3LD7 | pdb_00003ld7

Crystal structure of the Lin0431 protein from Listeria innocua, Northeast Structural Genomics Consortium Target LkR112

PDB DOI: https://doi.org/10.2210/pdb3LD7/pdb

Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
Organism(s): Listeria innocua
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2010-01-12 Released: 2010-01-26
Deposition Author(s): Vorobiev, S., Chen, Y., Lee, D., Patel, D.J., Ciccosanti, C., Sahdev, S., Acton, T.B., Xiao, R., Everett, J.K., Montelione, G.T., Hunt, J.F., Tong, L., Northeast Structural Genomics Consortium (NESG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.55 Å
R-Value Free:
0.194 (Depositor), 0.191 (DCC)
R-Value Work:
0.165 (Depositor), 0.159 (DCC)
R-Value Observed:
0.167 (Depositor)

wwPDB Validation 3D Report Full Report

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

Literature

Crystal structure of the Lin0431 protein from Listeria innocua

Vorobiev, S., Chen, Y., Lee, D., Patel, D.J., Ciccosanti, C., Sahdev, S., Acton, T.B., Xiao, R., Everett, J.K., Montelione, G.T., Hunt, J.F., Tong, L.

To be published.

Macromolecule Content

Total Structure Weight: 34.61 kDa
Atom Count: 2,330
Modeled Residue Count: 261
Deposited Residue Count: 303
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Lin0431 protein	A, B, C	101	Listeria innocua	Mutation(s): 0 Gene Names: lin0431
UniProt
Find proteins for Q92EM7 (Listeria innocua serovar 6a (strain ATCC BAA-680 / CLIP 11262)) Explore Q92EM7 Go to UniProtKB: Q92EM7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q92EM7
Sequence Annotations Expand
Reference Sequence

Small Molecules

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

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.55 Å
R-Value Free: 0.194 (Depositor), 0.191 (DCC)
R-Value Work: 0.165 (Depositor), 0.159 (DCC)
R-Value Observed: 0.167 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 82.36	α = 90
b = 54.782	β = 111.6
c = 71.733	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
PHENIX	model building
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	phasing

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2010-01-26

Deposition Author(s):

Northeast Structural Genomics Consortium (NESG)

Revision History (Full details and data files)

Version 1.0: 2010-01-26
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2017-10-25
Changes: Author supporting evidence, Refinement description
Version 1.3: 2024-11-20
Changes: Data collection, Database references, Derived calculations, Structure summary