5ZKT | pdb_00005zkt

Crystal structure of TCP domain of PCF6 in Oryza sativa

PDB DOI: https://doi.org/10.2210/pdb5ZKT/pdb

Classification: TRANSCRIPTION
Organism(s): Oryza sativa Japonica Group
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2018-03-26 Released: 2019-03-27
Deposition Author(s): Sun, L.F., Zou, X.M., Wu, Y.K.
Funding Organization(s): National Science Foundation (China)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.74 Å
R-Value Free:
0.220 (Depositor), 0.220 (DCC)
R-Value Work:
0.208 (Depositor), 0.210 (DCC)
R-Value Observed:
0.209 (Depositor)

wwPDB Validation 3D Report Full Report

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

Literature

Crystal structure of TCP domain of PCF6 in Oryza sativa

Sun, L.F., Zou, X.M.

To be published.

Macromolecule Content

Total Structure Weight: 12.44 kDa
Atom Count: 955
Modeled Residue Count: 109
Deposited Residue Count: 110
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative transcription factor PCF6	A, B	55	Oryza sativa Japonica Group	Mutation(s): 0 Gene Names: B1364A02.22, OJ1048_C10.23
UniProt
Find proteins for Q0D8K4 (Oryza sativa subsp. japonica) Explore Q0D8K4 Go to UniProtKB: Q0D8K4
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q0D8K4
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.74 Å
R-Value Free: 0.220 (Depositor), 0.220 (DCC)
R-Value Work: 0.208 (Depositor), 0.210 (DCC)
R-Value Observed: 0.209 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 42.28	α = 90
b = 43.71	β = 90
c = 72.37	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
PDB_EXTRACT	data extraction
PHENIX	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2019-03-27

Deposition Author(s):

Funding Organization	Location	Grant Number
National Science Foundation (China)	China	31470741

Revision History (Full details and data files)

Version 1.0: 2019-03-27
Type: Initial release
Version 1.1: 2024-03-27
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.