5MR1 | pdb_00005mr1

Crystal structure of the Pleckstrin homology domain of Interactor protein for cytohesin exchange factors 1 (IPCEF1)

PDB DOI: https://doi.org/10.2210/pdb5MR1/pdb

Classification: SIGNALING PROTEIN
Organism(s): Homo sapiens
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2016-12-21 Released: 2017-01-11
Deposition Author(s): Newman, J.A., Aitkenhead, H., Wang, D., Burgess-Brown, N., Williams, E., von Delft, F., Arrowsmith, C.H., Edwards, A., Bountra, C., Gileadi, O.
Funding Organization(s): Wellcome Trust

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.20 Å
R-Value Free:
0.188 (Depositor), 0.188 (DCC)
R-Value Work:
0.167 (Depositor), 0.169 (DCC)
R-Value Observed:
0.168 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 5MR1

This is version 1.5 of the entry. See complete history.

Literature

Crystal structure of the Pleckstrin homology domain of Interactor protein for cytohesin exchange factors 1 (IPCEF1)

Newman, J.A., Aitkenhead, H., Wang, D., Burgess-Brown, N., Williams, E., von Delft, F., Arrowsmith, C.H., Edwards, A., Bountra, C., Gileadi, O.

To be published.

Macromolecule Content

Total Structure Weight: 12.06 kDa
Atom Count: 989
Modeled Residue Count: 101
Deposited Residue Count: 103
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Interactor protein for cytohesin exchange factors 1	A	103	Homo sapiens	Mutation(s): 0 Gene Names: IPCEF1, KIAA0403
UniProt & NIH Common Fund Data Resources
Find proteins for Q8WWN9 (Homo sapiens) Explore Q8WWN9 Go to UniProtKB: Q8WWN9
PHAROS: Q8WWN9 GTEx: ENSG00000074706
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q8WWN9
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.20 Å
R-Value Free: 0.188 (Depositor), 0.188 (DCC)
R-Value Work: 0.167 (Depositor), 0.169 (DCC)
R-Value Observed: 0.168 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 43.974	α = 90
b = 49.612	β = 90
c = 53.027	γ = 90

Software Package:

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

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2017-01-11

Deposition Author(s):

Burgess-Brown, N.

Arrowsmith, C.H.

Funding Organization	Location	Grant Number
Wellcome Trust	United Kingdom	--

Revision History (Full details and data files)

Version 1.0: 2017-01-11
Type: Initial release
Version 1.1: 2017-08-23
Changes: Author supporting evidence
Version 1.2: 2017-12-13
Changes: Database references, Structure summary
Version 1.3: 2018-01-24
Changes: Source and taxonomy
Version 1.4: 2020-11-18
Changes: Structure summary
Version 1.5: 2024-01-17
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.