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(-) Description

Title :  POLIOVIRUS POLYMERASE - S291P LOOP MUTANT
 
Authors :  A. J. Sholders, O. B. Peersen
Date :  14 Nov 13  (Deposition) - 22 Jan 14  (Release) - 26 Mar 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym./Biol. Unit :  A
Keywords :  Polymerase, Rna Dependent Rna Polymerase, Rdrp, Virus, Viral Protein, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. J. Sholders, O. B. Peersen
Distinct Conformations Of A Putative Translocation Element In Poliovirus Polymerase.
J. Mol. Biol. V. 426 1407 2014
PubMed-ID: 24424421  |  Reference-DOI: 10.1016/J.JMB.2013.12.031

(-) Compounds

Molecule 1 - RNA-DIRECTED RNA POLYMERASE 3D-POL
    Chains: A
    EC Number: 2.7.7.48
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PKK
    Expression System Strain: BL21(DE3) PLYSS
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Scientific: HUMAN POLIOVIRUS 1
    Organism Taxid: 12081
    Strain: MAHONEY
    Synonym: P3D-POL, GENOME POLYPROTEIN

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 14)

Asymmetric/Biological Unit (4, 14)
No.NameCountTypeFull Name
11PE4Ligand/IonPENTAETHYLENE GLYCOL
2ACY5Ligand/IonACETIC ACID
3CAS4Mod. Amino AcidS-(DIMETHYLARSENIC)CYSTEINE
4NA1Ligand/IonSODIUM ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETRP A:403 , THR A:404 , THR A:410 , HIS A:413 , HOH A:1126BINDING SITE FOR RESIDUE ACY A 901
2AC2SOFTWARETYR A:334 , HIS A:336 , PRO A:440 , ARG A:443 , HOH A:1067BINDING SITE FOR RESIDUE ACY A 903
3AC3SOFTWAREARG A:379BINDING SITE FOR RESIDUE ACY A 904
4AC4SOFTWARESER A:219 , LYS A:220 , LEU A:387 , PHE A:461BINDING SITE FOR RESIDUE 1PE A 906
5AC5SOFTWAREPHE A:378BINDING SITE FOR RESIDUE 1PE A 907
6AC6SOFTWAREGLU A:227 , LYS A:228 , GLU A:337 , THR A:365BINDING SITE FOR RESIDUE 1PE A 908
7AC7SOFTWARETYR A:326 , ARG A:376 , HOH A:1057BINDING SITE FOR RESIDUE 1PE A 909
8AC8SOFTWARELEU A:268 , ASN A:269 , SER A:271 , GLY A:284 , GLY A:285 , HOH A:1082BINDING SITE FOR RESIDUE NA A 910

(-) SS Bonds  (0, 0)

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

(-) 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 4NLT)

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4NLT)

(-) 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:461
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains d4nlta_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee.hhhh............ee...........ee............hhhhhhhh..........hhhhhhhhhhhhhhhhh........hhhhhhhh...............hhhhh..hhhhh.......hhhhhhhhhhhh....eeeee...eehhhhhhh....eeee.hhhhhhhhhhhhhhhhhhhhhh...........hhhhhh.hhhhhh..eee.eee.hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhheeeeee..eeeeee......hhhhhhhhhhhhhhhhhhhhhhhh...hhhhheeeee..eeeeee....hhhhhhhhhhh....eee.hhh................eeee.......eeee.hhhhhhhhhhee.hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhh.hhhhhh....hhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nlt A   1 GEIQWMRPSKEVGYPIINAPSKTKLEPSAFHYVFEGVKEPAVLTKNDPRLKTDFEEAIFSKYVGNKITEVDEYMKEAVDHYAGQLMSLDINTEQMcLEDAMYGTDGLEALDLSTSAGYPYVAMGKKKRDILNKQTRDTKEMQKLLDTYGINLPLVTYVKDELRSKTKVEQGKSRLIEASSLNDSVAMRMAFGNLYAAFHKNPGVITGSAVGcDPDLFWSKIPVLMEEKLFAFDYTGYDASLSPAWFEALKMVLEKIGFGDRVDYIDYLNHSHHLYKNKTYcVKGGMPSGcPGTSIFNSMINNLIIRTLLLKTYKGIDLDHLKMIAYGDDVIASYPHEVDASLLAQSGKDYGLTMTPADKSATFETVTWENVTFLKRFFRADEKYPFLIHPVMPMKEIHESIRWTKDPRNTQDHVRSLCLLAWHNGEEEYNKFLAKIRSVPIGRALDLPEYSTLYDRWLDSF 461
                                    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 
                                                                                                                          96-CAS                                                                                                             212-CAS                                                              281-CAS  290-CAS
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Multi-domain proteins (alpha and beta) (2421)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (48, 48)

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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  4nlt
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  POLG_POL1M | P03300
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  2.7.7.48
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 Related Entries

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

UniProtKB/Swiss-Prot
        POLG_POL1M | P03300: 1al2 1ar6 1ar7 1ar8 1ar9 1asj 1dgi 1fpt 1hxs 1l1n 1ng7 1nn8 1po1 1po2 1pov 1ra6 1ra7 1raj 1rdr 1tql 1vbd 1xyr 2bbl 2bbp 2ijd 2ijf 2ily 2ilz 2im0 2im1 2im2 2im3 2plv 3epc 3iyb 3iyc 3j3o 3j3p 3j48 3j8f 3j9f 3jbc 3jbd 3jbe 3jbf 3jbg 3ol7 4dcd 4k4s 4k4t 4k4u 4k4v 4k4w 4nlo 4nlp 4nlq 4nlr 4nls 4nlu 4nlv 4nlw 4nlx 4nly 4r0e 5ktz 5ku0 5ku2 5kwl

(-) Related Entries Specified in the PDB File

4nlo 4nlp 4nlq 4nlr 4nls 4nlu 4nlv 4nlw 4nlx 4nly