8TF7

Apo structure of protein crystal of Tri17

PDB DOI: https://doi.org/10.2210/pdb8TF7/pdb

Classification: LIGASE
Organism(s): Streptomyces tsukubensis
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2023-07-09 Released: 2024-07-10
Deposition Author(s): Zhai, R., Zhang, W.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.45 Å
R-Value Free: 0.261
R-Value Work: 0.216
R-Value Observed: 0.218

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

De novo biosynthesis of azide by a promiscuous N-nitrosylase

Del Rio Flores, A., Zhai, R., Zhang, W.

To be published.

Macromolecule Content

Total Structure Weight: 123.76 kDa
Atom Count: 8,239
Modelled Residue Count: 1,033
Deposited Residue Count: 1,130
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
AMP-binding protein	A, B	565	Streptomyces tsukubensis	Mutation(s): 0 Gene Names: B7R87_11280
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.45 Å
R-Value Free: 0.261
R-Value Work: 0.216
R-Value Observed: 0.218
Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 105.992	α = 90
b = 105.992	β = 90
c = 235.824	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Blu-Ice	data collection
XDS	data reduction
XDS	data scaling
PHENIX	phasing

Structure Validation

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Entry History & Funding Information

Deposition Data

Released Date: 2024-07-10

Deposition Author(s):

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R01GM136758

Revision History (Full details and data files)

Version 1.0: 2024-07-10
Type: Initial release

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 R01GM133198.