5IM1 | pdb_00005im1

Tobacco 5-epi-aristolochene synthase without buffer molecule in the active site

PDB DOI: https://doi.org/10.2210/pdb5IM1/pdb

Classification: LYASE
Organism(s): Nicotiana tabacum
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2016-03-05 Released: 2017-03-08
Deposition Author(s): Koo, H.J., Louie, G.V., Xu, Y., Bowman, M., Noel, J.P.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.88 Å
R-Value Free:
0.195 (Depositor), 0.215 (DCC)
R-Value Work:
0.168 (Depositor)
R-Value Observed:
0.170 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Small-molecule buffer components can directly affect terpene-synthase activity by interacting with the substrate-binding site of the enzyme

Koo, H.J., Louie, G.V., Xu, Y., Bowman, M., Noel, J.P.

To be published.

Macromolecule Content

Total Structure Weight: 63.2 kDa
Atom Count: 4,723
Modeled Residue Count: 536
Deposited Residue Count: 550
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
5-epi-aristolochene synthase	A	550	Nicotiana tabacum	Mutation(s): 0 Gene Names: EAS3, EAS4 EC: 4.2.3.61 (PDB Primary Data), 4.2.3.226 (UniProt), 4.2.3.227 (UniProt)
UniProt
Find proteins for Q40577 (Nicotiana tabacum) Explore Q40577 Go to UniProtKB: Q40577
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q40577
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.88 Å
R-Value Free: 0.195 (Depositor), 0.215 (DCC)
R-Value Work: 0.168 (Depositor)
R-Value Observed: 0.170 (Depositor)

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 127.77	α = 90
b = 127.77	β = 90
c = 125.24	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
iMOSFLM	data reduction
SCALA	data scaling
PHENIX	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2017-03-08

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2017-03-08
Type: Initial release
Version 1.1: 2023-09-27
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.