2IYC | pdb_00002iyc

SENP1 native structure

PDB DOI: https://doi.org/10.2210/pdb2IYC/pdb

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

Deposited: 2006-07-14 Released: 2006-08-08
Deposition Author(s): Dong, C., Naismith, J.H.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.45 Å
R-Value Free:
0.267 (Depositor), 0.279 (DCC)
R-Value Work:
0.217 (Depositor), 0.231 (DCC)
R-Value Observed:
0.219 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 2IYC

This is version 1.2 of the entry. See complete history.

Literature

Senp1 Native Structure

Dong, C., Naismith, J.H.

To be published.

Macromolecule Content

Total Structure Weight: 53.86 kDa
Atom Count: 3,872
Modeled Residue Count: 452
Deposited Residue Count: 452
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
SENTRIN-SPECIFIC PROTEASE 1	A, B	226	Homo sapiens	Mutation(s): 0 EC: 3.4.22
UniProt & NIH Common Fund Data Resources
Find proteins for Q9P0U3 (Homo sapiens) Explore Q9P0U3 Go to UniProtKB: Q9P0U3
PHAROS: Q9P0U3 GTEx: ENSG00000079387
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9P0U3
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.45 Å
R-Value Free: 0.267 (Depositor), 0.279 (DCC)
R-Value Work: 0.217 (Depositor), 0.231 (DCC)
R-Value Observed: 0.219 (Depositor)

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 71.981	α = 90
b = 71.981	β = 90
c = 200.64	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling
AMoRE	phasing

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2006-08-08

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2006-08-08
Type: Initial release
Version 1.1: 2011-07-13
Changes: Advisory, Version format compliance
Version 1.2: 2024-05-08
Changes: Data collection, Database references, Other, Refinement description

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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.