5KK1 | pdb_00005kk1

Structure of pNOB8 AspA-DNA complex.

PDB DOI: https://doi.org/10.2210/pdb5KK1/pdb
NAKB: 5KK1

Classification: TRANSCRIPTION/DNA
Organism(s): Sulfolobus sp. NOB8H2, synthetic construct
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2016-06-20 Released: 2016-07-06
Deposition Author(s): Schumacher, M.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.38 Å
R-Value Free:
0.245 (Depositor), 0.231 (DCC)
R-Value Work:
0.216 (Depositor)
R-Value Observed:
0.219 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 5KK1

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

Literature

to be published

Schumacher, M.

To be published.

Macromolecule Content

Total Structure Weight: 82.64 kDa
Atom Count: 5,692
Modeled Residue Count: 607
Deposited Residue Count: 614
Unique protein chains: 1
Unique nucleic acid chains: 2

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
AspA	A [auth C] B [auth D] C [auth A] D [auth B] G [auth E] A [auth C], B [auth D], C [auth A], D [auth B], G [auth E], H [auth F]	92	Sulfolobus sp. NOB8H2	Mutation(s): 0
UniProt
Find proteins for A0ACD6B9E5 (Sulfolobus sp. NOB8H2) Explore A0ACD6B9E5 Go to UniProtKB: A0ACD6B9E5
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0ACD6B9E5
Sequence Annotations Expand
Reference Sequence

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(by identity cutoff)

Molecule	Chains	Length	Organism	Image
Entity ID: 2
DNA (31-MER)	E [auth P]	31	synthetic construct
Sequence Annotations Expand
Reference Sequence

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(by identity cutoff)

Molecule	Chains	Length	Organism	Image
Entity ID: 3
DNA (31-MER)	F [auth N]	31	synthetic construct
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.38 Å
R-Value Free: 0.245 (Depositor), 0.231 (DCC)
R-Value Work: 0.216 (Depositor)
R-Value Observed: 0.219 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 148.516	α = 90
b = 55.927	β = 109.53
c = 99.964	γ = 90

Software Package:

Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
MOLREP	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction

Structure Validation

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Entry History

Deposition Data

Released Date: 2016-07-06

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2016-07-06
Type: Initial release
Version 1.1: 2023-09-27
Changes: Data collection, Database references, Derived calculations, 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.