6PNT | pdb_00006pnt

Structural Characterization of UDP-glycosyltransferase from Tetranychus Urticae

PDB DOI: https://doi.org/10.2210/pdb6PNT/pdb

Classification: TRANSFERASE
Organism(s): Tetranychus urticae
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2019-07-03 Released: 2020-07-08
Deposition Author(s): Daneshian, L., Dermauw, W., Wybouw, N., Van Leeuwen, T., Chruszcz, M.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.85 Å
R-Value Free:
0.208 (Depositor), 0.218 (DCC)
R-Value Work:
0.168 (Depositor), 0.177 (DCC)
R-Value Observed:
0.170 (Depositor)

Starting Model: experimental
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This is version 1.1 of the entry. See complete history.

Literature

Structural Characterization of UDP-glycosyltransferase from Tetranychus Urticae

Daneshian, L., Dermauw, W., Wybouw, N., Van Leeuwen, T., Chruszcz, M.

To be published.

Macromolecule Content

Total Structure Weight: 48.95 kDa
Atom Count: 3,736
Modeled Residue Count: 427
Deposited Residue Count: 437
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
UDP-glycosyltransferase 202A2	A	437	Tetranychus urticae	Mutation(s): 0 Gene Names: 107367435, UGT202A2
UniProt
Find proteins for T1KUK4 (Tetranychus urticae) Explore T1KUK4 Go to UniProtKB: T1KUK4
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	T1KUK4
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.85 Å
R-Value Free: 0.208 (Depositor), 0.218 (DCC)
R-Value Work: 0.168 (Depositor), 0.177 (DCC)
R-Value Observed: 0.170 (Depositor)

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 77.481	α = 90
b = 77.481	β = 90
c = 130.953	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-3000	data reduction
HKL-3000	data scaling
MOLREP	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2020-07-08

Deposition Author(s):

Van Leeuwen, T.

Revision History (Full details and data files)

Version 1.0: 2020-07-08
Type: Initial release
Version 1.1: 2023-10-11
Changes: Data collection, Database references, 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.