4EF0 | pdb_00004ef0

Crystal Structure of the first catalytic domain of protein disulfide isomerase P5

PDB DOI: https://doi.org/10.2210/pdb4EF0/pdb

Classification: ISOMERASE
Organism(s): Homo sapiens
Expression System: Escherichia coli BL21
Mutation(s): No

Deposited: 2012-03-28 Released: 2013-04-03
Deposition Author(s): Vinaik, R., Kozlov, G., Gehring, K.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.50 Å
R-Value Free:
0.193 (Depositor), 0.195 (DCC)
R-Value Work:
0.176 (Depositor), 0.176 (DCC)
R-Value Observed:
0.177 (Depositor)

Starting Model: experimental
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This is version 1.1 of the entry. See complete history.

Literature

Crystal Structure of the first catalytic domain of protein disulfide isomerase P5

Vinaik, R., Kozlov, G., Gehring, K.

To be published.

Macromolecule Content

Total Structure Weight: 27.6 kDa
Atom Count: 2,181
Modeled Residue Count: 230
Deposited Residue Count: 246
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein disulfide-isomerase A6	A, B	123	Homo sapiens	Mutation(s): 0 Gene Names: PDIA6, ERP5, P5, TXNDC7 EC: 5.3.4.1
UniProt & NIH Common Fund Data Resources
Find proteins for Q15084 (Homo sapiens) Explore Q15084 Go to UniProtKB: Q15084
PHAROS: Q15084 GTEx: ENSG00000143870
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q15084
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.50 Å
R-Value Free: 0.193 (Depositor), 0.195 (DCC)
R-Value Work: 0.176 (Depositor), 0.176 (DCC)
R-Value Observed: 0.177 (Depositor)

Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 129.852	α = 90
b = 129.852	β = 90
c = 45.226	γ = 120

Software Package:

Software Name	Purpose
ADSC	data collection
PHASER	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2013-04-03

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2013-04-03
Type: Initial release
Version 1.1: 2023-09-13
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.