2Z13 | pdb_00002z13

Crystal structure of the N-terminal DUF1126 in human EF-hand domain

PDB DOI: https://doi.org/10.2210/pdb2Z13/pdb

Classification: Structural genomics, unknown function
Organism(s): Homo sapiens
Mutation(s): Yes

Deposited: 2007-05-07 Released: 2007-11-13
Deposition Author(s): Saito, K., Kishishita, S., Nishino, A., Murayama, K., Terada, T., Shirouzu, M., Kigawa, T., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.84 Å
R-Value Free:
0.227 (Depositor), 0.220 (DCC)
R-Value Work:
0.181 (Depositor), 0.180 (DCC)
R-Value Observed:
0.181 (Depositor)

wwPDB Validation 3D Report Full Report

This is version 1.3 of the entry. See complete history.

Literature

Crystal structure of the N-terminal DUF1126 in human EF-hand domain

Saito, K., Kishishita, S., Nishino, A., Murayama, K., Terada, T., Shirouzu, M., Kigawa, T., Yokoyama, S.

To be published.

Macromolecule Content

Total Structure Weight: 15.34 kDa
Atom Count: 1,164
Modelled Residue Count: 117
Deposited Residue Count: 133
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
EF-hand domain-containing family member C2	A	133	Homo sapiens	Mutation(s): 1 Gene Names: EFHC2
UniProt & NIH Common Fund Data Resources
Find proteins for Q5JST6 (Homo sapiens) Explore Q5JST6 Go to UniProtKB: Q5JST6
PHAROS: Q5JST6 GTEx: ENSG00000183690
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q5JST6
Sequence Annotations Expand
Reference Sequence LOADING

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.84 Å
R-Value Free: 0.227 (Depositor), 0.220 (DCC)
R-Value Work: 0.181 (Depositor), 0.180 (DCC)
R-Value Observed: 0.181 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 95.46	α = 90
b = 35.28	β = 112.64
c = 39.15	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
HKL-2000	data reduction
HKL-2000	data scaling
SOLVE	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2007-11-13

Deposition Author(s):

RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History (Full details and data files)

Version 1.0: 2007-11-13
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2021-11-10
Changes: Database references
Version 1.3: 2024-05-29
Changes: Data collection

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.