1IXL | pdb_00001ixl

Crystal structure of uncharacterized protein PH1136 from Pyrococcus horikoshii

PDB DOI: https://doi.org/10.2210/pdb1IXL/pdb

Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
Organism(s): Pyrococcus horikoshii
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2002-06-27 Released: 2003-09-09
Deposition Author(s): Tajika, Y., Sakai, N., Tanaka, Y., Yao, M., Watanabe, N., Tanaka, I.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.94 Å
R-Value Free:
0.239 (Depositor)
R-Value Work:
0.199 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 1IXL

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

Literature

Crystal structure of conserved protein PH1136 from Pyrococcus horikoshii.

Tajika, Y., Sakai, N., Tanaka, Y., Yao, M., Watanabe, N., Tanaka, I.

(2004) Proteins 55: 210-213

PubMed: 14997554 Search on PubMed
DOI: https://doi.org/10.1002/prot.10644
Primary Citation Related Structures:
1IXL

Organizational Affiliation

Division of Biological Sciences, Graduate School of Science, Hokkaido University, Sapporo, Japan.

Macromolecule Content

Total Structure Weight: 14.89 kDa
Atom Count: 1,116
Modeled Residue Count: 130
Deposited Residue Count: 131
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
hypothetical protein PH1136	A	131	Pyrococcus horikoshii	Mutation(s): 3
UniProt
Find proteins for O58863 (Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)) Explore O58863 Go to UniProtKB: O58863
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O58863
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE Query on MSE	A	L-PEPTIDE LINKING	C₅ H₁₁ N O₂ Se		MET

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.94 Å
R-Value Free: 0.239 (Depositor)
R-Value Work: 0.199 (Depositor)

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 57.5	α = 90
b = 57.5	β = 90
c = 79.5	γ = 120

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SOLVE	phasing
SHARP	phasing
WARP	model building
CNS	refinement
ARP/wARP	model building

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2003-09-09

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2003-09-09
Type: Initial release
Version 1.1: 2008-04-27
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Derived calculations, Version format compliance
Version 1.3: 2023-12-27
Changes: Data collection, Database references, Derived calculations
Version 1.4: 2024-10-23
Changes: Structure summary

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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.