4PUP | pdb_00004pup

2.75 Angstrom resolution crystal structure of uncharacterized protein from Burkholderia cenocepacia J2315

PDB DOI: https://doi.org/10.2210/pdb4PUP/pdb

Classification: UNKNOWN FUNCTION
Organism(s): Burkholderia cenocepacia J2315
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2014-03-13 Released: 2014-04-16
Deposition Author(s): Halavaty, A.S., Filippova, E.V., Wawrzak, Z., Kiryukhina, O., Minasov, G., Jedrzejczak, R., Shuvalova, L., Joachimiak, A., Anderson, W.F., Midwest Center for Structural Genomics (MCSG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.75 Å
R-Value Free:
0.255 (Depositor), 0.254 (DCC)
R-Value Work:
0.224 (Depositor), 0.232 (DCC)
R-Value Observed:
0.226 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 4PUP

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

Literature

2.75 Angstrom resolution crystal structure of uncharacterized protein from Burkholderia cenocepacia J2315

Halavaty, A.S., Filippova, E.V., Wawrzak, Z., Kiryukhina, O., Minasov, G., Jedrzejczak, R., Shuvalova, L., Joachimiak, A., Anderson, W.F., Midwest Center for Structural Genomics (MCSG)

To be published.

Macromolecule Content

Total Structure Weight: 42.72 kDa
Atom Count: 2,580
Modeled Residue Count: 340
Deposited Residue Count: 393
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Uncharacterized protein	A, B, C	131	Burkholderia cenocepacia J2315	Mutation(s): 0 Gene Names: BCAM1129
UniProt
Find proteins for B4EGA9 (Burkholderia cenocepacia (strain ATCC BAA-245 / DSM 16553 / LMG 16656 / NCTC 13227 / J2315 / CF5610)) Explore B4EGA9 Go to UniProtKB: B4EGA9
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	B4EGA9
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: 2.75 Å
R-Value Free: 0.255 (Depositor), 0.254 (DCC)
R-Value Work: 0.224 (Depositor), 0.232 (DCC)
R-Value Observed: 0.226 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.785	α = 90
b = 88.051	β = 108.34
c = 79.375	γ = 90

Software Package:

Software Name	Purpose
Blu-Ice	data collection
PHENIX	model building
REFMAC	refinement
HKL-3000	data reduction
HKL-3000	data scaling
PHENIX	phasing

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2014-04-16

Deposition Author(s):

Filippova, E.V.

Jedrzejczak, R.

Midwest Center for Structural Genomics (MCSG)

Revision History (Full details and data files)

Version 1.0: 2014-04-16
Type: Initial release
Version 1.1: 2017-11-22
Changes: Refinement description
Version 1.2: 2024-11-20
Changes: Data collection, Database references, Derived calculations, Refinement description, 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.