5CY2 | pdb_00005cy2

Tn3 resolvase - site III complex crystal form II

PDB DOI: https://doi.org/10.2210/pdb5CY2/pdb
NAKB: 5CY2

Classification: recombination/DNA
Organism(s): Escherichia coli
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2015-07-30 Released: 2017-01-11
Deposition Author(s): Montano, P.S., 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: 4.00 Å
R-Value Free:
0.250 (Depositor), 0.244 (DCC)
R-Value Work:
0.207 (Depositor), 0.211 (DCC)
R-Value Observed:
0.209 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 5CY2

This is version 1.4 of the entry. See complete history.

Literature

Structures of resolvase - accessory site complexes

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

To be published.

Macromolecule Content

Total Structure Weight: 119.38 kDa
Atom Count: 7,792
Modeled Residue Count: 821
Deposited Residue Count: 876
Unique protein chains: 1
Unique nucleic acid chains: 2

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transposon Tn3 resolvase	A, B, E, F	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% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P0ADI2
Sequence Annotations Expand
Reference Sequence

Find similar nucleic acids by:

(by identity cutoff)

Molecule	Chains	Length	Organism	Image
Entity ID: 2
DNA (27-MER)	C, G	27	N/A
Sequence Annotations Expand
Reference Sequence

Find similar nucleic acids by:

(by identity cutoff)

Molecule	Chains	Length	Organism	Image
Entity ID: 3
DNA (27-MER)	D, H	27	N/A
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 4.00 Å
R-Value Free: 0.250 (Depositor), 0.244 (DCC)
R-Value Work: 0.207 (Depositor), 0.211 (DCC)
R-Value Observed: 0.209 (Depositor)

Diffraction Data:

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 144.9	α = 90
b = 151.92	β = 99.85
c = 106.14	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
MOLREP	phasing
PHASER	phasing

Structure Validation

View Full Validation Report

View more in-depth experimental data

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
Version 1.4: 2026-03-04
Changes: Refinement description, Structure summary

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

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.