3MA8 | pdb_00003ma8

Crystal structure of CGD1_2040, a pyruvate kinase from cryptosporidium Parvum

PDB DOI: https://doi.org/10.2210/pdb3MA8/pdb

Classification: TRANSFERASE
Organism(s): Cryptosporidium parvum Iowa II
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2010-03-23 Released: 2010-07-21
Deposition Author(s): Wernimont, A.K., Hutchinson, A., Hassanali, A., Kozieradzki, I., Cossar, D., Bochkarev, A., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Weigelt, J., Hui, R., Hills, T., Pizarro, J.C., Structural Genomics Consortium (SGC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.64 Å
R-Value Free:
0.272 (Depositor), 0.264 (DCC)
R-Value Work:
0.241 (Depositor), 0.235 (DCC)
R-Value Observed:
0.242 (Depositor)

wwPDB Validation 3D Report Full Report

This is version 1.3 of the entry. See complete history.

Literature

Crystal structure of CGD1_2040, a pyruvate kinase from cryptosporidium Parvum

Wernimont, A.K., Hutchinson, A., Hassanali, A., Kozieradzki, I., Cossar, D., Bochkarev, A., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Weigelt, J., Hui, R., Hills, T., Pizarro, J.C.

To be published.

Macromolecule Content

Total Structure Weight: 115.53 kDa
Atom Count: 7,305
Modeled Residue Count: 985
Deposited Residue Count: 1,068
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Pyruvate kinase	A, B	534	Cryptosporidium parvum Iowa II	Mutation(s): 0 Gene Names: cgd1_2040 EC: 2.7.1.40
UniProt
Find proteins for Q5CSM7 (Cryptosporidium parvum (strain Iowa II)) Explore Q5CSM7 Go to UniProtKB: Q5CSM7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q5CSM7
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CIT Query on CIT Download:Ideal Coordinates CCD File SDF format, chain E [auth B] SDF format, chain C [auth A] MOL2 format, chain E [auth B] MOL2 format, chain C [auth A] mmCIF format, chain E [auth B] mmCIF format, chain C [auth A]	C [auth A], E [auth B]	CITRIC ACID C₆ H₈ O₇ KRKNYBCHXYNGOX-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain E [auth B] Interactions & Density Focus chain C [auth A] Focus chain E [auth B]
SO4 Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain F [auth B] SDF format, chain D [auth A] MOL2 format, chain F [auth B] MOL2 format, chain D [auth A] mmCIF format, chain F [auth B] mmCIF format, chain D [auth A]	D [auth A], F [auth B]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain D [auth A] Focus chain F [auth B] Interactions & Density Focus chain D [auth A] Focus chain F [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.64 Å
R-Value Free: 0.272 (Depositor), 0.264 (DCC)
R-Value Work: 0.241 (Depositor), 0.235 (DCC)
R-Value Observed: 0.242 (Depositor)

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 119.345	α = 90
b = 97.142	β = 90
c = 109.31	γ = 90

Software Package:

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

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2010-07-21

Deposition Author(s):

Structural Genomics Consortium (SGC)

Revision History (Full details and data files)

Version 1.0: 2010-07-21
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2017-11-08
Changes: Refinement description
Version 1.3: 2024-02-21
Changes: Data collection, Database references, Derived calculations, Refinement description