5ZDI | pdb_00005zdi

Crystal structure of CsaA chaperone protein from picrophilus torridus

PDB DOI: https://doi.org/10.2210/pdb5ZDI/pdb

Classification: CHAPERONE
Organism(s): Picrophilus oshimae DSM 9789
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2018-02-23 Released: 2019-02-27
Deposition Author(s): Kumari, S., Sharma, A., Goel, M.
Funding Organization(s): Department of Biotechnology , Ministry of Science and Technology (New Delhi, India)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free:
0.224 (Depositor), 0.230 (DCC)
R-Value Work:
0.183 (Depositor), 0.200 (DCC)
R-Value Observed:
0.185 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Crystal structure of CsaA chaperone protein from picrophilus torridus

Sharma, A., Kumari, S., Verma, V., Goel, M.

To be published.

Macromolecule Content

Total Structure Weight: 23.71 kDa
Atom Count: 1,955
Modeled Residue Count: 214
Deposited Residue Count: 214
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein secretion chaperonin CsaA	A, B	107	Picrophilus oshimae DSM 9789	Mutation(s): 0 Gene Names: PTO0409
UniProt
Find proteins for Q6L208 (Picrophilus torridus (strain ATCC 700027 / DSM 9790 / JCM 10055 / NBRC 100828 / KAW 2/3)) Explore Q6L208 Go to UniProtKB: Q6L208
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q6L208
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A] mmCIF format, chain C [auth A]	C [auth A]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Interactions & Density Focus chain C [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free: 0.224 (Depositor), 0.230 (DCC)
R-Value Work: 0.183 (Depositor), 0.200 (DCC)
R-Value Observed: 0.185 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 47.009	α = 90
b = 65.334	β = 90
c = 75.588	γ = 90

Software Package:

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

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2019-02-27

Deposition Author(s):

Funding Organization	Location	Grant Number
Department of Biotechnology , Ministry of Science and Technology (New Delhi, India)	India	BT/Bio-CARe/01/9935/2013-14

Revision History (Full details and data files)

Version 1.0: 2019-02-27
Type: Initial release
Version 1.1: 2023-11-22
Changes: Data collection, Database references, Refinement description

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.