4PQV - JenaLib

Title :   CRYSTAL STRUCTURE OF AN XRN1-RESISTANT RNA FROM THE 3' UNTRANSLATED REGION OF A FLAVIVIRUS (MURRAY VALLEY ENCEPHALITIS VIRUS)

Authors :   E. G. Chapman, D. A. Costantino, J. L. Rabe, S. L. Moon, J. Wilusz, J. C. Ni J. S. Kieft

Date :   04 Mar 14 (Deposition) - 30 Apr 14 (Release) - 30 Apr 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.46

Chains :   Asym./Biol. Unit : A

Keywords :   Flavivirus, 3' Untranslated Region, Sfrna, Pseudoknot, Type C Rna Three-Way Junction, Xrn1 Resistant Rna, Xrrna), Resists Degradation, Exonuclease Xrn1, Small Flaviviral Rna, Rna (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   E. G. Chapman, D. A. Costantino, J. L. Rabe, S. L. Moon, J. Wilusz, J. C. Nix, J. S. Kieft
The Structural Basis Of Pathogenic Subgenomic Flavivirus Rn (Sfrna) Production.
Science V. 344 307 2014
PubMed-ID: 24744377 | Reference-DOI: 10.1126/SCIENCE.1250897

Compounds

Molecule 1 - XRN1-RESISTANT FLAVIVIRAL RNA
	Chains	:	A
	Engineered	:	YES
	Mutation	:	YES
	Organism Scientific	:	MURRAY VALLEY ENCEPHALITIS VIRUS
	Organism Taxid	:	11079
	Other Details	:	RNA WAS PREPARED BY IN VITRO TRANSCRIPTION WITH T7 POLYMERASE
	Synthetic	:	YES

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 9)

Sites (7, 7)

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	C A:5 , C A:23 , HOH A:201 , HOH A:202 , HOH A:203 , HOH A:207	BINDING SITE FOR RESIDUE MG A 102
2	AC2	SOFTWARE	G A:51	BINDING SITE FOR RESIDUE MG A 103
3	AC3	SOFTWARE	G A:14 , A A:16 , G A:58 , HOH A:204 , HOH A:205 , HOH A:206	BINDING SITE FOR RESIDUE MG A 104
4	AC4	SOFTWARE	G A:58	BINDING SITE FOR RESIDUE MG A 105
5	AC5	SOFTWARE	G A:11	BINDING SITE FOR RESIDUE MG A 107
6	AC6	SOFTWARE	A A:59	BINDING SITE FOR RESIDUE MG A 108
7	AC7	SOFTWARE	G A:66 , G A:67	BINDING SITE FOR RESIDUE MG A 109

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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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Chain A from PDB  Type:RNA  Length:68
                                                                                                   
                  4pqv A  1 GGGUCAGAUCGGCGAAAGUCGCCACUUCGCCGAGGAGUGCAAUCUGUGAGGCCCCAGGAGGACUGGGU 68
                                    10        20        30        40        50        60

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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)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (0, 0)

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Description