3BHP | pdb_00003bhp

Crystal structure of UPF0291 protein ynzC from Bacillus subtilis at resolution 2.0 A. Northeast Structural Genomics Consortium target SR384

PDB DOI: https://doi.org/10.2210/pdb3BHP/pdb

Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
Organism(s): Bacillus subtilis
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2007-11-28 Released: 2007-12-11
Deposition Author(s): Kuzin, A.P., Su, M., Seetharaman, J., Janjua, H., Cunningham, K., Maglaqui, M., Owens, L.A., Zhao, L., Xiao, R., Baran, M.C., Acton, T.B., Rost, B., Montelione, G.T., Hunt, J.F., Tong, L., Northeast Structural Genomics Consortium (NESG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.01 Å
R-Value Free:
0.262 (Depositor), 0.266 (DCC)
R-Value Work:
0.229 (Depositor), 0.234 (DCC)
R-Value Observed:
0.229 (Depositor)

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Crystal structure of the UPF0291 protein ynzC from Bacillus subtilis at the resolution 2.0 A.

Kuzin, A.P., Su, M., Seetharaman, J., Janjua, H., Cunningham, K., Maglaqui, M., Owens, L.A., Zhao, L., Xiao, R., Baran, M.C., Acton, T.B., Rost, B., Montelione, G.T., Hunt, J.F., Tong, L.

To be published.

Macromolecule Content

Total Structure Weight: 21.08 kDa
Atom Count: 1,407
Modeled Residue Count: 154
Deposited Residue Count: 180
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
UPF0291 protein ynzC	A, B, C	60	Bacillus subtilis	Mutation(s): 0 Gene Names: ynzC, BSU17880
UniProt
Find proteins for O31818 (Bacillus subtilis (strain 168)) Explore O31818 Go to UniProtKB: O31818
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O31818
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: 2.01 Å
R-Value Free: 0.262 (Depositor), 0.266 (DCC)
R-Value Work: 0.229 (Depositor), 0.234 (DCC)
R-Value Observed: 0.229 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 65.279	α = 90
b = 38.46	β = 107.95
c = 86.785	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
ADSC	data collection
DENZO	data reduction
SCALA	data scaling
SOLVE	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2007-12-11

Deposition Author(s):

Northeast Structural Genomics Consortium (NESG)

Revision History (Full details and data files)

Version 1.0: 2007-12-11
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2024-11-20
Changes: Data collection, Database references, Derived calculations, Structure summary