX WITH THE POCKET FACTOR COMPOUND GPP3
 
Authors :  M. W. Bahar, A. Kotecha, E. E. Fry, D. I. Stuart
Date :  02 Jun 17  (Deposition) - 12 Jul 17  (Release) - 12 Jul 17  (Revision)
Method :  ELECTRON MICROSCOPY
Resolution :  4.10
Chains :  Asym. Unit :  1,2,3,4
Biol. Unit 1:  1,2,3,4  (60x)
Keywords :  Poliovirus, Virus-Like Particle, Vaccine, Pocket Factor, Virus Like Particle (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Marsian, H. Fox, M. W. Bahar, A. Kotecha, E. E. Fry, D. I. Stuart, A. J. Macadam, D. J. Rowlands, G. P. Lomonossoff
Plant-Made Polio 3 Stabilized Vlps - A Candidate Synthetic Polio Vaccine
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - CAPSID PROTEINS, VP1
    Chains: 1
    Engineered: YES
    Expression System: NICOTIANA BENTHAMIANA
    Expression System Plasmid: PEAQ-HT
    Expression System Taxid: 4100
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Scientific: HUMAN POLIOVIRUS 3
    Organism Taxid: 12086
 
Molecule 2 - CAPSID PROTEINS, VP2
    Chains: 2
    Engineered: YES
    Expression System: NICOTIANA BENTHAMIANA
    Expression System Plasmid: PEAQ-HT
    Expression System Taxid: 4100
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Scientific: HUMAN POLIOVIRUS 3
    Organism Taxid: 12086
 
Molecule 3 - CAPSID PROTEINS, VP3
    Chains: 3
    Engineered: YES
    Expression System: NICOTIANA BENTHAMIANA
    Expression System Plasmid: PEAQ-HT
    Expression System Taxid: 4100
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Scientific: HUMAN POLIOVIRUS 3
    Organism Taxid: 12086
 
Molecule 4 - GENOME POLYPROTEIN
    Chains: 4
    EC Number: 3.4.22.29, 3.6.1.15, 3.4.22.28, 2.7.7.48
    Engineered: YES
    Expression System: NICOTIANA BENTHAMIANA
    Expression System Plasmid: PEAQ-HT
    Expression System Taxid: 4100
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Scientific: POLIOVIRUS TYPE 3 (STRAINS P3/LEON/37 AND P3/LEON 12A[1]B)
    Organism Taxid: 12086
    Strain: S P3/LEON/37 AND P3/LEON 12A[1]B

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : 1234
Biological Unit 1 (60x): 1234

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
19LW1Ligand/Ion1-[5-[4-(ETHOXYIMINOMETHYL)PHENOXY]-3-METHYL-PENTYL]-3-PYRIDIN-4-YL-IMIDAZOL-2-ONE
Biological Unit 1 (1, 60)
No.NameCountTypeFull Name
19LW60Ligand/Ion1-[5-[4-(ETHOXYIMINOMETHYL)PHENOXY]-3-METHYL-PENTYL]-3-PYRIDIN-4-YL-IMIDAZOL-2-ONE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR 1:109 , TYR 1:110 , MET 1:130 , TYR 1:157 , PRO 1:179 , ILE 1:181 , ILE 1:192 , VAL 1:194 , TYR 1:203 , ASP 1:235 , PHE 1:236binding site for residue 9LW 1 401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5O5P)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Leu 2:82 -Pro 2:83

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5O5P)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5O5P)

(-) Exons   (0, 0)

(no "Exon" information available for 5O5P)

(-) 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 1 from PDB  Type:PROTEIN  Length:235
                                                                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhh...ee...eee............eeeee........hhhhhh.eeeeeeeeeeeeeeee.............eeeeeee...........hhhhhh....eeeee........ee........ee.................................eeeeee..........eeeeeeeeeeeeeeeee.............................. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5o5p 1  66 QRRSRSESTIESFFARGACVAIIEVDNEEPTTRAQKLFAMWRITYKDTVQLRRKLEFFTYSRFDMELTFVVTANFTNTNNGHALNQVYQIMYIPPGAPTPKSWDDYTWQTSSNPSIFYTYGAAPARISVPYVGLANAYSHFYDGFAKVPLKTDANDQIGDSLYSAMTVDDFGVLAIRVVNDHNPTKVTSKVRIYMKPKHVRVWCPRPPRAVPYYGPGVDYKDNLNPLSEKGLTTY 300
                                    75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295     


Chain 2 from PDB  Type:PROTEIN  Length:260
                                                                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....................ee.hhh..........................ee...eee......eeeee.......hhhhhhhhheeeeeeeeeeeee.........eeeee.ee.........................ee....................hhhhh....hhhhhhhh.ee...........eee................eeeeeeeee...........eeeeeee.eeeeeeeee......... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5o5p 2  12 RVLQLTIGNSTITTQEAANSVVAYGRWPEFIRDDEANPVDQPTEPDVATCRFYTLDTVMWGKESKGWWWKLPDALRDMGLFGQNMYYHYLGRSGYTVHVQCNASKFHQGALGVFAIPEYCLAGDSDKQRYTSYANANPGEKGGKFYSQFNRDTAVTSPKREFCPVDYLLGCGVLLGNAFVYPHQIINLRTNNSATIVLPYVNAMAIDSMVKHNNWGIAILPLSPLDFAQESSVEIPITVTIAPMCSEFNGLRNVTAPKFQ 271
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271


Chain 3 from PDB  Type:PROTEIN  Length:235
                                                                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........................................hhhhh....ee...........hhhhh.eee..........eeee.............hhhhhh.eeeee...eee...........eeeeeee.................eeeee........ee.........ee..........eeeeee.............eee..ee......eeeee.......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5o5p 3   1 GLPVLNTPGSNQYLTSDNYQSPCAIPEFDVTPPIDIPGEVKNMMELAEIDTMIPLNLENTKRNTMDMYRVTLSDSADLSQPILCFSLSPASDPRLSHTMLGEVLNYYTHWAGSLKFTFLFCGSMMATGKILVAYAPPGAQPPTSRKEAMLGTHVIWDLGLQSSCTMVVPWISNVTYRQTTQDSFTEGGYISMFYQTRIVVPLSTPKSMSMLGFVSACNDFSVRLLRDTTHISQSA 235
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230     


Chain 4 from PDB  Type:PROTEIN  Length:17
                                                 
               SCOP domains ----------------- SCOP domains
               CATH domains ----------------- CATH domains
               Pfam domains ----------------- Pfam domains
         Sec.struct. author ................. Sec.struct. author
                 SAPs(SNPs) ----------------- SAPs(SNPs)
                    PROSITE ----------------- PROSITE
                 Transcript ----------------- Transcript
                 5o5p 4  25 INYTTINYYKDSASNAA  41
                                    34
   Legend:   → Mismatch (orange background)
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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 5O5P)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5O5P)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5O5P)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 5O5P)

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 Related Entries

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

UniProtKB/Swiss-Prot
        POLG_POL3L | P03302: 1piv 1pvc 1vba 1vbb 1vbc 1vbe 3epd 3iyb 3iyc 5o5b
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(-) Related Entries Specified in the PDB File

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