3OQ0 | pdb_00003oq0

Crystal Structure of motif N of Saccharomyces cerevisiae Dbf4

PDB DOI: https://doi.org/10.2210/pdb3OQ0/pdb

Classification: CELL CYCLE
Organism(s): Saccharomyces cerevisiae
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2010-09-02 Released: 2011-09-07
Deposition Author(s): Matthews, L.A., Jones, D.R., Prasad, A.A., Duncker, B.P., Guarne, A.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.70 Å
R-Value Free:
0.244 (Depositor)
R-Value Work:
0.205 (Depositor)
R-Value Observed:
0.207 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 3OQ0

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

Literature

Crystal Structure of Saccharomyces cerevisiae Dbf4-motif N

Matthews, L.A., Jones, D.R., Prasad, A.A., Duncker, B.P., Guarne, A.

To be published.

Macromolecule Content

Total Structure Weight: 177.46 kDa
Atom Count: 8,369
Modeled Residue Count: 984
Deposited Residue Count: 1,510
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DBF4	A, B, C, D, E A, B, C, D, E, F, G, H, I, J	151	Saccharomyces cerevisiae	Mutation(s): 0 Gene Names: D4205, DBF4, DNA52, YD9609.07C, YDR052C
UniProt
Find proteins for P32325 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P32325 Go to UniProtKB: P32325
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P32325
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE Query on MSE	A, B, C, D, E A, B, C, D, E, F, G, H, I, J	L-PEPTIDE LINKING	C₅ H₁₁ N O₂ Se		MET

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.70 Å
R-Value Free: 0.244 (Depositor)
R-Value Work: 0.205 (Depositor)
R-Value Observed: 0.207 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 90.221	α = 90
b = 79.358	β = 110.74
c = 127.419	γ = 90

Software Package:

Software Name	Purpose
CBASS	data collection
PHENIX	model building
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	phasing

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2011-09-07

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2011-09-07
Type: Initial release
Version 1.1: 2024-11-06
Changes: Data collection, Database references, Derived calculations, Structure summary

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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.