2FKP | pdb_00002fkp

The mutant G127C-T313C of Deinococcus Radiodurans N-acylamino acid racemase

PDB DOI: https://doi.org/10.2210/pdb2FKP/pdb
Entry: 2FKP supersedes: 2BAH

Classification: ISOMERASE
Organism(s): Deinococcus radiodurans
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2006-01-05 Released: 2006-01-24
Deposition Author(s): Wang, W.C., Chiu, W.C.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free:
0.227 (Depositor), 0.182 (DCC)
R-Value Work:
0.182 (Depositor), 0.186 (DCC)
R-Value Observed:
0.184 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 2FKP

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

Literature

Enhanced thermoactivity in covalently cross-linked N-carbamoyl D-amino acid amidohydrolase but not in N-acylamino acid racemase that has induced fit movements upon substrate binding

Wang, W.C., Chiu, W.C.

To be published.

Macromolecule Content

Total Structure Weight: 164.44 kDa
Atom Count: 11,959
Modeled Residue Count: 1,440
Deposited Residue Count: 1,500
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
N-acylamino acid racemase	A, B, C, D	375	Deinococcus radiodurans	Mutation(s): 2 EC: 5.1.1.10 (PDB Primary Data), 5.1.1 (UniProt), 4.2.1.113 (UniProt)
UniProt
Find proteins for Q9RYA6 (Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / CCUG 27074 / LMG 4051 / NBRC 15346 / NCIMB 9279 / VKM B-1422 / R1)) Explore Q9RYA6 Go to UniProtKB: Q9RYA6
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9RYA6
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.227 (Depositor), 0.182 (DCC)
R-Value Work: 0.182 (Depositor), 0.186 (DCC)
R-Value Observed: 0.184 (Depositor)

Space Group: P 4

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 116.129	α = 90
b = 116.129	β = 90
c = 120.536	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2006-01-24

Deposition Author(s):

This entry supersedes: 2BAH

Revision History (Full details and data files)

Version 1.0: 2006-01-24
Type: Initial release
Version 1.1: 2008-05-01
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2021-11-10
Changes: Database references
Version 1.4: 2023-10-25
Changes: Data collection, Refinement description

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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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.