2P7N | pdb_00002p7n

Crystal structure of the Pathogenicity island 1 effector protein from Chromobacterium violaceum. Northeast Structural Genomics Consortium (NESGC) target CvR69.

PDB DOI: https://doi.org/10.2210/pdb2P7N/pdb

Classification: CELL INVASION
Organism(s): Chromobacterium violaceum
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2007-03-20 Released: 2007-04-03
Deposition Author(s): Benach, J., Abashidze, M., Seetharaman, J., Zhao, L., Janjua, H., Cunningham, K., Ma, L.C., Xiao, R., Liu, J., 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: 2.80 Å
R-Value Free:
0.298 (Depositor), 0.297 (DCC)
R-Value Work:
0.248 (Depositor), 0.252 (DCC)

wwPDB Validation 3D Report Full Report

This is version 1.4 of the entry. See complete history.

Literature

Crystal structure of the Pathogenicity island 1 effector protein from Chromobacterium violaceum. Northeast Structural Genomics Consortium (NESGC) target CvR69.

Benach, J., Abashidze, M., Seetharaman, J., Zhao, L., Janjua, H., Cunningham, K., Ma, L.C., Xiao, R., Liu, J., Baran, M.C., Acton, T.B., Rost, B., Montelione, G.T., Hunt, J.F., Tong, L., Northeast Structural Genomics Consortium (NESG)

To be published.

Macromolecule Content

Total Structure Weight: 43.76 kDa
Atom Count: 2,529
Modeled Residue Count: 335
Deposited Residue Count: 407
Unique protein chains: 1

Macromolecules

Find similar proteins by:

| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Pathogenicity island 1 effector protein	A	407	Chromobacterium violaceum	Mutation(s): 9 Gene Names: sipD, CV_2617
UniProt
Find proteins for Q7NUT0 (Chromobacterium violaceum (strain ATCC 12472 / DSM 30191 / JCM 1249 / CCUG 213 / NBRC 12614 / NCIMB 9131 / NCTC 9757 / MK)) Explore Q7NUT0 Go to UniProtKB: Q7NUT0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q7NUT0
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: 2.80 Å
R-Value Free: 0.298 (Depositor), 0.297 (DCC)
R-Value Work: 0.248 (Depositor), 0.252 (DCC)

Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 55.026	α = 90
b = 66.981	β = 90
c = 194.782	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
CNS	refinement
PDB_EXTRACT	data extraction
ADSC	data collection
HKL-2000	data reduction
SnB	phasing

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2007-04-03

Deposition Author(s):

Northeast Structural Genomics Consortium (NESG)

Revision History (Full details and data files)

Version 1.0: 2007-04-03
Type: Initial release
Version 1.1: 2008-05-01
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2017-10-18
Changes: Refinement description
Version 1.4: 2024-11-13
Changes: Data collection, Database references, Derived calculations, Structure summary