3C1R

Crystal structure of oxidized GRX1

PDB DOI: https://doi.org/10.2210/pdb3C1R/pdb

Classification: OXIDOREDUCTASE
Organism(s): Saccharomyces cerevisiae
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2008-01-24 Released: 2008-12-09
Deposition Author(s): Yu, J., Zhou, C.Z.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free:
0.205 (Depositor), 0.240 (DCC)
R-Value Work:
0.193 (Depositor), 0.190 (DCC)
R-Value Observed:
0.193 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

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

Literature

Glutathionylation-triggered conformational changes of glutaredoxin Grx1 from the yeast Saccharomyces cerevisiae.

Yu, J., Zhang, N.N., Yin, P.D., Cui, P.X., Zhou, C.Z.

(2008) Proteins 72: 1077-1083

PubMed: 18473363 Search on PubMed
DOI: https://doi.org/10.1002/prot.22096
Primary Citation of Related Structures:
3C1R, 3C1S

Organizational Affiliation

Hefei National Laboratory for Physical Sciences at Microscale and School of Life Sciences, University of Science and Technology of China, Hefei Anhui 230027, People's Republic of China.

Macromolecule Content

Total Structure Weight: 13.61 kDa
Atom Count: 999
Modelled Residue Count: 110
Deposited Residue Count: 118
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glutaredoxin-1	A	118	Saccharomyces cerevisiae	Mutation(s): 0 Gene Names: GRX1 EC: 1.20.4.1 (PDB Primary Data), 2.5.1.18 (UniProt), 1.11.1.9 (UniProt)
UniProt
Find proteins for P25373 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P25373 Go to UniProtKB: P25373
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P25373
Sequence Annotations Expand
Reference Sequence LOADING

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MES Query on MES 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]	2-(N-MORPHOLINO)-ETHANESULFONIC ACID C₆ H₁₃ N O₄ S SXGZJKUKBWWHRA-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.205 (Depositor), 0.240 (DCC)
R-Value Work: 0.193 (Depositor), 0.190 (DCC)
R-Value Observed: 0.193 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 28.21	α = 90
b = 49.631	β = 94.95
c = 39.701	γ = 90

Software Package:

Software Name	Purpose
MOLREP	phasing
CNS	refinement
MAR345dtb	data collection
AUTOMAR	data reduction

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2008-12-09

Deposition Author(s):

Yu, J.

Zhou, C.Z.

Revision History (Full details and data files)

Version 1.0: 2008-12-09
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2023-11-01
Changes: Data collection, Database references, Derived calculations, Refinement description
Version 1.3: 2024-10-16
Changes: Structure summary