5J4O | pdb_00005j4o

Structure of human erythrocytic Spectrin alpha chain repeats 16-17

PDB DOI: https://doi.org/10.2210/pdb5J4O/pdb

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

Deposited: 2016-04-01 Released: 2017-04-12
Deposition Author(s): Cutts, E.E., Vakonakis, I.
Funding Organization(s): Wellcome Trust

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.54 Å
R-Value Free:
0.229 (Depositor), 0.232 (DCC)
R-Value Work:
0.209 (Depositor), 0.207 (DCC)
R-Value Observed:
0.210 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 5J4O

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

Literature

Interactions of Plasmodium falciparum KAHRP and PfEMP1 with the host cytoskeleton suggest a model for cytoadherent protrusions on the infected erythrocyte surface

Cutts, E.E., Laasch, N., Reiter, D.M., Trenker, R., Slater, L.M., Stansfeld, P.J., Vakonakis, I.

To be published.

Macromolecule Content

Total Structure Weight: 27.39 kDa
Atom Count: 2,165
Modeled Residue Count: 222
Deposited Residue Count: 231
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Spectrin alpha chain, erythrocytic 1	A	231	Homo sapiens	Mutation(s): 0 Gene Names: SPTA1, SPTA
UniProt & NIH Common Fund Data Resources
Find proteins for P02549 (Homo sapiens) Explore P02549 Go to UniProtKB: P02549
PHAROS: P02549 GTEx: ENSG00000163554
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P02549
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PG4 Query on PG4 Download:Ideal Coordinates CCD File SDF format, chain F [auth A] SDF format, chain G [auth A] MOL2 format, chain F [auth A] MOL2 format, chain G [auth A] mmCIF format, chain F [auth A] mmCIF format, chain G [auth A]	F [auth A], G [auth A]	TETRAETHYLENE GLYCOL C₈ H₁₈ O₅ UWHCKJMYHZGTIT-UHFFFAOYSA-N		Interactions Focus chain F [auth A] Focus chain G [auth A] Interactions & Density Focus chain F [auth A] Focus chain G [auth A]
EDO Query on EDO Download:Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain D [auth A] SDF format, chain E [auth A] SDF format, chain B [auth A] MOL2 format, chain C [auth A] MOL2 format, chain D [auth A] MOL2 format, chain E [auth A] MOL2 format, chain B [auth A] mmCIF format, chain C [auth A] mmCIF format, chain D [auth A] mmCIF format, chain E [auth A] mmCIF format, chain B [auth A]	B [auth A], C [auth A], D [auth A], E [auth A]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Focus chain C [auth A] Focus chain D [auth A] Focus chain E [auth A] Interactions & Density Focus chain B [auth A] Focus chain C [auth A] Focus chain D [auth A] Focus chain E [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.54 Å
R-Value Free: 0.229 (Depositor), 0.232 (DCC)
R-Value Work: 0.209 (Depositor), 0.207 (DCC)
R-Value Observed: 0.210 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 37.64	α = 90
b = 43.67	β = 90
c = 154.28	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
xia2	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2017-04-12

Deposition Author(s):

Funding Organization	Location	Grant Number
Wellcome Trust	United Kingdom	088497/Z/09/Z

Revision History (Full details and data files)

Version 1.0: 2017-04-12
Type: Initial release
Version 1.1: 2024-01-10
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.