3OOP | pdb_00003oop

The structure of a protein with unknown function from Listeria innocua Clip11262

PDB DOI: https://doi.org/10.2210/pdb3OOP/pdb

Classification: structural genomics, unknown function
Organism(s): Listeria innocua Clip11262
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2010-08-31 Released: 2010-09-22
Deposition Author(s): Fan, Y., Li, H., Zhou, Y., Gu, M., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.78 Å
R-Value Free:
0.236 (Depositor), 0.235 (DCC)
R-Value Work:
0.210 (Depositor), 0.210 (DCC)
R-Value Observed:
0.212 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 3OOP

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

Literature

The structure of a protein with unknown function from Listeria innocua Clip11262

Fan, Y., Li, H., Zhou, Y., Gu, M., Joachimiak, A.

To be published.

Macromolecule Content

Total Structure Weight: 16.62 kDa
Atom Count: 1,319
Modeled Residue Count: 139
Deposited Residue Count: 143
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Lin2960 protein	A	143	Listeria innocua Clip11262	Mutation(s): 0 Gene Names: lin2960
UniProt
Find proteins for Q926T1 (Listeria innocua serovar 6a (strain ATCC BAA-680 / CLIP 11262)) Explore Q926T1 Go to UniProtKB: Q926T1
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q926T1
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: 1.78 Å
R-Value Free: 0.236 (Depositor), 0.235 (DCC)
R-Value Work: 0.210 (Depositor), 0.210 (DCC)
R-Value Observed: 0.212 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.687	α = 90
b = 77.834	β = 113.36
c = 33.065	γ = 90

Software Package:

Software Name	Purpose
SBC-Collect	data collection
SHELXD	phasing
MLPHARE	phasing
ARP	model building
WARP	model building
HKL-3000	phasing
REFMAC	refinement
HKL-3000	data reduction
HKL-3000	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2010-09-22

Deposition Author(s):

Midwest Center for Structural Genomics (MCSG)

Revision History (Full details and data files)

Version 1.0: 2010-09-22
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2017-11-08
Changes: Refinement description
Version 1.3: 2024-11-27
Changes: Data collection, Database references, Derived calculations, 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.