2GUK | pdb_00002guk

Crystal Structure of the Conserved Protein of Unknown Function from Porphyromonas gingivalis

PDB DOI: https://doi.org/10.2210/pdb2GUK/pdb

Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
Organism(s): Porphyromonas gingivalis W83
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2006-05-01 Released: 2006-05-30
Deposition Author(s): Kim, Y., Quartey, P., Moy, S., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.91 Å
R-Value Free:
0.281 (Depositor), 0.277 (DCC)
R-Value Work:
0.233 (Depositor), 0.231 (DCC)
R-Value Observed:
0.237 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 2GUK

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

Literature

Crystal Structure of the Conserved Hypothetical Protein from Porphyromonas gingivalis

Kim, Y., Quartey, P., Moy, S., Joachimiak, A.

To be published.

Macromolecule Content

Total Structure Weight: 28.39 kDa
Atom Count: 2,042
Modeled Residue Count: 223
Deposited Residue Count: 240
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
hypothetical protein PG1857	A, B	120	Porphyromonas gingivalis W83	Mutation(s): 5 Gene Names: PG1587, GeneID:2551814
UniProt
Find proteins for Q7MTT4 (Porphyromonas gingivalis (strain ATCC BAA-308 / W83)) Explore Q7MTT4 Go to UniProtKB: Q7MTT4
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q7MTT4
Sequence Annotations Expand
Reference Sequence

Small Molecules

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

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.91 Å
R-Value Free: 0.281 (Depositor), 0.277 (DCC)
R-Value Work: 0.233 (Depositor), 0.231 (DCC)
R-Value Observed: 0.237 (Depositor)

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 50.028	α = 90
b = 50.028	β = 90
c = 186.912	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
SBC-Collect	data collection
HKL-2000	data reduction
HKL-2000	data scaling
HKL-3000	phasing
MLPHARE	phasing
RESOLVE	phasing
SHELXE	model building
SHELXD	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2006-05-30

Deposition Author(s):

Midwest Center for Structural Genomics (MCSG)

Revision History (Full details and data files)

Version 1.0: 2006-05-30
Type: Initial release
Version 1.1: 2008-05-01
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Advisory, Source and taxonomy, Version format compliance
Version 1.3: 2024-10-30
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.