5HCW | pdb_00005hcw

Crystal structure of C-As lyase with mutations Y100H and V102F (monoclinic form)

PDB DOI: https://doi.org/10.2210/pdb5HCW/pdb

Classification: LYASE
Organism(s): Thermomonospora curvata DSM 43183
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2016-01-04 Released: 2017-01-18
Deposition Author(s): Venkadesh, S., Yoshinaga, M., Kandavelu, P., Sankaran, B., Rosen, B.P.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.79 Å
R-Value Free:
0.282 (Depositor), 0.280 (DCC)
R-Value Work:
0.194 (Depositor), 0.190 (DCC)
R-Value Observed:
0.199 (Depositor)

wwPDB Validation 3D Report Full Report

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

Literature

Crystal structure of C-As lyase with mutations Y100H and V102F (monoclinic form)

Venkadesh, S., Yoshinaga, M., Kandavelu, P., Sankaran, B., Rosen, B.P.

To be published.

Macromolecule Content

Total Structure Weight: 53.9 kDa
Atom Count: 3,318
Modelled Residue Count: 456
Deposited Residue Count: 504
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glyoxalase/bleomycin resistance protein/dioxygenase	A, B, C, D	126	Thermomonospora curvata DSM 43183	Mutation(s): 2 Gene Names: Tcur_4156
UniProt
Find proteins for D1A230 (Thermomonospora curvata (strain ATCC 19995 / DSM 43183 / JCM 3096 / KCTC 9072 / NBRC 15933 / NCIMB 10081 / Henssen B9)) Explore D1A230 Go to UniProtKB: D1A230
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	D1A230
Sequence Annotations Expand
Reference Sequence LOADING

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.79 Å
R-Value Free: 0.282 (Depositor), 0.280 (DCC)
R-Value Work: 0.194 (Depositor), 0.190 (DCC)
R-Value Observed: 0.199 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 42.925	α = 90
b = 79.683	β = 101.07
c = 70.862	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
AutoSol	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2017-01-18

Deposition Author(s):

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R37 GM55425

Revision History (Full details and data files)

Version 1.0: 2017-01-18
Type: Initial release
Version 1.1: 2017-09-27
Changes: Author supporting evidence
Version 1.2: 2019-12-25
Changes: Author supporting evidence
Version 1.3: 2024-03-06
Changes: Data collection, Database references

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.