9BKC | pdb_00009bkc

Crystal structure of Rid family protein PFL1385 from Pseudomonas fluorescens

PDB DOI: https://doi.org/10.2210/pdb9BKC/pdb

Classification: HYDROLASE
Organism(s): Pseudomonas fluorescens
Expression System: Escherichia coli BL21
Mutation(s): No

Deposited: 2024-04-27 Released: 2024-09-04
Deposition Author(s): Zhou, D., Chen, L., Rose, J.P., Wang, B.C.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.49 Å
R-Value Free:
0.239 (Depositor), 0.250 (DCC)
R-Value Work:
0.197 (Depositor)
R-Value Observed:
0.200 (Depositor)

Starting Model: in silico
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 9BKC

This is version 1.0 of the entry. See complete history.

Literature

Crystal structure of Rid family protein PFL1385 from Pseudomonas fluorescens

Zhou, D., Chen, L., Rose, J.P., Wang, B.C.

To be published.

Macromolecule Content

Total Structure Weight: 104.7 kDa
Atom Count: 5,803
Modeled Residue Count: 761
Deposited Residue Count: 990
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Rid family protein PFL1385	A, B, C, D, E A, B, C, D, E, F	165	Pseudomonas fluorescens	Mutation(s): 0 Gene Names: PFL_1385
UniProt
Find proteins for Q4KGW9 (Pseudomonas fluorescens (strain ATCC BAA-477 / NRRL B-23932 / Pf-5)) Explore Q4KGW9 Go to UniProtKB: Q4KGW9
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q4KGW9
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.49 Å
R-Value Free: 0.239 (Depositor), 0.250 (DCC)
R-Value Work: 0.197 (Depositor)
R-Value Observed: 0.200 (Depositor)

Space Group: P 4₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.01	α = 90
b = 84.01	β = 90
c = 123.78	γ = 90

Software Package:

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

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2024-09-04

Deposition Author(s):

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2024-09-04
Type: Initial release

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

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.