2DUM | pdb_00002dum

Crystal structure of hypothetical protein, PH0823

PDB DOI: https://doi.org/10.2210/pdb2DUM/pdb

Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
Organism(s): Pyrococcus horikoshii OT3
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2006-07-24 Released: 2007-01-24
Deposition Author(s): Hosaka, T., Kishishita, S., Murayama, K., Shirouzu, M., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.75 Å
R-Value Free:
0.279 (Depositor), 0.219 (DCC)
R-Value Work:
0.216 (Depositor), 0.208 (DCC)
R-Value Observed:
0.219 (Depositor)

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

Literature

Crystal structure of hypothetical protein, PH0823

Hosaka, T., Kishishita, S., Murayama, K., Shirouzu, M., Yokoyama, S.

To be published.

Macromolecule Content

Total Structure Weight: 78.74 kDa
Atom Count: 4,687
Modeled Residue Count: 569
Deposited Residue Count: 680
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hypothetical protein PH0823	A, B, C, D	170	Pyrococcus horikoshii OT3	Mutation(s): 0
UniProt
Find proteins for O58553 (Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)) Explore O58553 Go to UniProtKB: O58553
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O58553
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.75 Å
R-Value Free: 0.279 (Depositor), 0.219 (DCC)
R-Value Work: 0.216 (Depositor), 0.208 (DCC)
R-Value Observed: 0.219 (Depositor)

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 120.786	α = 90
b = 120.786	β = 90
c = 127.098	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
SOLVE	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2007-01-24

Deposition Author(s):

RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History (Full details and data files)

Version 1.0: 2007-01-24
Type: Initial release
Version 1.1: 2008-04-30
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Source and taxonomy, Version format compliance
Version 1.3: 2024-03-13
Changes: Data collection, Database references

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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.