4I1T | pdb_00004i1t

Crystal structure of the cap-snatching endonuclease from Pichinde virus

PDB DOI: https://doi.org/10.2210/pdb4I1T/pdb

Classification: VIRAL PROTEIN
Organism(s): Mammarenavirus caliense
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2012-11-21 Released: 2014-02-26
Deposition Author(s): Bussetta, C., Choi, K.H.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.80 Å
R-Value Free:
0.294 (Depositor), 0.291 (DCC)
R-Value Work:
0.236 (Depositor), 0.235 (DCC)
R-Value Observed:
0.239 (Depositor)

Starting Model: experimental
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This is version 1.2 of the entry. See complete history.

Literature

Crystal structure of the cap-snatching endonuclease from Pichinde virus, a new world arenavirus

Bussetta, C., Ye, M., Shrestha, L., Bujalowski, P.J., White, M.A., Choi, K.H.

To be published.

Macromolecule Content

Total Structure Weight: 25.14 kDa
Atom Count: 1,386
Modeled Residue Count: 169
Deposited Residue Count: 215
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RNA-directed RNA polymerase L	A	215	Mammarenavirus caliense	Mutation(s): 0 Gene Names: L EC: 2.7.7.48
UniProt
Find proteins for Q915A5 (Pichinde mammarenavirus) Explore Q915A5 Go to UniProtKB: Q915A5
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q915A5
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.80 Å
R-Value Free: 0.294 (Depositor), 0.291 (DCC)
R-Value Work: 0.236 (Depositor), 0.235 (DCC)
R-Value Observed: 0.239 (Depositor)

Space Group: P 6₄ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 142.962	α = 90
b = 142.962	β = 90
c = 46.835	γ = 120

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction
HKL-2000	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2014-02-26

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2014-02-26
Type: Initial release
Version 1.1: 2017-11-15
Changes: Refinement description
Version 1.2: 2023-09-20
Changes: Data collection, Database references, Refinement description

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.