3R3I | pdb_00003r3i

Crystal Structure of C-terminal truncation of UDP-glucose Pyrophosphorylase of Homo sapiens

PDB DOI: https://doi.org/10.2210/pdb3R3I/pdb

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

Deposited: 2011-03-15 Released: 2012-03-21
Deposition Author(s): Zheng, X., Yu, Q.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.57 Å
R-Value Free:
0.286 (Depositor), 0.290 (DCC)
R-Value Work:
0.233 (Depositor), 0.230 (DCC)
R-Value Observed:
0.235 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Crystal Structure of UDP-glucose Pyrophosphorylase of Homo sapiens

Zheng, X., Yu, Q.

To be published.

Macromolecule Content

Total Structure Weight: 236.74 kDa
Atom Count: 13,580
Modeled Residue Count: 1,819
Deposited Residue Count: 2,112
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
UTP--glucose-1-phosphate uridylyltransferase	A, B, C, D	528	Homo sapiens	Mutation(s): 0 Gene Names: UGP2, UGP1 EC: 2.7.7.9
UniProt & NIH Common Fund Data Resources
Find proteins for Q16851 (Homo sapiens) Explore Q16851 Go to UniProtKB: Q16851
PHAROS: Q16851 GTEx: ENSG00000169764
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q16851
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.57 Å
R-Value Free: 0.286 (Depositor), 0.290 (DCC)
R-Value Work: 0.233 (Depositor), 0.230 (DCC)
R-Value Observed: 0.235 (Depositor)

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 140.266	α = 90
b = 140.266	β = 90
c = 315.284	γ = 120

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data collection
HKL-2000	data reduction
PHASER	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2012-03-21

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2012-03-21
Type: Initial release
Version 1.1: 2017-11-08
Changes: Refinement description
Version 1.2: 2023-09-13
Changes: Data collection, Database references, Refinement description

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.