2Q0V | pdb_00002q0v

Crystal structure of ubiquitin conjugating enzyme E2, putative, from Plasmodium falciparum

PDB DOI: https://doi.org/10.2210/pdb2Q0V/pdb

Classification: LIGASE
Organism(s): Plasmodium falciparum 3D7
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2007-05-22 Released: 2007-06-26
Deposition Author(s): Wernimont, A.K., Lew, J., Hassanali, A., Lin, L., Kozieradzki, I., Edwards, A.M., Arrowsmith, C.H., Weigelt, J., Sundstrom, M., Bochkarev, A., Hui, R., Brokx, S., Structural Genomics Consortium (SGC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Free:
0.290 (Depositor), 0.288 (DCC)
R-Value Work:
0.224 (Depositor), 0.219 (DCC)
R-Value Observed:
0.227 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Crystal structure of ubiquitin conjugating enzyme E2, putative, from Plasmodium falciparum.

Wernimont, A.K., Lew, J., Hassanali, A., Lin, L., Kozieradzki, I., Edwards, A.M., Arrowsmith, C.H., Sundstrom, M., Weigelt, J., Bochkarev, A., Hui, R., Brokx, S.

To be published.

Macromolecule Content

Total Structure Weight: 18 kDa
Atom Count: 1,184
Modeled Residue Count: 140
Deposited Residue Count: 156
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ubiquitin-conjugating enzyme E2, putative	A	156	Plasmodium falciparum 3D7	Mutation(s): 0 Gene Names: MAL3P2.20, PFC0255c EC: 6.3.2.19
UniProt
Find proteins for O97241 (Plasmodium falciparum (isolate 3D7)) Explore O97241 Go to UniProtKB: O97241
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O97241
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PO4 Query on PO4 Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	PHOSPHATE ION O₄ P NBIIXXVUZAFLBC-UHFFFAOYSA-K		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Free: 0.290 (Depositor), 0.288 (DCC)
R-Value Work: 0.224 (Depositor), 0.219 (DCC)
R-Value Observed: 0.227 (Depositor)

Space Group: P 6₅ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 101.474	α = 90
b = 101.474	β = 90
c = 83.871	γ = 120

Software Package:

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

Structure Validation

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Entry History

Deposition Data

Released Date: 2007-06-26

Deposition Author(s):

Structural Genomics Consortium (SGC)

Revision History (Full details and data files)

Version 1.0: 2007-06-26
Type: Initial release
Version 1.1: 2008-05-01
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Source and taxonomy, Version format compliance
Version 1.3: 2017-10-18
Changes: Refinement description
Version 1.4: 2023-08-30
Changes: Data collection, Database references, Derived calculations, Refinement description