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(-) Description

Title :  CRYSTAL STRUCTURE OF COXSACKIE VIRUS B3 3D POLYMERASE IN COMPLEX WITH GPC-N114 INHIBITOR
 
Authors :  L. Vives-Adrian, C. Ferrer-Orta, N. Verdaguer
Date :  09 Feb 15  (Deposition) - 01 Apr 15  (Release) - 08 Apr 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.90
Chains :  Asym./Biol. Unit :  A
Keywords :  Polymerase, Picornavirus, Coxsackievirus, Gpc-N114, Inhibitor, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Van Der Linden, L. Vives-Adrian, B. Selisko, C. Ferrer-Orta, X. Liu, K. Lanke, R. Ulferts, A. M. De Palma, F. Tanchis, N. Goris, D. Lefebvre, K. De Clercq, P. Leyssen, C. Lacroix, G. Purstinger, B. Coutard, B. Canard, D. D. Boehr, J. J. Arnold, C. E. Cameron, N. Verdaguer, J. Neyts, F. J. Van Kuppeveld
The Rna Template Channel Of The Rna-Dependent Rna Polymeras As A Target For Development Of Antiviral Therapy Of Multipl Genera Within A Virus Family.
Plos Pathog. V. 11 04733 2015
PubMed-ID: 25799064  |  Reference-DOI: 10.1371/JOURNAL.PPAT.1004733

(-) Compounds

Molecule 1 - 3D POLYMERASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: COXSACKIEVIRUS B3
    Organism Taxid: 12072

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 10)

Asymmetric/Biological Unit (3, 10)
No.NameCountTypeFull Name
11FS1Ligand/Ion2,2'-[(4-CHLOROBENZENE-1,2-DIYL)BIS(OXY)]BIS(5-NITROBENZONITRILE)
2GOL4Ligand/IonGLYCEROL
3SO45Ligand/IonSULFATE ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWARELEU A:107 , GLU A:108 , ASP A:111 , SER A:184 , ARG A:188 , HIS A:199 , GLY A:290 , CYS A:291 , SER A:292 , GLY A:293 , THR A:294 , SER A:295 , ILE A:296 , TYR A:327 , HOH A:618binding site for residue 1FS A 501
02AC2SOFTWARELYS A:61 , ARG A:174 , GLY A:236binding site for residue SO4 A 502
03AC3SOFTWAREARG A:416 , PRO A:449 , THR A:453binding site for residue SO4 A 503
04AC4SOFTWAREGLN A:384 , TYR A:385 , LYS A:409 , ARG A:455binding site for residue SO4 A 504
05AC5SOFTWARELYS A:38 , LYS A:376 , ASP A:397 , GLU A:400binding site for residue SO4 A 505
06AC6SOFTWAREGLY A:426 , GLU A:427 , HIS A:428binding site for residue SO4 A 506
07AC7SOFTWARELYS A:406 , HIS A:414binding site for residue GOL A 507
08AC8SOFTWARETYR A:385 , LEU A:388 , PRO A:408 , LEU A:459 , HIS A:463binding site for residue GOL A 508
09AC9SOFTWAREARG A:44 , SER A:45 , GLY A:46binding site for residue GOL A 509
10AD1SOFTWARELYS A:38 , ARG A:163 , SER A:164 , LYS A:167 , ARG A:174binding site for residue GOL A 510

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4Y2A)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Tyr A:118 -Pro A:119

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4Y2A)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4Y2A)

(-) Exons   (0, 0)

(no "Exon" information available for 4Y2A)

(-) 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:466
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee.hhhh............ee..........eee............hhhhhhhh..........hhhhhhhhhhhhhhhhh........hhhhhhhh......................hhhhhh......hhhhhhhhhhhh....eeeee...eeehhhhhhh...eeee.hhhhhhhhhhhhhhhhhhhhhh...........hhhhhh.hhhhhh..eeeeeee.hhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhheeeeee..eeeeee........hhhhhhhhhhhhhhhhhhhhhh...hhhhheeeee..eeeeee....hhhhhhhhhhh....eee...............ee..eeeee.......eeee.hhhhhhhhhhee.hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4y2a A   1 GEIEFIESSKDAGFPVINTPSKTKLEPSVFHQVFEGNKEPAVLRSGDPRLKANFEEAIFSKYIGNVNTHVDEYMLEAVDHYAGQLATLDISTEPMKLEDAVYGTEGLEALDLTTSAGYPYVALGIKKRDILSKKTKDLTKLKECMDKYGLNLPMVTYVKDELRSIEKVAKGKSRLIEASSLNDSVAMRQTFGNLYKTFHLNPGVVTGSAVGCDPDLFWSKIPVMLDGHLIAFDYSGYDASLSPVWFACLKMLLEKLGYTHKETNYIDYLCNSHHLYRDKHYFVRGGMPSGCSGTSIFNSMINNIIIRTLMLKVYKGIDLDQFRMIAYGDDVIASYPWPIDASLLAEAGKGYGLIMTPADKGECFNEVTWTNATFLKRYFRADEQYPFLVHPVMPMKDIHESIRWTKDPKNTQDHVRSLCLLAWHNGEHEYEEFIRKIRSVPVGRCLTLPAFSTLRRKWLDSFHHHH 466
                                    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
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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 4Y2A)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4Y2A)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4Y2A)

(-) Gene Ontology  (52, 52)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Tyr A:118 - Pro A:119   [ RasMol ]  
 

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  4y2a
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  POLG_CXB3N | P03313
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 Related Entries

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UniProtKB/Swiss-Prot
        POLG_CXB3N | P03313: 2vb0 2ztx 2zty 2ztz 2zu1 2zu3 3cdu 3cdw 4wfx 4wfy 4wfz

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4Y2A)