5ZCJ | pdb_00005zcj

Crystal structure of complex

PDB DOI: https://doi.org/10.2210/pdb5ZCJ/pdb

Classification: PROTEIN BINDING
Organism(s): Homo sapiens
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2018-02-17 Released: 2018-06-27
Deposition Author(s): Wang, J., Yuan, Z., Cui, Y., Xie, R., Wang, M., Ma, Y., Yu, X., Liu, X.
Funding Organization(s): National Natural Science Foundation of China

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free:
0.219 (Depositor), 0.220 (DCC)
R-Value Work:
0.190 (Depositor), 0.190 (DCC)
R-Value Observed:
0.191 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 5ZCJ

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

Literature

Crystal structure of complex

Wang, J., Yuan, Z., Cui, Y., Xie, R., Wang, M., Ma, Y., Yu, X., Liu, X.

To be published.

Macromolecule Content

Total Structure Weight: 66.16 kDa
Atom Count: 4,523
Modeled Residue Count: 522
Deposited Residue Count: 600
Unique protein chains: 2

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tudor-interacting repair regulator protein	A, B	210	Homo sapiens	Mutation(s): 0 Gene Names: NUDT16L1, SDOS, TIRR
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BRJ7 (Homo sapiens) Explore Q9BRJ7 Go to UniProtKB: Q9BRJ7
GTEx: ENSG00000168101
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9BRJ7
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
TP53-binding protein 1	C	180	Homo sapiens	Mutation(s): 0 Gene Names: TP53BP1
UniProt & NIH Common Fund Data Resources
Find proteins for Q12888 (Homo sapiens) Explore Q12888 Go to UniProtKB: Q12888
PHAROS: Q12888 GTEx: ENSG00000067369
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q12888
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.219 (Depositor), 0.220 (DCC)
R-Value Work: 0.190 (Depositor), 0.190 (DCC)
R-Value Observed: 0.191 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 111.144	α = 90
b = 103.922	β = 95.46
c = 61.47	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
PHASER	phasing

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2018-06-27

Deposition Author(s):

Funding Organization	Location	Grant Number
National Natural Science Foundation of China	China	81672794

Revision History (Full details and data files)

Version 1.0: 2018-06-27
Type: Initial release
Version 1.1: 2024-03-27
Changes: Data collection, Database references

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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.