4ILH | pdb_00004ilh

Crystal structure of an Aar2p C-terminal deletion mutant in conplex with Prp8p RNaseH

PDB DOI: https://doi.org/10.2210/pdb4ILH/pdb

Classification: SPLICING
Organism(s): Saccharomyces cerevisiae S288C
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2012-12-31 Released: 2013-03-27
Deposition Author(s): Weber, G., Heroven, A.C., Santos, K.F., Wahl, M.C.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.85 Å
R-Value Free:
0.217 (Depositor), 0.216 (DCC)
R-Value Work:
0.168 (Depositor), 0.168 (DCC)
R-Value Observed:
0.170 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 4ILH

This is version 1.1 of the entry. See complete history.

Literature

Structural basis for the Aar2p-mediated regulation of Prp8p interactions with Brr2p and U4/U6 di-snRNA

Weber, G., Cristao, V., Santos, K.F., Mozzafari Jovin, S., Heroven, A.C., Luehrmann, R., Beggs, J.D., Wahl, M.C.

To be published.

Macromolecule Content

Total Structure Weight: 69.46 kDa
Atom Count: 5,142
Modeled Residue Count: 550
Deposited Residue Count: 597
Unique protein chains: 2

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Pre-mRNA-splicing factor 8	A	258	Saccharomyces cerevisiae S288C	Mutation(s): 0 Gene Names: PRP8, DBF3, DNA39, RNA8, SLT21, USA2, YHR165C
UniProt
Find proteins for P33334 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P33334 Go to UniProtKB: P33334
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P33334
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
A1 cistron-splicing factor AAR2	B	339	Saccharomyces cerevisiae S288C	Mutation(s): 0 Gene Names: AAR2, YBL074C, YBL06.06, YBL0611
UniProt
Find proteins for P32357 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P32357 Go to UniProtKB: P32357
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P32357
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.85 Å
R-Value Free: 0.217 (Depositor), 0.216 (DCC)
R-Value Work: 0.168 (Depositor), 0.168 (DCC)
R-Value Observed: 0.170 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 79.89	α = 90
b = 76.76	β = 105.88
c = 91.86	γ = 90

Software Package:

Software Name	Purpose
MAR345dtb	data collection
PHASER	phasing
PHENIX	refinement
XDS	data reduction
XDS	data scaling

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2013-03-27

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2013-03-27
Type: Initial release
Version 1.1: 2023-09-20
Changes: Data collection, Database references, Refinement description

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

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.