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(-) Description

Title :  CRYSTAL STRUCTURE OF COXSACKIEVIRUS B3 3D POLYMERASE IN COMPLEX WITH GPC-N143
 
Authors :  L. Vives-Adrian, C. Ferrer-Orta, N. Cerdaguer
Date :  10 Feb 15  (Deposition) - 01 Apr 15  (Release) - 08 Apr 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym./Biol. Unit :  A
Keywords :  Polymerase, Picornavirus, Coxsackievirus, Gpc-N143, Inhibitor, Transferase, Viral Protein (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
145Z1Ligand/Ion2,2'-[(4-FLUOROBENZENE-1,2-DIYL)BIS(OXY)]BIS(5-NITROBENZONITRILE)
2GOL4Ligand/IonGLYCEROL
3SO45Ligand/IonSULFATE ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWARELEU A:110 , ASP A:111 , THR A:114 , ARG A:188 , TYR A:195 , HIS A:199 , GLY A:290 , CYS A:291 , SER A:292 , GLY A:293 , THR A:294 , SER A:295 , TYR A:327binding site for residue 45Z A 501
02AC2SOFTWAREARG A:174 , GLY A:236binding site for residue SO4 A 502
03AC3SOFTWAREARG A:416 , PRO A:449 , HOH A:624binding 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 , ARG A:163 , SER A:164 , HOH A:651binding site for residue GOL A 505
06AC6SOFTWARELYS A:38 , LYS A:376 , ASP A:397 , GOL A:508binding site for residue SO4 A 506
07AC7SOFTWARETHR A:405 , LYS A:406 , ASP A:407 , HIS A:414binding site for residue GOL A 507
08AC8SOFTWARESER A:401 , SO4 A:506binding site for residue GOL A 508
09AC9SOFTWAREVAL A:29 , TYR A:385 , LEU A:388 , PRO A:408 , LEU A:459 , HIS A:463binding site for residue GOL A 509
10AD1SOFTWAREGLY A:426 , GLU A:427 , HIS A:428binding site for residue SO4 A 510

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4Y34)

(-) 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 4Y34)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4Y34)

(-) Exons   (0, 0)

(no "Exon" information available for 4Y34)

(-) 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:467
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee.hhhh............ee...........ee............hhhhhhhhh.........hhhhhhhhhhhhhhhhh........hhhhhhhh......................hhhhh.......hhhhhhhhhhhh....eeeee...eehhhhhhh....eeee.hhhhhhhhhhhhhhhhhhhhhh...........hhhhhh.hhhhhh..eeeeeee.hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhheeeee...eeeeee........hhhhhhhhhhhhhhhhhhhhhh...hhhhheeeee..eeeeee....hhhhhhhhhhh....ee.....................eeee.......eeee.hhhhhhhhhhee.hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhh.hhhhhh....hhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4y34 A   1 GEIEFIESSKDAGFPVINTPSKTKLEPSVFHQVFEGNKEPAVLRSGDPRLKANFEEAIFSKYIGNVNTHVDEYMLEAVDHYAGQLATLDISTEPMKLEDAVYGTEGLEALDLTTSAGYPYVALGIKKRDILSKKTKDLTKLKECMDKYGLNLPMVTYVKDELRSIEKVAKGKSRLIEASSLNDSVAMRQTFGNLYKTFHLNPGVVTGSAVGCDPDLFWSKIPVMLDGHLIAFDYSGYDASLSPVWFACLKMILEKLGYTHKETNYIDYLCNSHHLYRDKHYFVRGGMPSGCSGTSIFNSMINNIIIRTLMLKVYKGIDLDQFRMIAYGDDVIASYPWPIDASLLAEAGKGYGLIMTPADKGECFNEVTWTNVTFLKRYFRADEQYPFLVHPVMPMKDIHESIRWTKDPKNTQDHVRSLCLLAWHNGEHEYEEFIRKIRSVPVGRCLTLPAFSTLRRKWLDSFHHHHH 467
                                    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 4Y34)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4Y34)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4Y34)

(-) Gene Ontology  (36, 36)

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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  4y34
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 Related Entries

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

UniProtKB/TrEMBL
        Q5UEA2_9ENTO | Q5UEA2: 3ddk 3zyd 3zye 3zz3 3zz4 3zz5 3zz6 3zz7 3zz8 3zz9 3zza 3zzb 3zzc 3zzd 4k4x 4k4y 4k4z 4zp6 4zp7 4zp8 4zp9 4zpa 4zpb 4zpc 4zpd

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4Y34)