3ME0 | pdb_00003me0

Structure of the E. coli chaperone PAPD in complex with the pilin domain of the PapGII adhesin

PDB DOI: https://doi.org/10.2210/pdb3ME0/pdb

Classification: CHAPERONE
Organism(s): Escherichia coli
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2010-03-31 Released: 2011-04-27
Deposition Author(s): Ford, B.A., Elam, J.S., Dodson, K.W., Pinkner, J.S., Hultgren, S.J.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.03 Å
R-Value Free:
0.190 (Depositor), 0.200 (DCC)
R-Value Work:
0.182 (Depositor), 0.192 (DCC)
R-Value Observed:
0.182 (Depositor)

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

Literature

Structure of the E. Coli Chaperone PapD in Complex with the Pilin Domain of the PapGII Adhesin

Ford, B.A., Verger, D., Elam, J.S., Dodson, K.W., Pinkner, J.S., Waksman, G., Hultgren, S.J.

To be published.

Macromolecule Content

Total Structure Weight: 38.58 kDa
Atom Count: 3,010
Modeled Residue Count: 344
Deposited Residue Count: 346
Unique protein chains: 2

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Chaperone protein papD	A	218	Escherichia coli	Mutation(s): 0 Gene Names: papD
UniProt
Find proteins for P15319 (Escherichia coli) Explore P15319 Go to UniProtKB: P15319
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P15319
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
PapG protein	B	128	Escherichia coli	Mutation(s): 0 Gene Names: c3583, papG, PAPGII
UniProt
Find proteins for Q47450 (Escherichia coli) Explore Q47450 Go to UniProtKB: Q47450
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q47450
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: 2.03 Å
R-Value Free: 0.190 (Depositor), 0.200 (DCC)
R-Value Work: 0.182 (Depositor), 0.192 (DCC)
R-Value Observed: 0.182 (Depositor)

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 103.665	α = 90
b = 65.845	β = 90
c = 56.525	γ = 90

Software Package:

Software Name	Purpose
PHASER	phasing
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2011-04-27

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2011-04-27
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2024-11-06
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.