1JD1 | pdb_00001jd1

Crystal Structure of YEO7_yeast

PDB DOI: https://doi.org/10.2210/pdb1JD1/pdb

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

Deposited: 2001-06-12 Released: 2001-07-04
Deposition Author(s): Deaconescu, A.M., Burley, S.K., New York SGX Research Center for Structural Genomics (NYSGXRC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free:
0.238 (Depositor)
R-Value Work:
0.207 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 1JD1

This is version 1.4 of the entry. See complete history.

Literature

X-ray structure of Saccharomyces cerevisiae homologous mitochondrial matrix factor 1 (Hmf1).

Deaconescu, A.M., Roll-Mecak, A., Bonanno, J.B., Gerchman, S.E., Kycia, H., Studier, F.W., Burley, S.K.

(2002) Proteins 48: 431-436

PubMed: 12112709 Search on PubMed
DOI: https://doi.org/10.1002/prot.10151
Primary Citation Related Structures:
1JD1

Organizational Affiliation

Laboratories of Molecular Biophysics, The Rockefeller University, New York, New York, USA.

Macromolecule Content

Total Structure Weight: 83.51 kDa
Atom Count: 6,117
Modeled Residue Count: 749
Deposited Residue Count: 774
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HYPOTHETICAL 13.9 KDA PROTEIN IN FCY2-PET117 INTERGENIC REGION	A, B, C, D, E A, B, C, D, E, F	129	Saccharomyces cerevisiae	Mutation(s): 0 Gene Names: YERO57C
UniProt
Find proteins for P40037 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P40037 Go to UniProtKB: P40037
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P40037
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free: 0.238 (Depositor)
R-Value Work: 0.207 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 78.18	α = 90
b = 64.1	β = 90.63
c = 80.85	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
MLPHARE	phasing
CNS	refinement

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2001-07-04

Deposition Author(s):

Deaconescu, A.M.

New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History (Full details and data files)

Version 1.0: 2001-07-04
Type: Initial release
Version 1.1: 2008-04-27
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2021-02-03
Changes: Database references, Structure summary
Version 1.4: 2024-02-07
Changes: Data collection, Database references

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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.