8YA8 | pdb_00008ya8

The crystal structure of human Rtel1 HHD2 domain

PDB DOI: https://doi.org/10.2210/pdb8YA8/pdb

Classification: HYDROLASE
Organism(s): Homo sapiens
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2024-02-08 Released: 2024-02-28
Deposition Author(s): Chun, I.S., Kim, M.S.
Funding Organization(s): National Research Foundation (NRF, Korea)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.85 Å
R-Value Free:
0.268 (Depositor), 0.270 (DCC)
R-Value Work:
0.239 (Depositor), 0.240 (DCC)
R-Value Observed:
0.241 (Depositor)

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

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

Literature

Crystal structure of the HHD2 domain in human RTEL1

Chun, I., Jung, E., Kim, W.J., Kim, M.S.

(2024) Korean Soc Struct Biology 12: 3-7

DOI: https://doi.org/10.34184/kssb.2024.12.1.3

Macromolecule Content

Total Structure Weight: 68.16 kDa
Atom Count: 4,365
Modelled Residue Count: 561
Deposited Residue Count: 630
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Regulator of telomere elongation helicase 1	A, B, C, D, E A, B, C, D, E, F, G	90	Homo sapiens	Mutation(s): 0 Gene Names: RTEL1, C20orf41, KIAA1088, NHL EC: 3.6.4.12 (PDB Primary Data), 5.6.2 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for Q9NZ71 (Homo sapiens) Explore Q9NZ71 Go to UniProtKB: Q9NZ71
PHAROS: Q9NZ71 GTEx: ENSG00000258366
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q9NZ71
Sequence Annotations Expand
Reference Sequence LOADING

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.85 Å
R-Value Free: 0.268 (Depositor), 0.270 (DCC)
R-Value Work: 0.239 (Depositor), 0.240 (DCC)
R-Value Observed: 0.241 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 66.052	α = 90
b = 61.958	β = 95.14
c = 79.953	γ = 90

Software Package:

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

Structure Validation

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Entry History & Funding Information

Deposition Data

Released Date: 2024-02-28

Deposition Author(s):

Funding Organization	Location	Grant Number
National Research Foundation (NRF, Korea)	Korea, Republic Of	--

Revision History (Full details and data files)

Version 1.0: 2024-02-28
Type: Initial release
Version 1.1: 2024-09-11
Changes: 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.