5CY1

Tn3 resolvase - site III complex crystal form I

PDB DOI: https://doi.org/10.2210/pdb5CY1/pdb
NAKB: 5CY1

Classification: HYDROLASE, LIGASE/DNA
Organism(s): Escherichia coli
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2015-07-30 Released: 2017-01-11
Deposition Author(s): Montano, S.P., Rice, P.A.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.40 Å
R-Value Free: 0.292
R-Value Work: 0.248
R-Value Observed: 0.251

wwPDB Validation 3D Report Full Report

This is version 1.3 of the entry. See complete history.

Literature

Tn3 resolvase - accessory site complexes: DNA geometry dictates complex geometry

Montano, S.P., Rice, P.A.

To be published.

Macromolecule Content

Total Structure Weight: 61.55 kDa
Atom Count: 4,072
Modelled Residue Count: 423
Deposited Residue Count: 444
Unique protein chains: 1
Unique nucleic acid chains: 2

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transposon Tn3 resolvase	A, B	192	Escherichia coli	Mutation(s): 0 Gene Names: tnpR
UniProt
Find proteins for P0ADI2 (Escherichia coli) Explore P0ADI2 Go to UniProtKB: P0ADI2
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P0ADI2
Sequence Annotations Expand
Reference Sequence

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(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Length	Organism	Image
DNA (30-MER)	C	30	N/A
Sequence Annotations Expand
Reference Sequence

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(by identity cutoff) | 3D Structure

Entity ID: 3
Molecule	Chains	Length	Organism	Image
DNA (30-MER)	D	30	N/A
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.40 Å
R-Value Free: 0.292
R-Value Work: 0.248
R-Value Observed: 0.251
Space Group: P 4₃ 2₁ 2
Diffraction Data: https://doi.org/10.15785/SBGRID/682

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 77.313	α = 90
b = 77.313	β = 90
c = 272.277	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
SHELXDE	phasing
SOLVE	phasing
Coot	model building

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2017-01-11

Deposition Author(s):

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R01GM086826

Revision History (Full details and data files)

Version 1.0: 2017-01-11
Type: Initial release
Version 1.1: 2017-09-20
Changes: Author supporting evidence
Version 1.2: 2019-12-25
Changes: Author supporting evidence
Version 1.3: 2024-03-06
Changes: Data collection, Database references

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.