3DOB | pdb_00003dob

Peptide-binding domain of Heat shock 70 kDa protein F44E5.5 from C.elegans.

PDB DOI: https://doi.org/10.2210/pdb3DOB/pdb

Classification: PROTEIN BINDING
Organism(s): Caenorhabditis elegans
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2008-07-03 Released: 2008-07-22
Deposition Author(s): Osipiuk, J., Hatzos, C., Gu, M., Zhang, R., Voisine, C., Morimoto, R.I., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.39 Å
R-Value Free:
0.224 (Depositor), 0.224 (DCC)
R-Value Work:
0.184 (Depositor), 0.183 (DCC)
R-Value Observed:
0.188 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

X-ray crystal structure of Peptide-binding domain of Heat shock 70 kDa protein F44E5.5 from C.elegans.

OSIPIUK, J., HATZOS, C., GU, M., ZHANG, R., VOISINE, C., MORIMOTO, R.I., JOACHIMIAK, A.

To be published.

Macromolecule Content

Total Structure Weight: 33.79 kDa
Atom Count: 2,393
Modeled Residue Count: 293
Deposited Residue Count: 304
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Heat shock 70 kDa protein F44E5.5	A, B	152	Caenorhabditis elegans	Mutation(s): 1 Gene Names: F44E5.4, F44E5.5
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
BME Query on BME Download:Ideal Coordinates CCD File SDF format, chain D [auth B] SDF format, chain C [auth A] MOL2 format, chain D [auth B] MOL2 format, chain C [auth A] mmCIF format, chain D [auth B] mmCIF format, chain C [auth A]	C [auth A], D [auth B]	BETA-MERCAPTOETHANOL C₂ H₆ O S DGVVWUTYPXICAM-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain D [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.39 Å
R-Value Free: 0.224 (Depositor), 0.224 (DCC)
R-Value Work: 0.184 (Depositor), 0.183 (DCC)
R-Value Observed: 0.188 (Depositor)

Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 102.009	α = 90
b = 102.009	β = 90
c = 80.678	γ = 120

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
SBC-Collect	data collection
HKL-2000	data reduction
MOLREP	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2008-07-22

Deposition Author(s):

Midwest Center for Structural Genomics (MCSG)

Revision History (Full details and data files)

Version 1.0: 2008-07-22
Type: Initial release
Version 1.1: 2011-07-13
Changes: Advisory, Version format compliance
Version 1.2: 2017-10-25
Changes: Refinement description
Version 1.3: 2021-10-20
Changes: Database references, Derived calculations
Version 1.4: 2023-08-30
Changes: Data collection, 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.